@article {pmid31292285,
year = {2019},
author = {Valderas, MT and Bolea, J and Laguna, P and Bailon, R and Vallverdu, M},
title = {Mutual information between heart rate variability and respiration for emotion characterization.},
journal = {Physiological measurement},
volume = {},
number = {},
pages = {},
doi = {10.1088/1361-6579/ab310a},
pmid = {31292285},
issn = {1361-6579},
abstract = {Objective: Interest in emotion recognition has increased in recent years as a useful tool for diagnosing psycho-neural illnesses. In this study, the Auto-Mutual and the Cross-Mutual Information Function, AMIF and CMIF respectively, are used for human emotion recognition. Approach: The AMIF technique was applied to heart rate variability (HRV) signals to study complex interdependencies, and the CMIF technique was considered to quantify the complex coupling between HRV and respiratory signals. Both algorithms were adapted to short-term RR time series. Traditional band pass filtering was applied to the RR series at low frequency (LF) and high frequency (HF) bands, and a respiration-based filter bandwidth was also investigated (HFSCHF). Both the AMIF and the CMIF algorithms were calculated with regard to different time scales as specific complexity measures. The ability of the parameters derived from the AMIF and the CMIF to discriminate emotions was evaluated on a database of video-induced emotion elicitation. Five elicited states i.e. relax (neutral), joy (positive valence), as well as fear, sadness and anger (negative valences) were considered. Main results: The results revealed that the AMIF applied to the RR time series filtered in the HFSCHF band was able to discriminate between: relax and joy and fear, joy and each negative valence conditions and finally fear and sadness and anger, all with a statistical significance level p-value ≦ 0.05, sensitivity, specificity and accuracy higher than 70% and area under the receiver operating characteristic curve index AUC ≧ 0.70. Furthermore, the parameters derived from the AMIF and the CMIF allowed the low signal complexity presented during fear to be characterized in front of any of the studied elicited states. Significance: Based on these results, human emotion manifested in the HRV and respiratory signal responses could be characterized by means of the information-content complexity.&#13.},
}

@article {pmid31247436,
year = {2019},
author = {Colombo, N and Salerno, F and Martin, M and Malandrino, M and Giardino, M and Serra, E and Godone, D and Said-Pullicino, D and Fratianni, S and Paro, L and Tartari, G and Freppaz, M},
title = {Influence of permafrost, rock and ice glaciers on chemistry of high-elevation ponds (NW Italian Alps).},
journal = {The Science of the total environment},
volume = {685},
number = {},
pages = {886-901},
doi = {10.1016/j.scitotenv.2019.06.233},
pmid = {31247436},
issn = {1879-1026},
abstract = {Permafrost degradation, rock-glacier thawing, and glacier retreat are influencing surface water quality at high elevations. However, there is a lack of knowledge on the dominant geochemical reactions occurring in different cryospheric conditions and how these reactions change during the ice-free season. In the Col d'Olen area (LTER site, NW Italian Alps), four ponds with similar sizes, located in basins with different cryospheric features (glacier, permafrost, rock glacier, none of these), are present in a geographically limited area. All ponds were sampled weekly in 2015 and partially in 2014. Major ions, selected trace elements, and biotic parameters (dissolved organic carbon-DOC, fluorescence index-FI, and nitrate) are examined to evidence the effect of different cryospheric features on water characteristics. Where cryospheric conditions occur chemical weathering is more intensive, with strong seasonal increase of major ions. Sulphide oxidation dominates in glacier and permafrost lying on acid rocks, probably driven by enhanced weathering of freshly exposed rocks in subglacial environment and recently deglaciated areas, and active layer thickness increase. Differently, carbonation dominates for the rock glacier lying on ultramafic rocks. There, high Ni concentrations originate from dissolution of Mg-bearing rocks in the landform. In all settings, pH neutralisation occurs because of the presence of secondary carbonate lithology and ultramafic rocks. Nitrate highest concentrations and changes occur in cryospheric settings while DOC and FI do not show strong differences and seasonal variations. The establishment of more frequent monitoring for water quality in high-elevated surface waters is necessary to provide greater statistical power to detect changes on longer time scales.},
}

@article {pmid31148318,
year = {2019},
author = {Zhao, J and Malone, SL and Oberbauer, SF and Olivas, PC and Schedlbauer, JL and Staudhammer, CL and Starr, G},
title = {Intensified inundation shifts a freshwater wetland from a CO2 sink to a source.},
journal = {Global change biology},
volume = {},
number = {},
pages = {},
doi = {10.1111/gcb.14718},
pmid = {31148318},
issn = {1365-2486},
support = {07-SC-NICCR-1059//U.S. Department of Energy/ ; DBI-0620409//Florida Coastal Everglades Long Term Ecological Research Program (FCE-LTER)/ ; DEB-1237517//Florida Coastal Everglades Long Term Ecological Research Program (FCE-LTER)/ ; 1561139//National Science Foundation/ ; 1233006//National Science Foundation/ ; 1807533//National Science Foundation/ ; },
abstract = {Climate change has altered global precipitation patterns and has led to greater variation in hydrological conditions. Wetlands are important globally for their soil carbon storage. Given that wetland carbon processes are primarily driven by hydrology, a comprehensive understanding of the effect of inundation is needed. In this study, we evaluated the effect of water level (WL) and inundation duration (ID) on carbon dioxide (CO2) fluxes by analysing a 10-year (2008-2017) eddy covariance dataset from a seasonally inundated freshwater marl prairie in the Everglades National Park. Both gross primary production (GPP) and ecosystem respiration (ER) rates showed declines under inundation. While GPP rates decreased almost linearly as WL and ID increased, ER rates were less responsive to WL increase beyond 30 cm and extended inundation periods. The unequal responses between GPP and ER caused a weaker net ecosystem CO2 sink strength as inundation intensity increased. Eventually, the ecosystem tended to become a net CO2 source on a daily basis when either WL exceeded 46 cm or inundation lasted longer than 7 months. Particularly, with an extended period of high-WLs in 2016 (i.e., WL remained >40 cm for >9 months), the ecosystem became a CO2 source, as opposed to being a sink or neutral for CO2 in other years. Furthermore, the extreme inundation in 2016 was followed by a 4-month postinundation period with lower net ecosystem CO2 uptake compared to other years. Given that inundation plays a key role in controlling ecosystem CO2 balance, we suggest that a future with more intensive inundation caused by climate change or water management activities can weaken the CO2 sink strength of the Everglades freshwater marl prairies and similar wetlands globally, creating a positive feedback to climate change.},
}

@article {pmid31186334,
year = {2019},
author = {Roy Chowdhury, T and Lee, JY and Bottos, EM and Brislawn, CJ and White, RA and Bramer, LM and Brown, J and Zucker, JD and Kim, YM and Jumpponen, A and Rice, CW and Fansler, SJ and Metz, TO and McCue, LA and Callister, SJ and Song, HS and Jansson, JK},
title = {Metaphenomic Responses of a Native Prairie Soil Microbiome to Moisture Perturbations.},
journal = {mSystems},
volume = {4},
number = {4},
pages = {},
doi = {10.1128/mSystems.00061-19},
pmid = {31186334},
issn = {2379-5077},
abstract = {Climate change is causing shifts in precipitation patterns in the central grasslands of the United States, with largely unknown consequences on the collective physiological responses of the soil microbial community, i.e., the metaphenome. Here, we used an untargeted omics approach to determine the soil microbial community's metaphenomic response to soil moisture and to define specific metabolic signatures of the response. Specifically, we aimed to develop the technical approaches and metabolic mapping framework necessary for future systematic ecological studies. We collected soil from three locations at the Konza Long-Term Ecological Research (LTER) field station in Kansas, and the soils were incubated for 15 days under dry or wet conditions and compared to field-moist controls. The microbiome response to wetting or drying was determined by 16S rRNA amplicon sequencing, metatranscriptomics, and metabolomics, and the resulting shifts in taxa, gene expression, and metabolites were assessed. Soil drying resulted in significant shifts in both the composition and function of the soil microbiome. In contrast, there were few changes following wetting. The combined metabolic and metatranscriptomic data were used to generate reaction networks to determine the metaphenomic response to soil moisture transitions. Site location was a strong determinant of the response of the soil microbiome to moisture perturbations. However, some specific metabolic pathways changed consistently across sites, including an increase in pathways and metabolites for production of sugars and other osmolytes as a response to drying. Using this approach, we demonstrate that despite the high complexity of the soil habitat, it is possible to generate insight into the effect of environmental change on the soil microbiome and its physiology and functions, thus laying the groundwork for future, targeted studies.IMPORTANCE Climate change is predicted to result in increased drought extent and intensity in the highly productive, former tallgrass prairie region of the continental United States. These soils store large reserves of carbon. The decrease in soil moisture due to drought has largely unknown consequences on soil carbon cycling and other key biogeochemical cycles carried out by soil microbiomes. In this study, we found that soil drying had a significant impact on the structure and function of soil microbial communities, including shifts in expression of specific metabolic pathways, such as those leading toward production of osmoprotectant compounds. This study demonstrates the application of an untargeted multi-omics approach to decipher details of the soil microbial community's metaphenotypic response to environmental perturbations and should be applicable to studies of other complex microbial systems as well.},
}

@article {pmid31180158,
year = {2019},
author = {Petrie, MD and Peters, DPC and Burruss, ND and Ji, W and Savoy, HM},
title = {Differing climate and landscape effects on regional dryland vegetation responses during wet periods allude to future patterns.},
journal = {Global change biology},
volume = {},
number = {},
pages = {},
doi = {10.1111/gcb.14724},
pmid = {31180158},
issn = {1365-2486},
abstract = {Dryland vegetation is influenced by biotic and abiotic Land Surface Template (LST) conditions and precipitation (PPT), such that enhanced vegetation responses to periods of high PPT may be shaped by multiple factors. High PPT stochasticity in the Chihuahuan Desert suggests that enhanced responses across broad geographic areas are improbable. Yet, multiyear wet periods may homogenize PPT patterns, interact with favorable LST conditions, and in this way produce enhanced responses. In contrast, periods containing multiple extreme high PPT pulse events could overwhelm LST influences, suggesting a divergence in how climate change could influence vegetation by altering PPT periods. Using a suite of stacked remote sensing and LST datasets from 1980s-present, we evaluated PPT-LST-Vegetation relationships across this region and tested the hypothesis that enhanced vegetation responses would be initiated by high PPT, but that LST favorability would underlie response magnitude, producing geographic differences between wet periods. We focused on two multiyear wet periods; one of above-average, regionally-distributed PPT (1990-1993) and a second with locally-distributed PPT that contained two extreme wet pulses (2006-2008). 1990-1993 had regional vegetation responses that were correlated to soil properties. 2006-2008 had higher vegetation responses over a smaller area that were correlated to PPT and secondarily to soil properties. Within the overlapping PPT area of both periods, enhanced vegetation responses occurred in similar locations. Thus, LST favorability underlied the geographic pattern of vegetation responses, whereas PPT initiated the response and controlled response area and maximum response magnitude. Multiyear periods provide foresight on the differing impacts that directional changes in mean climate and changes in extreme PPT pulses could have in drylands. Our study shows that future vegetation responses during wet periods will be tied to LST favorability, yet will be shaped by the pattern and magnitude of multiyear PPT events. This article is protected by copyright. All rights reserved.},
}

@article {pmid31178628,
year = {2019},
author = {Ilyashuk, EA and Heiri, O and Ilyashuk, BP and Koinig, KA and Psenner, R},
title = {The Little Ice Age signature in a 700-year high-resolution chironomid record of summer temperatures in the Central Eastern Alps.},
journal = {Climate dynamics},
volume = {52},
number = {11},
pages = {6953-6967},
doi = {10.1007/s00382-018-4555-y},
pmid = {31178628},
issn = {0930-7575},
abstract = {Despite the fact that the Little Ice Age (LIA) is well documented for the European Alps, substantial uncertainties concerning the regional spatio-temporal patterns of temperature changes associated with the LIA still exist, especially for their eastern sector. Here we present a high-resolution (4-10 years) 700-year long mean July air temperature reconstruction based on subfossil chironomid assemblages from a remote lake in the Austrian Eastern Alps to gain further insights into the LIA climatic deterioration in the region. The record provides evidence for a prolonged period of predominantly cooler conditions during AD 1530-1920, broadly equivalent to the climatically defined LIA in Europe. The main LIA phase appears to have consisted of two cold time intervals divided by slightly warmer episodes in the second half of the 1600s. The most severe cooling occurred during the eighteenth century. The LIA temperature minimum about 1.5 °C below the long-term mean recorded in the mid-1780 s coincides with the strongest volcanic signal found in the Greenland ice cores over the past 700 years and may be, at least in part, a manifestation of cooling that followed the long-lasting AD 1783-1784 Laki eruption. A continuous warming trend is evident since ca AD 1890 (1.1 °C in 120 years). The chironomid-inferred temperatures show a clear correlation with the instrumental data and reveal a close agreement with paleotemperature evidence from regional high-elevation tree-ring chronologies. A considerable amount of the variability in the temperature record may be linked to changes in the North Atlantic Oscillation.},
}

@article {pmid31134712,
year = {2019},
author = {Zettlemoyer, MA and Schultheis, EH and Lau, JA},
title = {Phenology in a warming world: differences between native and non-native plant species.},
journal = {Ecology letters},
volume = {},
number = {},
pages = {},
doi = {10.1111/ele.13290},
pmid = {31134712},
issn = {1461-0248},
support = {//Michigan State University AgBioResearch/ ; 2124//Kellogg Biological Station/ ; DEB 1637653//NSF Long-term Ecological Research Program/ ; },
abstract = {Phenology is a harbinger of climate change, with many species advancing flowering in response to rising temperatures. However, there is tremendous variation among species in phenological response to warming, and any phenological differences between native and non-native species may influence invasion outcomes under global warming. We simulated global warming in the field and found that non-native species flowered earlier and were more phenologically plastic to temperature than natives, which did not accelerate flowering in response to warming. Non-native species' flowering also became more synchronous with other community members under warming. Earlier flowering was associated with greater geographic spread of non-native species, implicating phenology as a potential trait associated with the successful establishment of non-native species across large geographic regions. Such phenological differences in both timing and plasticity between native and non-natives are hypothesised to promote invasion success and population persistence, potentially benefiting non-native over native species under climate change.},
}

@article {pmid31074933,
year = {2019},
author = {Borer, ET and Lind, EM and Firn, J and Seabloom, EW and Anderson, TM and Bakker, ES and Biederman, L and La Pierre, KJ and MacDougall, AS and Moore, JL and Risch, AC and Schutz, M and Stevens, CJ},
title = {More salt, please: global patterns, responses and impacts of foliar sodium in grasslands.},
journal = {Ecology letters},
volume = {},
number = {},
pages = {},
doi = {10.1111/ele.13270},
pmid = {31074933},
issn = {1461-0248},
support = {NSF-DEB-1042132//National Science Foundation Research Coordination Network/ ; NSF-DEB-1234162//Long Term Ecological Research/ ; DG-0001-13//Institute on the Environment/ ; },
abstract = {Sodium is unique among abundant elemental nutrients, because most plant species do not require it for growth or development, whereas animals physiologically require sodium. Foliar sodium influences consumption rates by animals and can structure herbivores across landscapes. We quantified foliar sodium in 201 locally abundant, herbaceous species representing 32 families and, at 26 sites on four continents, experimentally manipulated vertebrate herbivores and elemental nutrients to determine their effect on foliar sodium. Foliar sodium varied taxonomically and geographically, spanning five orders of magnitude. Site-level foliar sodium increased most strongly with site aridity and soil sodium; nutrient addition weakened the relationship between aridity and mean foliar sodium. Within sites, high sodium plants declined in abundance with fertilisation, whereas low sodium plants increased. Herbivory provided an explanation: herbivores selectively reduced high nutrient, high sodium plants. Thus, interactions among climate, nutrients and the resulting nutritional value for herbivores determine foliar sodium biogeography in herbaceous-dominated systems.},
}

@article {pmid31071155,
year = {2019},
author = {Hofman, MPG and Hayward, MW and Heim, M and Marchand, P and Rolandsen, CM and Mattisson, J and Urbano, F and Heurich, M and Mysterud, A and Melzheimer, J and Morellet, N and Voigt, U and Allen, BL and Gehr, B and Rouco, C and Ullmann, W and Holand, Ø and Jørgensen, NH and Steinheim, G and Cagnacci, F and Kroeschel, M and Kaczensky, P and Buuveibaatar, B and Payne, JC and Palmegiani, I and Jerina, K and Kjellander, P and Johansson, Ö and LaPoint, S and Bayrakcismith, R and Linnell, JDC and Zaccaroni, M and Jorge, MLS and Oshima, JEF and Songhurst, A and Fischer, C and Mc Bride, RT and Thompson, JJ and Streif, S and Sandfort, R and Bonenfant, C and Drouilly, M and Klapproth, M and Zinner, D and Yarnell, R and Stronza, A and Wilmott, L and Meisingset, E and Thaker, M and Vanak, AT and Nicoloso, S and Graeber, R and Said, S and Boudreau, MR and Devlin, A and Hoogesteijn, R and May-Junior, JA and Nifong, JC and Odden, J and Quigley, HB and Tortato, F and Parker, DM and Caso, A and Perrine, J and Tellaeche, C and Zieba, F and Zwijacz-Kozica, T and Appel, CL and Axsom, I and Bean, WT and Cristescu, B and Périquet, S and Teichman, KJ and Karpanty, S and Licoppe, A and Menges, V and Black, K and Scheppers, TL and Schai-Braun, SC and Azevedo, FC and Lemos, FG and Payne, A and Swanepoel, LH and Weckworth, BV and Berger, A and Bertassoni, A and McCulloch, G and Šustr, P and Athreya, V and Bockmuhl, D and Casaer, J and Ekori, A and Melovski, D and Richard-Hansen, C and van de Vyver, D and Reyna-Hurtado, R and Robardet, E and Selva, N and Sergiel, A and Farhadinia, MS and Sunde, P and Portas, R and Ambarli, H and Berzins, R and Kappeler, PM and Mann, GK and Pyritz, L and Bissett, C and Grant, T and Steinmetz, R and Swedell, L and Welch, RJ and Armenteras, D and Bidder, OR and González, TM and Rosenblatt, A and Kachel, S and Balkenhol, N},
title = {Right on track? Performance of satellite telemetry in terrestrial wildlife research.},
journal = {PloS one},
volume = {14},
number = {5},
pages = {e0216223},
doi = {10.1371/journal.pone.0216223},
pmid = {31071155},
issn = {1932-6203},
abstract = {Satellite telemetry is an increasingly utilized technology in wildlife research, and current devices can track individual animal movements at unprecedented spatial and temporal resolutions. However, as we enter the golden age of satellite telemetry, we need an in-depth understanding of the main technological, species-specific and environmental factors that determine the success and failure of satellite tracking devices across species and habitats. Here, we assess the relative influence of such factors on the ability of satellite telemetry units to provide the expected amount and quality of data by analyzing data from over 3,000 devices deployed on 62 terrestrial species in 167 projects worldwide. We evaluate the success rate in obtaining GPS fixes as well as in transferring these fixes to the user and we evaluate failure rates. Average fix success and data transfer rates were high and were generally better predicted by species and unit characteristics, while environmental characteristics influenced the variability of performance. However, 48% of the unit deployments ended prematurely, half of them due to technical failure. Nonetheless, this study shows that the performance of satellite telemetry applications has shown improvements over time, and based on our findings, we provide further recommendations for both users and manufacturers.},
}

@article {pmid30967554,
year = {2019},
author = {Mortelmans, J and Deneudt, K and Cattrijsse, A and Beauchard, O and Daveloose, I and Vyverman, W and Vanaverbeke, J and Timmermans, K and Peene, J and Roose, P and Knockaert, M and Chou, L and Sanders, R and Stinchcombe, M and Kimpe, P and Lammens, S and Theetaert, H and Gkritzalis, T and Hernandez, F and Mees, J},
title = {Nutrient, pigment, suspended matter and turbidity measurements in the Belgian part of the North Sea.},
journal = {Scientific data},
volume = {6},
number = {1},
pages = {22},
doi = {10.1038/s41597-019-0032-7},
pmid = {30967554},
issn = {2052-4463},
abstract = {Through regular sampling surveys, the Flanders Marine Institute is generating long term data series for the Belgian coastal water and sand bank systems, a designated site in the Long Term Ecological Research (LTER) network. The data series is built on sampling activities initiated in 2002, but gradually upgraded and extended in the framework of the LifeWatch marine observatory and the Integrated Carbon Observation System (ICOS) participation. Nine nearshore stations are sampled monthly, with additional seasonal sampling of eight offshore stations. This paper presents the generated data series for nutrients, pigments, suspended matter and turbidity. The collection, methodology and processing of the 2002-2018 dataset is described, along with its data curation, integration and quality control. Yearly versions of the data are published online in a standardized format, accompanied with extensive metadata description and labelled with digital identifiers for traceability. Data is published under a CC-BY license, allowing use of the data under the condition of providing reference to the original source.},
}

@article {pmid30945532,
year = {2019},
author = {Yeung, LY and Haslun, JA and Ostrom, NE and Sun, T and Young, ED and van Kessel, MAHJ and Lücker, S and Jetten, MSM},
title = {In Situ Quantification of Biological N2 Production Using Naturally Occurring 15N15N.},
journal = {Environmental science & technology},
volume = {53},
number = {9},
pages = {5168-5175},
doi = {10.1021/acs.est.9b00812},
pmid = {30945532},
issn = {1520-5851},
abstract = {We describe an approach for determining biological N2 production in soils based on the proportions of naturally occurring 15N15N in N2. Laboratory incubation experiments reveal that biological N2 production, whether by denitrification or anaerobic ammonia oxidation, yields proportions of 15N15N in N2 that are within 1‰ of that predicted for a random distribution of 15N and 14N atoms. This relatively invariant isotopic signature contrasts with that of the atmosphere, which has 15N15N proportions in excess of the random distribution by 19.1 ± 0.1‰. Depth profiles of gases in agricultural soils from the Kellogg Biological Station Long-Term Ecological Research site show biological N2 accumulation that accounts for up to 1.6% of the soil N2. One-dimensional reaction-diffusion modeling of these soil profiles suggests that subsurface N2 pulses leading to surface emission rates as low as 0.3 mmol N2 m-2 d-1 can be detected with current analytical precision, decoupled from N2O production.},
}

@article {pmid30942486,
year = {2019},
author = {Wilson, BJ and Servais, S and Charles, SP and Mazzei, V and Gaiser, EE and Kominoski, JS and Richards, JH and Troxler, TG},
title = {Phosphorus alleviation of salinity stress: effects of saltwater intrusion on an Everglades freshwater peat marsh.},
journal = {Ecology},
volume = {100},
number = {5},
pages = {e02672},
doi = {10.1002/ecy.2672},
pmid = {30942486},
issn = {1939-9170},
support = {DEB-1237517//National Science Foundation's Florida Coastal Everglades Long Term Ecological Research Program/ ; R/C-S-56//Florida Sea Grant/ ; //Everglades Section of the South Florida Water Management District/ ; //Everglades Foundation/ ; //Everglades National Park/ ; },
abstract = {Saltwater intrusion and salinization of coastal wetlands around the world are becoming a pressing issue due to sea level rise. Here, we assessed how a freshwater coastal wetland ecosystem responds to saltwater intrusion. In wetland mesocosms, we continuously exposed Cladium jamaicense Crantz (sawgrass) plants and their peat soil collected from a freshwater marsh to two factors associated with saltwater intrusion in karstic ecosystems: elevated loading of salinity and phosphorus (P) inputs. We took repeated measures using a 2 × 2 factorial experimental design (n = 6) with treatments composed of elevated salinity (~9 ppt), P loading (14.66 μmol P/d), or a combination of both. We measured changes in water physicochemistry, ecosystem productivity, and plant biomass change over two years to assess monthly and two-year responses to saltwater intrusion. In the short-term, plants exhibited positive growth responses with simulated saltwater intrusion (salinity + P), driven by increased P availability. Despite relatively high salinity levels for a freshwater marsh (~9 ppt), gross ecosystem productivity (GEP), net ecosystem productivity (NEP), and aboveground biomass were significantly higher in the elevated salinity + P treated monoliths compared to the freshwater controls. Salinity stress became evident after extended exposure. Although still higher than freshwater controls, GEP and NEP were significantly lower in the elevated salinity + P treatment than the +P treatment after two years. However, elevated salinity decreased live root biomass regardless of whether P was added. Our results suggest that saltwater intrusion into karstic freshwater wetlands may initially act as a subsidy by stimulating aboveground primary productivity of marsh plants. However, chronic exposure to elevated salinity results in plant stress, negatively impacting belowground peat soil structure and stability through a reduction in plant roots.},
}

@article {pmid30941153,
year = {2019},
author = {Chun, JH and Lee, CB},
title = {Temporal Changes in Species, Phylogenetic, and Functional Diversity of Temperate Tree Communities: Insights From Assembly Patterns.},
journal = {Frontiers in plant science},
volume = {10},
number = {},
pages = {294},
doi = {10.3389/fpls.2019.00294},
pmid = {30941153},
issn = {1664-462X},
abstract = {Species-based approaches to the analysis of changes in successional community assemblages are limited in the ability to reflect long-term evolutionary and functional trait responses of organisms to environment change. Recent advances in concepts and analyses of community phylogenetics and functional traits have improved the interpretation and understanding of community assembly processes. Here, we examined phylogenetic signals of four functional traits such as maximum height, leaf size, seed mass and wood density in woody plant species and temporal changes in species, phylogenetic, and functional diversity among forest strata (i.e., whole, overstory, and understory strata) at four forest long term ecological research sites in South Korea. A census of woody plant species was implemented in a 1-ha permanent plot of each study site every 5 years. We analyzed community structure and compositional turnover using twenty-five 20 × 20 m2 quadrat data converted from 1-ha plot data of each site. We found that phylogenetic signals for four functional traits were low but significant, indicating that phylogenetic diversity may be used as a crude surrogate measure of functional diversity. Temporal changes in alpha and beta components of the three diversity differed among forest strata and four study sites over time. This study also revealed that the temporal changes of phylogenetic and functional diversity for understory strata in a forest, which were consecutively damaged by typhoon, were more extreme and larger than those of understory strata in the other sites. Therefore, our study supports recent studies that plant community structures differ among forest strata and such differences of community structure among sites can be accelerated by disturbance. Although the role and relative importance of niche-based deterministic and neutral processes for the patterns of successional community structure differed among the study sites, we found niche-based deterministic processes are the dominant drivers in structuring plant community assembly regardless of forest age and disturbance in this study. From these results, our study suggests that contemporary forest ecosystems are composed of mosaics of plant communities that are formed by interactions among various processes.},
}

@article {pmid30933383,
year = {2019},
author = {Leray, M and Alldredge, AL and Yang, JY and Meyer, CP and Holbrook, SJ and Schmitt, RJ and Knowlton, N and Brooks, AJ},
title = {Dietary partitioning promotes the coexistence of planktivorous species on coral reefs.},
journal = {Molecular ecology},
volume = {},
number = {},
pages = {},
doi = {10.1111/mec.15090},
pmid = {30933383},
issn = {1365-294X},
support = {//Sant Chair of the Smithsonian National Museum of Natural History/ ; NSF OCE 1637396//Moorea Coral Reef Long Term Ecological Research (LTER) program/ ; //Gordon and Betty Moore Foundation/ ; },
abstract = {Theories involving niche diversification to explain high levels of tropical diversity propose that species are more likely to co-occur if they partition at least one dimension of their ecological niche space. Yet, numerous species appear to have widely overlapping niches based upon broad categorizations of resource use or functional traits. In particular, the extent to which food partitioning contributes to species coexistence in hyperdiverse tropical ecosystems remains unresolved. Here, we use a molecular approach to investigate inter- and intraspecific dietary partitioning between two species of damselfish (Dascyllus flavicaudus, Chromis viridis) that commonly co-occur in branching corals. Species-level identification of their diverse zooplankton prey revealed significant differences in diet composition between species despite their seemingly similar feeding strategies. Dascyllus exhibited a more diverse diet than Chromis, whereas Chromis tended to select larger prey items. A large calanoid copepod, Labidocera sp., found in low density and higher in the water column during the day, explained more than 19% of the variation in dietary composition between Dascyllus and Chromis. Dascyllus did not significantly shift its diet in the presence of Chromis, which suggests intrinsic differences in feeding behaviour. Finally, prey composition significantly shifted during the ontogeny of both fish species. Our findings show that levels of dietary specialization among coral reef associated species have likely been underestimated, and they underscore the importance of characterizing trophic webs in tropical ecosystems at higher levels of taxonomic resolution. They also suggest that niche redundancy may not be as common as previously thought.},
}

@article {pmid30884085,
year = {2019},
author = {Crowther, TW and Riggs, C and Lind, EM and Borer, ET and Seabloom, EW and Hobbie, SE and Wubs, J and Adler, PB and Firn, J and Gherardi, L and Hagenah, N and Hofmockel, KS and Knops, JMH and McCulley, RL and MacDougall, AS and Peri, PL and Prober, SM and Stevens, CJ and Routh, D},
title = {Sensitivity of global soil carbon stocks to combined nutrient enrichment.},
journal = {Ecology letters},
volume = {22},
number = {6},
pages = {936-945},
doi = {10.1111/ele.13258},
pmid = {30884085},
issn = {1461-0248},
support = {//Plant For The Planet Foundation/ ; //DOB Ecology/ ; NSF-DEB-1042132//National Science Foundation Research Coordination Network/ ; NSF-DEB-1234162//Long Term Ecological Research/ ; },
mesh = {*Carbon ; Ecosystem ; Nitrogen ; Nutrients ; *Soil/chemistry ; },
abstract = {Soil stores approximately twice as much carbon as the atmosphere and fluctuations in the size of the soil carbon pool directly influence climate conditions. We used the Nutrient Network global change experiment to examine how anthropogenic nutrient enrichment might influence grassland soil carbon storage at a global scale. In isolation, enrichment of nitrogen and phosphorous had minimal impacts on soil carbon storage. However, when these nutrients were added in combination with potassium and micronutrients, soil carbon stocks changed considerably, with an average increase of 0.04 KgCm-2 year-1 (standard deviation 0.18 KgCm-2 year-1). These effects did not correlate with changes in primary productivity, suggesting that soil carbon decomposition may have been restricted. Although nutrient enrichment caused soil carbon gains most dry, sandy regions, considerable absolute losses of soil carbon may occur in high-latitude regions that store the majority of the world's soil carbon. These mechanistic insights into the sensitivity of grassland carbon stocks to nutrient enrichment can facilitate biochemical modelling efforts to project carbon cycling under future climate scenarios.},
}

*Carbon
Ecosystem
Nitrogen
Nutrients
*Soil/chemistry

@article {pmid30872941,
year = {2019},
author = {Scotti, A and Tappeiner, U and Bottarin, R},
title = {Stream benthic macroinvertebrates abundances over a 6-year monitoring period of an Italian glacier-fed stream.},
journal = {Biodiversity data journal},
volume = {7},
number = {},
pages = {e33576},
doi = {10.3897/BDJ.7.e33576},
pmid = {30872941},
issn = {1314-2828},
abstract = {Background: Aquatic macroinvertebrates are widely used as bioindicators for water quality assessments involving different kinds of disruptive factors, such as hydrological regime variations or pollutant spills. Recently, they demonstrated to be effective in monitoring effects of climate change in alpine stream and rivers. Indeed, since the distribution of macroinvertebrates in glacier-fed streams has been succesfully investigated and described by several authors, the discrepancy in presence/absence and quantity of specific taxa from the established models may represent an early warning of the effects of climatic changes occurring in alpine riverine ecosystems.

New information: Together with the present paper, we provide a dataset covering a period of 6 years (2010-2015) sampling of aquatic macroinvertebrates along a longitudinal transect of a glacier-fed stream located in the Italian Alps, inside the International Long Term Ecological Research (ILTER) macrosite of Matsch|Mazia (IT-25). Data were collected during the glacial melt period (April - September), with monthly resolution. Owing to the unique temporal resolution of the dataset, we aim to produce a reliable tool (i.e. reference point) for future ecological assessment on the same stream, but also to similar streams worldwide.},
}

@article {pmid30861108,
year = {2019},
author = {Zhang, Y and Pennings, SC and Li, B and Wu, J},
title = {Biotic homogenization of wetland nematode communities by exotic Spartina alterniflora in China.},
journal = {Ecology},
volume = {100},
number = {4},
pages = {e02596},
doi = {10.1002/ecy.2596},
pmid = {30861108},
issn = {1939-9170},
support = {2017YFC1200103//National Key R&D Program of China/ ; 41630528//NSFC/ ; 41871035//NSFC/ ; OCE12-37140//U.S. National Science Foundation through the Georgia Coastal Ecosystems Long-Term Ecological Research program/ ; },
abstract = {Introduced species may homogenize biotic communities. Whether this homogenization can erase latitudinal patterns of species diversity and composition has not been well studied. We examined this by comparing nematode and microbial communities in stands of native Phragmites australis and exotic Spartina alterniflora in coastal wetlands across 18° of latitude in China. We found clear latitudinal clines in nematode diversity and functional composition, and in microbial composition, for soils collected from native P. australis. These latitudinal patterns were weak or absent for soils collected from nearby stands of the exotic S. alterniflora. Climatic and edaphic variables varied across latitude in similar ways in both community types. In P. australis there were strong correlations between community structure and environmental variables, whereas in S. alterniflora these correlations were weak. These results suggest that the invasion of S. alterniflora into the Chinese coastal wetlands has caused profound biotic homogenization of soil communities across latitude. We speculate that the variation in P. australis nematode and microbial communities across latitude is primarily driven by geographic variation in plant traits, but that such variation in plant traits is largely lacking for the recently introduced exotic S. alterniflora. These results indicate that widespread exotic species can homogenize nematode communities at large spatial scales.},
}

@article {pmid30850884,
year = {2019},
author = {Whitney, KD and Mudge, J and Natvig, DO and Sundararajan, A and Pockman, WT and Bell, J and Collins, SL and Rudgers, JA},
title = {Experimental drought reduces genetic diversity in the grassland foundation species Bouteloua eriopoda.},
journal = {Oecologia},
volume = {189},
number = {4},
pages = {1107-1120},
doi = {10.1007/s00442-019-04371-7},
pmid = {30850884},
issn = {1432-1939},
support = {EAGER 1748133//National Science Foundation/ ; DEB 1456955//National Science Foundation/ ; DEB 1257965//National Science Foundation/ ; EF-01137363//National Science Foundation/ ; P20GM103451//National Institute of General Medical Sciences/ ; },
abstract = {Understanding the resistance and resilience of foundation plant species to climate change is a critical issue because the loss of these species would fundamentally reshape communities and ecosystem processes. High levels of population genetic diversity may buffer foundation species against climate disruptions, but the strong selective pressures associated with climatic shifts may also rapidly reduce such diversity. We characterized genetic diversity and its responsiveness to experimental drought in the foundation plant, black grama grass (Bouteloua eriopoda), which dominates many western North American grasslands and shrublands. Previous studies suggested that in arid ecosystems, black grama reproduces largely asexually via stolons, and thus is likely to have low genetic variability, which might limit its potential to respond to climate disruptions. Using genotyping-by-sequencing, we demonstrated unexpectedly high genetic variability among black grama plants in a 1 ha site within the Sevilleta National Wildlife Refuge in central New Mexico, suggesting some level of sexual reproduction. Three years of experimental, growing season drought reduced black grama survival and biomass (the latter by 96%), with clear genetic differentiation (higher FST) between plants succumbing to drought and those remaining alive. Reduced genetic variability in the surviving plants in drought plots indicated that the experimental drought had forced black grama populations through selection bottlenecks. These results suggest that foundation grass species, such as black grama, may experience rapid evolutionary change if future climates include more severe droughts.},
}

@article {pmid30805155,
year = {2019},
author = {Wentz, KF and Neff, JC and Suding, KN},
title = {Leaf temperatures mediate alpine plant communities' response to a simulated extended summer.},
journal = {Ecology and evolution},
volume = {9},
number = {3},
pages = {1227-1243},
doi = {10.1002/ece3.4816},
pmid = {30805155},
issn = {2045-7758},
abstract = {We use a quantitative model of photosynthesis to explore leaf-level limitations to plant growth in an alpine tundra ecosystem that is expected to have longer, warmer, and drier growing seasons. The model is parameterized with abiotic and leaf trait data that is characteristic of two dominant plant communities in the alpine tundra and specifically at the Niwot Ridge Long Term Ecological Research Site: the dry and wet meadows. Model results produce realistic estimates of photosynthesis, nitrogen-use efficiency, water-use efficiency, and other gas exchange processes in the alpine tundra. Model simulations suggest that dry and wet meadow plant species do not significantly respond to changes in the volumetric soil moisture content but are sensitive to variation in foliar nitrogen content. In addition, model simulations indicate that dry and wet meadow species have different maximum rates of assimilation (normalized for leaf nitrogen content) because of differences in leaf temperature. These differences arise from the interaction of plant height and the abiotic environment characteristic of each plant community. The leaf temperature of dry meadow species is higher than wet meadow species and close to the optimal temperature for photosynthesis under current conditions. As a result, 2°C higher air temperatures in the future will likely lead to declines in dry meadow species' carbon assimilation. On the other hand, a longer and warmer growing season could increase nitrogen availability and assimilation rates in both plant communities. Nonetheless, a temperature increase of 4°C may lower rates of assimilation in both dry and wet meadow plant communities because of higher, and suboptimal, leaf temperatures.},
}

@article {pmid30802858,
year = {2019},
author = {Kazemi, M and Kavehvash, Z and Shabany, M},
title = {K-Space Aware Multi-Static Millimeter-Wave Imaging.},
journal = {IEEE transactions on image processing : a publication of the IEEE Signal Processing Society},
volume = {},
number = {},
pages = {},
doi = {10.1109/TIP.2019.2900588},
pmid = {30802858},
issn = {1941-0042},
abstract = {This paper focuses on an ef?cient approach of designing multi-static arrays for millimeter-wave imaging, based on the k-space or Fourier-spatial domain characteristic of imaging systems. Our goal is to decrease the redundancy of the data measured by each antenna, and to improve the resolution of the reconstructed image. The proposed technique is based on determining the role of each transmitter and receiver, in collecting the data from each voxel of the target in k-space domain and then rotating transmitters' beams to measure the desirable information. The effect of non-uniform redundant k-space domain frequency samples that act as an undesirable ?lter, is compensated using a modi?ed SAR back-projection algorithm. Experimental and simulation results are presented and compared with that of a sparse multi-static array with the same number of transmitters and receivers. Our simulations and measurements show signi?cant improvement in terms of overall quality and edge preservation in the reconstructed images. Also, the obtained results demonstrate that using the proposed structure and algorithm, the average improvement in peak-signalto-noise ratio (PSNR), structural similarity index measure (SSIM) and digital image correlation (DIC) metrics of 3.03 dB, 0.22 and 0.173, are achieved, respectively.},
}

@article {pmid30677684,
year = {2019},
author = {Liang, D and Harris, LA and Testa, JM and Lyubchich, V and Filoso, S},
title = {Detection of the effects of stormwater control measure in streams using a Bayesian BACI power analysis.},
journal = {The Science of the total environment},
volume = {661},
number = {},
pages = {386-392},
doi = {10.1016/j.scitotenv.2019.01.125},
pmid = {30677684},
issn = {1879-1026},
abstract = {The unpredictable timing and magnitude of precipitation events and the spatiotemporal variability of constituent concentrations are major complications to effective monitoring of watershed nutrient and sediment loads. Furthermore, detecting small changes in constituent loads in response to implementation of Stormwater control measures (SCMs) against natural variability is a challenge. Nevertheless, regulatory frameworks that direct reductions of pollutants to streams frequently depend on the ability to quantify changes in loads after management interventions. The before-after-control impact (BACI) sampling design is often used to assess the effects of an environmental change made at a known point in time. However, this approach may be complicated to apply to nutrient and sediment loads in streams as the relative impact of SCMs on nutrient concentration conditional on the long term variability of discharges has not been evaluated. Multi-scale monitoring studies that provide estimates of the natural temporal and spatial variability of discharge and concentrations could provide useful information in designing a BACI study. Here we use data from the Baltimore Long Term Ecological Research (LTER) sites and urban restoration sites to develop multiple statistical measures of the effectiveness of a given monitoring scheme in revealing the hypothesized restoration effects in terms of hydrology and nutrient loads. Stratified sampling over baseflow and stormflow and the use of multiple control streams were useful tools to detect long term cumulative reductions in concentrations due to SCMs. Moderate reductions in concentration (20%), however, were not detectable with the design options considered. We emphasize that appropriate pre-planning of monitoring schemes and sampling frequency is essential to determine if the effects on constituent loads resulting from a given watershed restoration activity are measurable.},
}

@article {pmid30660318,
year = {2019},
author = {Battisti, C and Staffieri, E and Poeta, G and Sorace, A and Luiselli, L and Amori, G},
title = {Interactions between anthropogenic litter and birds: A global review with a 'black-list' of species.},
journal = {Marine pollution bulletin},
volume = {138},
number = {},
pages = {93-114},
doi = {10.1016/j.marpolbul.2018.11.017},
pmid = {30660318},
issn = {1879-3363},
mesh = {Animals ; *Birds ; Dietary Exposure/adverse effects ; Ecosystem ; Ecotoxicology/trends ; Environmental Exposure/*adverse effects ; Environmental Pollution/*adverse effects ; Serial Publications/trends ; Solid Waste/*adverse effects ; },
abstract = {The interaction of anthropogenic litter (by incorporation litter in nests, ingestion, and entanglement) with birds was systematically reviewed using Google Scholar database. A 'black-list' of 258 species was compiled. Among them 206 (79.8%) were seabirds. Four seabird orders (Gaviiformes, Phaetontiformes, Procellariformes, Sphenisciformes) showed the highest percentage of interacting species. At family level, >70% of species of Gaviidae, Diomedeidae, Sulidae, Stercoraridae and Alcidae were involved in interactions with litter. We observed (i) a significant correlation between Scholar recurrences and species citations about anthropogenic litter only when considering seabirds; (ii) a low number of references before 1981 with a bimodal pattern showing a first peak in 1986-90 and a progressively increasing trend in the 2000s. Regarding the type of interaction, there was a significantly higher percentage of species involved in ingestion when compared to the percentage involved in entanglement. We suggest the use of consolidated standardized litter nomenclature and characterization and the adoption of a logical causal chain helping researchers in defining suitable frameworks.},
}

Animals
*Birds
Dietary Exposure/adverse effects
Ecosystem
Ecotoxicology/trends
Environmental Exposure/*adverse effects
Environmental Pollution/*adverse effects
Serial Publications/trends
Solid Waste/*adverse effects

@article {pmid30612185,
year = {2019},
author = {Murphy, AE and Kolkmeyer, R and Song, B and Anderson, IC and Bowen, J},
title = {Bioreactivity and Microbiome of Biodeposits from Filter-Feeding Bivalves.},
journal = {Microbial ecology},
volume = {77},
number = {2},
pages = {343-357},
doi = {10.1007/s00248-018-01312-4},
pmid = {30612185},
issn = {1432-184X},
support = {OCE 1062882//National Science Foundation/ ; OCE 1233801//National Science Foundation/ ; LTER 0080381//National Science Foundation/ ; NA10OAR4170085//Virginia Sea Grant, Virginia Institute of Marine Science/ ; },
mesh = {Ammonium Compounds/metabolism ; Animals ; Bacteria/classification/genetics/*isolation & purification/metabolism ; Bivalvia/metabolism/*microbiology ; Carbon/metabolism ; Crassostrea/metabolism/microbiology ; Eutrophication ; Geologic Sediments/chemistry/microbiology ; Mercenaria/metabolism/microbiology ; *Microbiota ; Phylogeny ; Seawater/chemistry/microbiology ; },
abstract = {Bivalves serve an important ecosystem function in delivering organic matter from pelagic to benthic zones and are important in mediating eutrophication. However, the fate of this organic matter (i.e., biodeposits) is an important consideration when assessing the ecological roles of these organisms in coastal ecosystems. In addition to environmental conditions, the processing of biodeposits is dependent on its composition and the metabolic capacity of the associated microbial community. The objectives of this study were to compare the biological reactivity, potential denitrification rates, and microbial communities of biodeposits sourced from different bivalve species: hard clam (Mercenaria mercenaria), eastern oyster (Crassostrea virginica), and ribbed mussel (Geukensia demissa). To our knowledge, this is the first study to investigate and compare the microbiome of bivalve biodeposits using high-throughput sequencing and provide important insight into the mechanisms by which bivalves may alter sediment microbial communities and benthic biogeochemical cycles. We show that clam biodeposits had significantly higher bioreactivity compared to mussel and oyster biodeposits, as reflected in higher dissolved inorganic carbon and ammonium production rates in controlled incubations. Potential denitrification rates were also significantly higher for clam biodeposits compared to oyster and mussel biodeposits. The microbial communities associated with the biodeposits were significantly different across bivalve species, with significantly greater abundances of Alteromonadales, Chitinophagales, Rhodobacterales, and Thiotrichales associated with the clam biodeposits. These bioreactivity and microbial differences across bivalve species are likely due to differences in bivalve physiology and feeding behavior and should be considered when evaluating the effects of bivalves on water quality and ecosystem function.},
}

Ammonium Compounds/metabolism
Animals
Bacteria/classification/genetics/*isolation & purification/metabolism
Bivalvia/metabolism/*microbiology
Carbon/metabolism
Crassostrea/metabolism/microbiology
Eutrophication
Geologic Sediments/chemistry/microbiology
Mercenaria/metabolism/microbiology
*Microbiota
Phylogeny
Seawater/chemistry/microbiology

@article {pmid30546809,
year = {2018},
author = {Fujiwara, M and Kawamura, N and Okuno, T},
title = {Preoperative inferior vena cava filter implantation to prevent pulmonary fat embolism in a patient showing renal angiomyolipoma extension into the renal vein: A case report and literature review.},
journal = {Journal of rural medicine : JRM},
volume = {13},
number = {2},
pages = {181-184},
pmid = {30546809},
issn = {1880-487X},
abstract = {Renal angiomyolipoma without local invasion is usually considered benign entity, however, it may extend into the renal vein or the inferior vena cava. Renal angiomyolipoma with venous extension should be treated; however, surgical complications such as iatrogenic pulmonary fat embolism remain a serious concern. We present a case of a 66-year-old Japanese woman without tuberous sclerosis in whom a right-sided renal tumor was incidentally detected on ultrasonography during a health check-up. Further evaluation showed that the tumor extended into the renal vein, and she was successfully treated using preoperative inferior vena cava filter placement and radical nephrectomy. An inferior vena cava filter can prevent catastrophic pulmonary fat embolism during nephrectomy.},
}

@article {pmid30499218,
year = {2019},
author = {Taylor, SD and Meiners, JM and Riemer, K and Orr, MC and White, EP},
title = {Comparison of large-scale citizen science data and long-term study data for phenology modeling.},
journal = {Ecology},
volume = {100},
number = {2},
pages = {e02568},
doi = {10.1002/ecy.2568},
pmid = {30499218},
issn = {0012-9658},
support = {GBMF4563//Gordon and Betty Moore Foundation/ ; //University of Florida Biodiversity Institute Graduate Research Fellowship/ ; },
abstract = {Large-scale observational data from citizen science efforts are becoming increasingly common in ecology, and researchers often choose between these and data from intensive local-scale studies for their analyses. This choice has potential trade-offs related to spatial scale, observer variance, and interannual variability. Here we explored this issue with phenology by comparing models built using data from the large-scale, citizen science USA National Phenology Network (USA-NPN) effort with models built using data from more intensive studies at Long Term Ecological Research (LTER) sites. We built statistical and process based phenology models for species common to each data set. From these models, we compared parameter estimates, estimates of phenological events, and out-of-sample errors between models derived from both USA-NPN and LTER data. We found that model parameter estimates for the same species were most similar between the two data sets when using simple models, but parameter estimates varied widely as model complexity increased. Despite this, estimates for the date of phenological events and out-of-sample errors were similar, regardless of the model chosen. Predictions for USA-NPN data had the lowest error when using models built from the USA-NPN data, while LTER predictions were best made using LTER-derived models, confirming that models perform best when applied at the same scale they were built. This difference in the cross-scale model comparison is likely due to variation in phenological requirements within species. Models using the USA-NPN data set can integrate parameters over a large spatial scale while those using an LTER data set can only estimate parameters for a single location. Accordingly, the choice of data set depends on the research question. Inferences about species-specific phenological requirements are best made with LTER data, and if USA-NPN or similar data are all that is available, then analyses should be limited to simple models. Large-scale predictive modeling is best done with the larger-scale USA-NPN data, which has high spatial representation and a large regional species pool. LTER data sets, on the other hand, have high site fidelity and thus characterize inter-annual variability extremely well. Future research aimed at forecasting phenology events for particular species over larger scales should develop models that integrate the strengths of both data sets.},
}

@article {pmid30485407,
year = {2018},
author = {Ricono, A and Dixon, R and Eaton, I and Brightbill, CM and Yaziji, Y and Puzey, JR and Dalgleish, HJ},
title = {Long- and short-term responses of Asclepias species differ in respect to fire, grazing, and nutrient addition.},
journal = {American journal of botany},
volume = {105},
number = {12},
pages = {2008-2017},
doi = {10.1002/ajb2.1197},
pmid = {30485407},
issn = {1537-2197},
support = {//Max and Victoria Dreyfus Foundation/ ; //National Geographic Foundation/ ; //Dominion Educational Partnership/ ; //National Science Foundation Long Term Ecological Research Program at Konza Prairie Biological Station/ ; },
abstract = {PREMISE OF THE STUDY: The tallgrass prairie ecosystem has experienced a dramatic reduction over the past 150 yr. This reduction has impacted the abundance of native grassland species, including milkweeds (Asclepias).

METHODS: We used two long-term (27 yr) data sets to examine how fire, grazing, and nutrient addition shape milkweed abundance in tallgrass prairie. We compared these results to those of a greenhouse experiment that varied nutrient levels in the absence of competition, herbivory, and mutualistic relationships.

KEY RESULTS: Asclepias species exhibited broad patterns in response to burning regimes that did not include grazing, but experienced more species-specific patterns in other combinations. Asclepias syriaca was the only species to increase in abundance in plots that included burning and nutrient addition. In the greenhouse we found that nitrogen significantly increased biomass, while no effect of phosphorus was detected.

CONCLUSIONS: These results indicate that A. syriaca will do best in settings with high nutrient loads, low competition, and no grazers. These characteristics define a small portion of the tallgrass prairie but exemplify modern agricultural settings, which have replaced prairies. However, other milkweeds examined did not share this pattern, which indicates that milkweed species will respond differently when exposed to agricultural settings, with some less able to cope with land conversion to pasture or row-crop agriculture.},
}

@article {pmid30456619,
year = {2019},
author = {Battisti, C and Kroha, S and Kozhuharova, E and De Michelis, S and Fanelli, G and Poeta, G and Pietrelli, L and Cerfolli, F},
title = {Fishing lines and fish hooks as neglected marine litter: first data on chemical composition, densities, and biological entrapment from a Mediterranean beach.},
journal = {Environmental science and pollution research international},
volume = {26},
number = {1},
pages = {1000-1007},
doi = {10.1007/s11356-018-3753-9},
pmid = {30456619},
issn = {1614-7499},
mesh = {Alismatales ; Animals ; Bathing Beaches/statistics & numerical data ; *Environmental Monitoring ; *Fisheries ; Mediterranean Sea ; Plastics/*analysis ; Seafood ; Waste Products/*analysis ; },
abstract = {We reported first data on the densities and chemical composition of fishing lines and fish hooks deposited on a Mediterranean beach. On a sampling area of 1.5 ha, we removed a total of 185,028 cm of fishing lines (density 12.34 cm/m2) and 33 hooks (density 22 units/ha). Totally, 637.62 g (42.5 mg/m2) of fishing lines were collected. We sampled 120 items entangled belongings to 7 animal taxa (density 6.49 items/100 m of fishing lines). We also observed a not quantifiable number of egagropiles (Posidonia oceanica spheroids), Rhodophyceae (Halymenia sp.) and segments of reeds of Phragmites communis, trapped in the fishing lines. Fourier transform infrared (FTIR) spectroscopy was used in order to identify the chemical composition of the fishing lines: 92% was made of nylon while 8.0% was determined as fluorocarbon based polymers (polyvinylidene fluoride). Because of their subtlety and reduced size, sandy beach cleaning operations should include at least two consecutive removal samplings: indeed, a part of this litter (12.14%) is not removed in the first sampling. The unexpected high density of fishing lines suggests specific management actions aimed to periodically remove this neglected anthropogenic litter.},
}

Alismatales
Animals
Bathing Beaches/statistics & numerical data
*Environmental Monitoring
*Fisheries
Mediterranean Sea
Plastics/*analysis
Seafood
Waste Products/*analysis

@article {pmid30420511,
year = {2018},
author = {Cáliz, J and Triadó-Margarit, X and Camarero, L and Casamayor, EO},
title = {A long-term survey unveils strong seasonal patterns in the airborne microbiome coupled to general and regional atmospheric circulations.},
journal = {Proceedings of the National Academy of Sciences of the United States of America},
volume = {115},
number = {48},
pages = {12229-12234},
pmid = {30420511},
issn = {1091-6490},
mesh = {Aerosols/analysis ; *Air Microbiology ; Archaea/classification/genetics/*isolation & purification ; Atmosphere ; Bacteria/classification/genetics/*isolation & purification ; Biodiversity ; Fungi/classification/genetics/*isolation & purification ; *Microbiota ; Phylogeny ; Seasons ; Spain ; },
abstract = {Airborne microbes (bacteria, archaea, protists, and fungi) were surveyed over a 7-y period via high-throughput massive sequencing of 16S and 18S rRNA genes in rain and snow samples collected fortnightly at a high-elevation mountain Long-Term Ecological Research (LTER) Network site (LTER-Aigüestortes, Central Pyrenees, Spain). This survey constitutes the most comprehensive mountain-top aerobiology study reported to date. The air mass origins were tracked through modeled back-trajectories and analysis of rain water chemical composition. Consistent microbial seasonal patterns were observed with highly divergent summer and winter communities recurrent in time. Indicative microbial taxa were unveiled as a forensic signature, and ubiquitous taxa were observed as common atmosphere inhabitants, highlighting aerosols as a potentially successful mechanism for global microbial dispersal. Source-tracking analyses identified freshwater, cropland, and urban biomes as the most important sources for airborne bacteria in summer, while marine and forest biomes prevailed in winter, in agreement with air mass retrotrajectories and the prevailing general and regional atmospheric circulation.},
}

Aerosols/analysis
*Air Microbiology
Archaea/classification/genetics/*isolation & purification
Atmosphere
Bacteria/classification/genetics/*isolation & purification
Biodiversity
Fungi/classification/genetics/*isolation & purification
*Microbiota
Phylogeny
Seasons
Spain

@article {pmid30417235,
year = {2019},
author = {Staffieri, E and de Lucia, GA and Camedda, A and Poeta, G and Battisti, C},
title = {Pressure and impact of anthropogenic litter on marine and estuarine reptiles: an updated "blacklist" highlighting gaps of evidence.},
journal = {Environmental science and pollution research international},
volume = {26},
number = {2},
pages = {1238-1249},
doi = {10.1007/s11356-018-3616-4},
pmid = {30417235},
issn = {1614-7499},
mesh = {Animals ; Aquatic Organisms/*physiology ; *Environmental Monitoring ; Estuaries ; Plastics/*analysis ; Reptiles/*physiology ; Waste Products/*analysis ; },
abstract = {We report an arrangement on the effect of anthropogenic litter on marine and estuarine reptiles, checking for evidence about different types of impact (ingestion vs. entanglement) and pressure (three size-based categories). From 1976 to 2018, we obtained a "blacklist" of 11 species impacted by marine litter (about 13% of 85 species of marine and estuarine reptiles), belonging to three orders (Testudines, Squamata, and Crocodilia). We obtained only occasional evidence of an impact for Squamata (Hidrophis elegans, Disteira major) and Crocodilia (Crocodylus porosus). Regarding the different types of pressure, the highest number of evidence has been obtained for macro-litter (10 species) and the lowest for micro-litter (4 species, all Chelonidae). Among Testudines, Lepidochelys kempii and Natator depressus evidenced a lack of data for micro-plastic. In Squamata, information is lacking for micro-plastic with only occasional references for meso-plastic (in Hydrophis elegans) and macro-plastic (Disteira major and Crocodylus porosus). We obtained a direct correlation between the research effort and the number of citations regarding different types of pressure and impact of marine litter: therefore, our blacklist of impacted species could be increased, carrying out further research focused on other poorly studied marine and estuarine reptiles. We suggest the use of a standardized nomenclature to reduce the amount of lost information.},
}

Animals
Aquatic Organisms/*physiology
*Environmental Monitoring
Estuaries
Plastics/*analysis
Reptiles/*physiology
Waste Products/*analysis

@article {pmid30376192,
year = {2018},
author = {Wilson, BJ and Servais, S and Mazzei, V and Kominoski, JS and Hu, M and Davis, SE and Gaiser, E and Sklar, F and Bauman, L and Kelly, S and Madden, C and Richards, J and Rudnick, D and Stachelek, J and Troxler, TG},
title = {Salinity pulses interact with seasonal dry-down to increase ecosystem carbon loss in marshes of the Florida Everglades.},
journal = {Ecological applications : a publication of the Ecological Society of America},
volume = {28},
number = {8},
pages = {2092-2108},
doi = {10.1002/eap.1798},
pmid = {30376192},
issn = {1051-0761},
support = {DEB-1237517//National Science Foundation's Florida Coastal Everglades Long Term Ecological Research (FCE LTER) Program/ ; 2018M630731//China Postdoctoral Science Foundation/ ; 41601102//National Science Foundation of China/ ; },
abstract = {Coastal wetlands are globally important sinks of organic carbon (C). However, to what extent wetland C cycling will be affected by accelerated sea-level rise (SLR) and saltwater intrusion is unknown, especially in coastal peat marshes where water flow is highly managed. Our objective was to determine how the ecosystem C balance in coastal peat marshes is influenced by elevated salinity. For two years, we made monthly in situ manipulations of elevated salinity in freshwater (FW) and brackish water (BW) sites within Everglades National Park, Florida, USA. Salinity pulses interacted with marsh-specific variability in seasonal hydroperiods whereby effects of elevated pulsed salinity on gross ecosystem productivity (GEP), ecosystem respiration (ER), and net ecosystem productivity (NEP) were dependent on marsh inundation level. We found little effect of elevated salinity on C cycling when both marsh sites were inundated, but when water levels receded below the soil surface, the BW marsh shifted from a C sink to a C source. During these exposed periods, we observed an approximately threefold increase in CO2 efflux from the marsh as a result of elevated salinity. Initially, elevated salinity pulses did not affect Cladium jamaicense biomass, but aboveground biomass began to be significantly decreased in the saltwater amended plots after two years of exposure at the BW site. We found a 65% (FW) and 72% (BW) reduction in live root biomass in the soil after two years of exposure to elevated salinity pulses. Regardless of salinity treatment, the FW site was C neutral while the BW site was a strong C source (-334 to -454 g C·m-2 ·yr-1), particularly during dry-down events. A loss of live roots coupled with annual net CO2 losses as marshes transition from FW to BW likely contributes to the collapse of peat soils observed in the coastal Everglades. As SLR increases the rate of saltwater intrusion into coastal wetlands globally, understanding how water management influences C gains and losses from these systems is crucial. Under current Everglades' water management, drought lengthens marsh dry-down periods, which, coupled with saltwater intrusion, accelerates CO2 loss from the marsh.},
}

@article {pmid30376156,
year = {2018},
author = {Rudgers, JA and Dettweiler-Robinson, E and Belnap, J and Green, LE and Sinsabaugh, RL and Young, KE and Cort, CE and Darrouzet-Nardi, A},
title = {Are fungal networks key to dryland primary production?.},
journal = {American journal of botany},
volume = {105},
number = {11},
pages = {1783-1787},
doi = {10.1002/ajb2.1184},
pmid = {30376156},
issn = {1537-2197},
support = {1557135//National Science Foundation/ ; 1503898//National Science Foundation/ ; 1456955//National Science Foundation/ ; //University of New Mexico for Long-term Ecological Research/ ; //U.S. Geological Survey Ecosystems program/ ; },
}

@article {pmid30376154,
year = {2018},
author = {Castorani, MCN and Reed, DC and Miller, RJ},
title = {Loss of foundation species: disturbance frequency outweighs severity in structuring kelp forest communities.},
journal = {Ecology},
volume = {99},
number = {11},
pages = {2442-2454},
doi = {10.1002/ecy.2485},
pmid = {30376154},
issn = {0012-9658},
support = {1232779//National Science Foundation/ ; },
abstract = {Disturbances often cause the disproportionate loss of foundation species but understanding how the frequency and severity of disturbance to such organisms influence biological communities remains unresolved. This gap in knowledge exists in part because of the rarity of ecologically meaningful studies capable of disentangling different elements of disturbance. Hence, we carried out a long-term (9 yr), large-scale (2,000 m2 plots), spatially replicated (4 sites) field experiment in which we manipulated disturbance to a globally distributed marine foundation species, the giant kelp Macrocystis pyrifera, and tracked community responses over time. To distinguish the effects of disturbance frequency and severity on the biodiversity and composition of temperate rocky reef communities, we simulated the repeated loss of giant kelp from destructive winter waves across a background of natural variation in disturbance. By following the response of over 200 taxa from the surrounding community, we discovered that the frequency of disturbance to giant kelp changed the biomass, diversity, and composition of community guilds in a manner commensurate with their dependence on the physical (i.e., benthic light and space), trophic (i.e., living and detrital biomass), and habitat (i.e., biogenic structure) resources mediated by this foundation species. Annual winter disturbance to giant kelp reduced living and detrital giant kelp biomass by 57% and 40%, respectively, enhanced bottom light by 22%, and halved the seafloor area covered by giant kelp holdfasts. Concomitantly, the biomass of understory algae and epilithic sessile invertebrates more than doubled, while the biomass of rock-boring clams, mobile invertebrates, and fishes decreased 30-61%. Frequent loss of giant kelp boosted understory algal richness by 82% and lowered sessile invertebrate richness by 13% but did not affect the biodiversity of mobile fauna. In contrast to changes driven by disturbance frequency, interannual variation in the severity of disturbance to giant kelp had weaker, less consistent effects, causing only modest changes in assemblages of sessile invertebrates, mobile invertebrate herbivores, and fishes. Our results broaden the foundation species concept by demonstrating that repeated disturbance to a dominant habitat-forming species can outweigh the influence of less frequent but severe disturbances for the surrounding community.},
}

@article {pmid30374174,
year = {2018},
author = {Koerner, SE and Smith, MD and Burkepile, DE and Hanan, NP and Avolio, ML and Collins, SL and Knapp, AK and Lemoine, NP and Forrestel, EJ and Eby, S and Thompson, DI and Aguado-Santacruz, GA and Anderson, JP and Anderson, TM and Angassa, A and Bagchi, S and Bakker, ES and Bastin, G and Baur, LE and Beard, KH and Beever, EA and Bohlen, PJ and Boughton, EH and Canestro, D and Cesa, A and Chaneton, E and Cheng, J and D'Antonio, CM and Deleglise, C and Dembélé, F and Dorrough, J and Eldridge, DJ and Fernandez-Going, B and Fernández-Lugo, S and Fraser, LH and Freedman, B and García-Salgado, G and Goheen, JR and Guo, L and Husheer, S and Karembé, M and Knops, JMH and Kraaij, T and Kulmatiski, A and Kytöviita, MM and Lezama, F and Loucougaray, G and Loydi, A and Milchunas, DG and Milton, SJ and Morgan, JW and Moxham, C and Nehring, KC and Olff, H and Palmer, TM and Rebollo, S and Riginos, C and Risch, AC and Rueda, M and Sankaran, M and Sasaki, T and Schoenecker, KA and Schultz, NL and Schütz, M and Schwabe, A and Siebert, F and Smit, C and Stahlheber, KA and Storm, C and Strong, DJ and Su, J and Tiruvaimozhi, YV and Tyler, C and Val, J and Vandegehuchte, ML and Veblen, KE and Vermeire, LT and Ward, D and Wu, J and Young, TP and Yu, Q and Zelikova, TJ},
title = {Change in dominance determines herbivore effects on plant biodiversity.},
journal = {Nature ecology & evolution},
volume = {2},
number = {12},
pages = {1925-1932},
doi = {10.1038/s41559-018-0696-y},
pmid = {30374174},
issn = {2397-334X},
mesh = {Animals ; *Biodiversity ; Desert Climate ; *Grassland ; *Herbivory ; Mammals/*physiology ; *Plants ; },
abstract = {Herbivores alter plant biodiversity (species richness) in many of the world's ecosystems, but the magnitude and the direction of herbivore effects on biodiversity vary widely within and among ecosystems. One current theory predicts that herbivores enhance plant biodiversity at high productivity but have the opposite effect at low productivity. Yet, empirical support for the importance of site productivity as a mediator of these herbivore impacts is equivocal. Here, we synthesize data from 252 large-herbivore exclusion studies, spanning a 20-fold range in site productivity, to test an alternative hypothesis-that herbivore-induced changes in the competitive environment determine the response of plant biodiversity to herbivory irrespective of productivity. Under this hypothesis, when herbivores reduce the abundance (biomass, cover) of dominant species (for example, because the dominant plant is palatable), additional resources become available to support new species, thereby increasing biodiversity. By contrast, if herbivores promote high dominance by increasing the abundance of herbivory-resistant, unpalatable species, then resource availability for other species decreases reducing biodiversity. We show that herbivore-induced change in dominance, independent of site productivity or precipitation (a proxy for productivity), is the best predictor of herbivore effects on biodiversity in grassland and savannah sites. Given that most herbaceous ecosystems are dominated by one or a few species, altering the competitive environment via herbivores or by other means may be an effective strategy for conserving biodiversity in grasslands and savannahs globally.},
}

Animals
*Biodiversity
Desert Climate
*Grassland
*Herbivory
Mammals/*physiology
*Plants

@article {pmid30368825,
year = {2019},
author = {Furze, ME and Huggett, BA and Aubrecht, DM and Stolz, CD and Carbone, MS and Richardson, AD},
title = {Whole-tree nonstructural carbohydrate storage and seasonal dynamics in five temperate species.},
journal = {The New phytologist},
volume = {221},
number = {3},
pages = {1466-1477},
doi = {10.1111/nph.15462},
pmid = {30368825},
issn = {1469-8137},
support = {DGE-1144152//National Science Foundation Graduate Research Fellowship program/ ; //Garden Club of New Jersey/ ; DEB-1237491//National Science Foundation's LTER program/ ; //US Department of Energy's Office of Science, Office of Biological and Environmental Research/ ; },
abstract = {Despite the importance of nonstructural carbohydrates (NSC) for growth and survival in woody plants, we know little about whole-tree NSC storage. The conventional theory suggests that NSC reserves will increase over the growing season and decrease over the dormant season. Here, we compare storage in five temperate tree species to determine the size and seasonal fluctuation of whole-tree total NSC pools as well as the contribution of individual organs. NSC concentrations in the branches, stemwood, and roots of 24 trees were measured across 12 months. We then scaled up concentrations to the whole-tree and ecosystem levels using allometric equations and forest stand inventory data. While whole-tree total NSC pools followed the conventional theory, sugar pools peaked in the dormant season and starch pools in the growing season. Seasonal depletion of total NSCs was minimal at the whole-tree level, but substantial at the organ level, particularly in branches. Surprisingly, roots were not the major storage organ as branches stored comparable amounts of starch throughout the year, and root reserves were not used to support springtime growth. Scaling up NSC concentrations to the ecosystem level, we find that commonly used, process-based ecosystem and land surface models all overpredict NSC storage.},
}

@article {pmid30368793,
year = {2018},
author = {Sullivan, LL and Clark, AT and Tilman, D and Shaw, AK},
title = {Mechanistically derived dispersal kernels explain species-level patterns of recruitment and succession.},
journal = {Ecology},
volume = {99},
number = {11},
pages = {2415-2420},
doi = {10.1002/ecy.2498},
pmid = {30368793},
issn = {0012-9658},
support = {//University of Minnesota (U of M) Graduate Excellence Grant/ ; DEB 8114302//US NSF LTER Program/ ; 8811884//US NSF LTER Program/ ; 9411972//US NSF LTER Program/ ; 0080382//US NSF LTER Program/ ; 0620652//US NSF LTER Program/ ; 1234162//US NSF LTER Program/ ; 00006595//NSF GRF/ ; //Balzan Prize Foundation/ ; },
abstract = {Species-level dispersal information can give mechanistic insights into how spatial processes impact plant communities. Unfortunately, field-based estimates of the dispersal abilities of multiple members of a community are often lacking for many plant systems. Here, we provide a simple method for measuring dispersal ability for large numbers of grassland plant species based on functional traits. Using this method, we estimated the dispersal ability of 50 co-occurring grassland species using the Wald Analytical Long-distance Dispersal (WALD) model. Grassland plants species are often used for developing community theory, yet species-level estimates of their dispersal abilities are comparatively rare. We use these dispersal measurements to examine the relationship between species dispersal abilities and successional dynamics using data from a 90-yr old field chronosequence. We find that our estimated dispersal measurements matched field-based establishment observations well, and estimated species colonization, competitive, and establishment abilities. We hope that this method for measuring dispersal ability of multiple species within a community, and its demonstrated ability to generate predictions for spatial ecology, will encourage more studies of the explicit role of dispersal in plant community ecology.},
}

@article {pmid30322922,
year = {2018},
author = {Lister, BC and Garcia, A},
title = {Climate-driven declines in arthropod abundance restructure a rainforest food web.},
journal = {Proceedings of the National Academy of Sciences of the United States of America},
volume = {115},
number = {44},
pages = {E10397-E10406},
pmid = {30322922},
issn = {1091-6490},
mesh = {Animals ; Arthropods/*growth & development ; Biodiversity ; Biomass ; Birds/growth & development ; Ecosystem ; El Nino-Southern Oscillation/adverse effects ; Food Chain ; Forests ; Puerto Rico ; Rainforest ; Trees/growth & development ; Tropical Climate/*adverse effects ; },
abstract = {A number of studies indicate that tropical arthropods should be particularly vulnerable to climate warming. If these predictions are realized, climate warming may have a more profound impact on the functioning and diversity of tropical forests than currently anticipated. Although arthropods comprise over two-thirds of terrestrial species, information on their abundance and extinction rates in tropical habitats is severely limited. Here we analyze data on arthropod and insectivore abundances taken between 1976 and 2012 at two midelevation habitats in Puerto Rico's Luquillo rainforest. During this time, mean maximum temperatures have risen by 2.0 °C. Using the same study area and methods employed by Lister in the 1970s, we discovered that the dry weight biomass of arthropods captured in sweep samples had declined 4 to 8 times, and 30 to 60 times in sticky traps. Analysis of long-term data on canopy arthropods and walking sticks taken as part of the Luquillo Long-Term Ecological Research program revealed sustained declines in abundance over two decades, as well as negative regressions of abundance on mean maximum temperatures. We also document parallel decreases in Luquillo's insectivorous lizards, frogs, and birds. While El Niño/Southern Oscillation influences the abundance of forest arthropods, climate warming is the major driver of reductions in arthropod abundance, indirectly precipitating a bottom-up trophic cascade and consequent collapse of the forest food web.},
}

Animals
Arthropods/*growth & development
Biodiversity
Biomass
Birds/growth & development
Ecosystem
El Nino-Southern Oscillation/adverse effects
Food Chain
Forests
Puerto Rico
Rainforest
Trees/growth & development
Tropical Climate/*adverse effects

@article {pmid30312496,
year = {2019},
author = {Baker, CM and Bode, M and Dexter, N and Lindenmayer, DB and Foster, C and MacGregor, C and Plein, M and McDonald-Madden, E},
title = {A novel approach to assessing the ecosystem-wide impacts of reintroductions.},
journal = {Ecological applications : a publication of the Ecological Society of America},
volume = {29},
number = {1},
pages = {e01811},
doi = {10.1002/eap.1811},
pmid = {30312496},
issn = {1051-0761},
abstract = {Reintroducing a species to an ecosystem can have significant impacts on the recipient ecological community. Although reintroductions can have striking and positive outcomes, they also carry risks; many well-intentioned conservation actions have had surprising and unsatisfactory outcomes. A range of network-based mathematical methods has been developed to make quantitative predictions of how communities will respond to management interventions. These methods are based on the limited knowledge of which species interact with each other and in what way. However, expert knowledge isn't perfect and can only take models so far. Fortunately, other types of data, such as abundance time series, is often available, but, to date, no quantitative method exists to integrate these various data types into these models, allowing more precise ecosystem-wide predictions. In this paper, we develop mathematical methods that combine time-series data of multiple species with knowledge of species interactions and we apply it to proposed reintroductions at Booderee National Park in Australia. There have been large fluctuations in species abundances at Booderee National Park in recent history, following intense feral fox (Vulpes vulpes) control, including the local extinction of the greater glider (Petauroides volans). These fluctuations can provide information about the system isn't readily obtained from a stable system, and we use them to inform models that we then use to predict potential outcomes of eastern quoll (Dasyurus viverrinus) and long-nosed potoroo (Potorous tridactylus) reintroductions. One of the key species of conservation concern in the park is the Eastern Bristlebird (Dasyornis brachypterus), and we find that long-nosed potoroo introduction would have very little impact on the Eastern Bristlebird population, while the eastern quoll introduction increased the likelihood of Eastern Bristlebird decline, although that depends on the strength and form of any possible interaction.},
}

@article {pmid30250196,
year = {2018},
author = {Kallenbach, CM and Frey, SD and Grandy, AS},
title = {Author Correction: Direct evidence for microbial-derived soil organic matter formation and its ecophysiological controls.},
journal = {Nature communications},
volume = {9},
number = {1},
pages = {3929},
doi = {10.1038/s41467-018-06427-3},
pmid = {30250196},
issn = {2041-1723},
abstract = {In the originally published version of this Article, financial support was not fully acknowledged. The PDF and HTML versions of the Article have now been corrected to include support from the NSF Long-term Ecological Research Program (DEB 1637653) at the Kellogg Biological Station and from Michigan State University AgBioResearch.},
}

@article {pmid30220785,
year = {2017},
author = {Kaushal, SS and Duan, S and Doody, TR and Haq, S and Smith, RM and Newcomer Johnson, TA and Newcomb, KD and Gorman, J and Bowman, N and Mayer, PM and Wood, KL and Belt, KT and Stack, WP},
title = {Human-accelerated weathering increases salinization, major ions, and alkalinization in fresh water across land use.},
journal = {Applied geochemistry : journal of the International Association of Geochemistry and Cosmochemistry},
volume = {83},
number = {},
pages = {121-135},
pmid = {30220785},
issn = {0883-2927},
support = {EPA999999//Intramural EPA/United States ; },
abstract = {Human-dominated land uses can increase transport of major ions in streams due to the combination of human-accelerated weathering and anthropogenic salts. Calcium, magnesium, sodium, alkalinity, and hardness significantly increased in the drinking water supply for Baltimore, Maryland over almost 50 years (p<0.05) coinciding with regional urbanization. Across a nearby land use gradient at the Baltimore Long-Term Ecological Research (LTER) site, there were significant increases in concentrations of dissolved inorganic carbon (DIC), Ca2+, Mg2+, Na+, and Si and pH with increasing impervious surfaces in 9 streams monitored bi-weekly over a 3-4 year period (p<0.05). Base cations in urban streams were up to 60 times greater than forest and agricultural streams, and elemental ratios suggested road salt and carbonate weathering from impervious surfaces as potential sources. Laboratory weathering experiments with concrete also indicated that impervious surfaces increased pH and DIC with potential to alkalinize urban waters. Ratios of Na+ and Cl- suggested that there was enhanced ion exchange in the watersheds from road salts, which could mobilize other base cations from soils to streams. There were significant relationships between Ca2+, Mg2+, Na+, and K+ concentrations and Cl-, SO42-, NO3- and DIC across land use (p<0.05), which suggested tight coupling of geochemical cycles. Finally, concentrations of Na+, Ca2+, Mg2+, and pH significantly increased with distance downstream (p<0.05) along a stream network draining 170 km2 of the Baltimore LTER site contributing to river alkalinization. Our results suggest that urbanization may dramatically increase major ions, ionic strength, and pH over decades from headwaters to coastal zones, which can impact integrity of aquatic life, infrastructure, drinking water, and coastal ocean alkalinization.},
}

@article {pmid30218544,
year = {2018},
author = {Kendrick, MR and Huryn, AD and Bowden, WB and Deegan, LA and Findlay, RH and Hershey, AE and Peterson, BJ and Beneš, JP and Schuett, EB},
title = {Linking permafrost thaw to shifting biogeochemistry and food web resources in an arctic river.},
journal = {Global change biology},
volume = {24},
number = {12},
pages = {5738-5750},
doi = {10.1111/gcb.14448},
pmid = {30218544},
issn = {1365-2486},
mesh = {Alaska ; Arctic Regions ; Carbon/analysis ; Ecosystem ; *Food Chain ; *Global Warming ; Lakes ; Nitrogen/analysis ; *Permafrost ; Phosphorus/analysis ; *Rivers ; },
abstract = {Rapidly, increasing air temperatures across the Arctic are thawing permafrost and exposing vast quantities of organic carbon, nitrogen, and phosphorus to microbial processing. Shifts in the absolute and relative supplies of these elements will likely alter patterns of ecosystem productivity and change the way carbon and nutrients are delivered from upland areas to surface waters such as rivers and lakes. The ultra-oligotrophic nature of surface waters across the Arctic renders these ecosystems particularly susceptible to changes in productivity and food web dynamics as permafrost thaw alters terrestrial-aquatic linkages. The objectives of this study were to evaluate decadal-scale patterns in surface water chemistry and assess potential implications of changing water chemistry to benthic organic matter and aquatic food webs. Data were collected from the upper Kuparuk River on the North Slope of Alaska by the U.S. National Science Foundation's Long-Term Ecological Research program during 1978-2014. Analyses of these data show increases in stream water alkalinity and cation concentrations consistent with signatures of permafrost thaw. Changes are also documented for discharge-corrected nitrate concentrations (+), discharge-corrected dissolved organic carbon concentrations (-), total phosphorus concentrations (-), and δ13 C isotope values of aquatic invertebrate consumers (-). These changes show that warming temperatures and thawing permafrost in the upland environment are leading to shifts in the supply of carbon and nutrients available to surface waters and consequently changing resources that support aquatic food webs. This demonstrates that physical, geochemical, and biological changes associated with warming permafrost are fundamentally altering linkages between upland and aquatic ecosystems in rapidly changing arctic environments.},
}

Alaska
Arctic Regions
Carbon/analysis
Ecosystem
*Food Chain
*Global Warming
Lakes
Nitrogen/analysis
*Permafrost
Phosphorus/analysis
*Rivers

@article {pmid30179279,
year = {2018},
author = {Bowman, WD and Ayyad, A and Bueno de Mesquita, CP and Fierer, N and Potter, TS and Sternagel, S},
title = {Limited ecosystem recovery from simulated chronic nitrogen deposition.},
journal = {Ecological applications : a publication of the Ecological Society of America},
volume = {28},
number = {7},
pages = {1762-1772},
doi = {10.1002/eap.1783},
pmid = {30179279},
issn = {1051-0761},
support = {//National Science Foundation through the Niwot Ridge Long-Term Ecological Research Program/ ; },
abstract = {The realization that anthropogenic nitrogen (N) deposition is causing significant environmental change in many ecosystems has led to lower emissions of reactive N and deposition rates in many regions. However, the impacts of N deposition on terrestrial ecosystems can be long lasting, with significant inertia in the return of the biota and biogeochemical processes to baseline levels. To better understand patterns of recovery and the factors that may contribute to slow or no responses following declines in N deposition, we followed plant species composition, microbial abundance, N cycling rates, soil pH, and pools of NO3- and extractable cations in an impacted alpine ecosystem following cessation of 12-yr experiment increasing N deposition rates by 0, 20, 40, and 60 kg N·ha-1 ·yr-1 . Simulated N deposition had resulted in a tripling in the cover of the nitrophilic species Carex rupestris, while the dominant sedge Kobresia myosuroides had decreased by more than half at the highest N input level. In addition, nitrification rates were elevated, soil extractable magnesium (Mg2+) and pH decreased, and aluminum (Al3+) and manganese (Mn2+) were elevated at the highest N treatment inputs. Over the nine years following cessation of N additions to the impacted plots, only the cover of the nitrophilic C. rupestris showed any recovery to prior levels. Abundances of both bacteria and fungi were lower with N addition in both treatment and recovery plots. Rates of nitrification and pools of NO3- remained elevated in the recovery plots, likely contributing to the lack of biotic response to the cessation of N inputs. In addition, nutrient base cations (Ca2+ and Mg2+) and soil pH remained depressed, and the toxic metal cations (Al3+ and Mn2+) remained elevated in recovery plots, also potentially influencing biotic recovery. These results emphasize the importance of considering long-term environmental impacts of N deposition associated with legacy effects, such as elevated N cycling and losses of base cations, in determining environmental standards such as the metrics used for critical loads.},
}

@article {pmid30176079,
year = {2018},
author = {Obertegger, U and Bertilsson, S and Pindo, M and Larger, S and Flaim, G},
title = {Temporal variability of bacterioplankton is habitat driven.},
journal = {Molecular ecology},
volume = {27},
number = {21},
pages = {4322-4335},
doi = {10.1111/mec.14855},
pmid = {30176079},
issn = {1365-294X},
abstract = {Temporal dynamics of bacterioplankton are rarely investigated for multiple habitats and years within individual lakes, limiting our understanding of the variability of bacterioplankton community (BC) composition with respect to environmental factors. We assessed the BC composition of a littoral and two pelagic habitats (euphotic zone and hypolimnion) of Lake Tovel monthly from April 2014 to May 2017 by high-throughput sequencing of the V3-V4 hypervariable region of the 16S rRNA gene. The three habitats differed in temperature, light, oxygen and hydrology. In particular, the littoral was the most hydrologically unstable because it receives most of the lake inflow, the hypolimnion was the most stable because of its hydrologically sheltered position, and the pelagic euphotic habitat was intermediate. Consequently, we hypothesized different temporal patterns of BC composition for all three habitats according to their environmental differences. We applied PERMANOVA, nonmetric multidimensional scaling and source-sink analysis to characterize BC composition. Overall, BCs were different among habitats with the littoral showing the highest variability and the hypolimnion the highest stability. The BC of rainy 2014 was distinct from the BCs of other years irrespective of the habitats considered. Seasonal differences in BCs were limited to spring, probably linked to meltwater inflow and mixing. Thus, temporal effects related to year and season were linked to the hydrological gradient of habitats. We suggest that despite potential within-lake dispersal of bacterioplankton by water flow and mixing, local environmental conditions played a major role in Lake Tovel, fostering distinct BCs in the three habitats.},
}

@article {pmid30144047,
year = {2018},
author = {Berdanier, AB and Clark, JS},
title = {Tree water balance drives temperate forest responses to drought.},
journal = {Ecology},
volume = {99},
number = {11},
pages = {2506-2514},
doi = {10.1002/ecy.2499},
pmid = {30144047},
issn = {0012-9658},
support = {//Coweeta Long Term Ecological Research Program/ ; //Duke University Nicholas School of the Environment/ ; },
abstract = {Intensifying drought is increasingly linked to global forest diebacks. Improved understanding of drought impacts on individual trees has provided limited insight into drought vulnerability in part because tree moisture access and depletion is difficult to quantify. In forests, moisture reservoir depletion occurs through water use by the trees themselves. Here, we show that drought impacts on tree fitness and demographic performance can be predicted by tracking the moisture reservoir available to trees as a mass balance, estimated in a hierarchical state-space framework. We apply this model to multiple seasonal droughts with tree transpiration measurements to demonstrate how species and size differences modulate moisture availability across landscapes. The depletion of individual moisture reservoirs can be tracked over the course of droughts and linked to biomass growth and reproductive output. This mass balance approach can predict individual moisture deficit, tree demographic performance, and drought vulnerability throughout forest stands based on measurements from a sample of trees.},
}

@article {pmid30109688,
year = {2018},
author = {Iannilli, V and Di Gennaro, A and Lecce, F and Sighicelli, M and Falconieri, M and Pietrelli, L and Poeta, G and Battisti, C},
title = {Microplastics in Talitrus saltator (Crustacea, Amphipoda): new evidence of ingestion from natural contexts.},
journal = {Environmental science and pollution research international},
volume = {25},
number = {28},
pages = {28725-28729},
doi = {10.1007/s11356-018-2932-z},
pmid = {30109688},
issn = {1614-7499},
mesh = {Amphipoda/*chemistry ; Animals ; Dietary Exposure/*analysis ; Ecosystem ; Ecotoxicology/methods ; Environmental Monitoring/methods ; Food Chain ; Gastrointestinal Contents ; Italy ; Plastics/*analysis ; Polyethylene/analysis ; Spectroscopy, Fourier Transform Infrared ; Water Pollutants, Chemical/*analysis ; },
abstract = {Using Fourier transform infrared spectroscopy (FT-IR) measurements and comparing the spectrum peaks (range 4000-600 cm-1) with reference spectra database and instrument libraries, we observed new evidence of the ingestion of microplastic particles analyzing the digestive tracts of Talitrus saltator. Specimens, sampled in central Italy, probably ingested the particles with natural detritus. Since worldwide many species of invertebrates and vertebrates (e.g., birds) feed on Amphipoda along coastal ecosystems, we hypothesized that microplastic in these crustaceans can be accumulated along the food chain.},
}

Amphipoda/*chemistry
Animals
Dietary Exposure/*analysis
Ecosystem
Ecotoxicology/methods
Environmental Monitoring/methods
Food Chain
Gastrointestinal Contents
Italy
Plastics/*analysis
Polyethylene/analysis
Spectroscopy, Fourier Transform Infrared
Water Pollutants, Chemical/*analysis

@article {pmid30089131,
year = {2018},
author = {Potter, TI and Stannard, HJ and Greenville, AC and Dickman, CR},
title = {Understanding selective predation: Are energy and nutrients important?.},
journal = {PloS one},
volume = {13},
number = {8},
pages = {e0201300},
pmid = {30089131},
issn = {1932-6203},
mesh = {Animals ; Energy Metabolism/*physiology ; *Food Chain ; Marsupialia/*physiology ; *Models, Biological ; *Predatory Behavior ; Spiders ; },
abstract = {For generalist predators, a mixed diet can be advantageous as it allows individuals to exploit a potentially broad range of profitable food types. Despite this, some generalist predators show preferences for certain types of food and may forage selectively in places or at times when these foods are available. One such species is the lesser hairy-footed dunnart (Sminthopsis youngsoni). Usually considered to be a generalist insectivore, in the Simpson Desert, Australia, this small marsupial predator has been found to selectively consume wolf spiders (Family Lycosidae), for reasons yet unknown. Here, we tested whether lycosids have relatively high energy or nutrient contents compared to other invertebrates, and hence whether these aspects of food quality can explain selective predation of lycosids by S. youngsoni. Energy, lipid and protein composition of representatives of 9 arthropod families that are eaten by S. youngsoni in the Simpson Desert were ascertained using microbomb calorimetry, chloroform-methanol extraction and Dumas combustion, respectively. Although lycosids contained a high proportion of energy and nutrients, they were not found to yield statistically greater amounts of these food components than many other available arthropod prey that are not selected by S. youngsoni. Our results therefore suggest that alternative factors may be more influential in shaping dietary selection in this marsupial predator, such as high rates of encounter between lycosids and S. youngsoni.},
}

Animals
Energy Metabolism/*physiology
*Food Chain
Marsupialia/*physiology
*Models, Biological
*Predatory Behavior
Spiders

@article {pmid30082408,
year = {2018},
author = {Ni, X and Groffman, PM},
title = {Declines in methane uptake in forest soils.},
journal = {Proceedings of the National Academy of Sciences of the United States of America},
volume = {115},
number = {34},
pages = {8587-8590},
pmid = {30082408},
issn = {1091-6490},
mesh = {*Forests ; Maryland ; Methane/*metabolism ; *Models, Biological ; *Soil ; },
abstract = {Forest soils are a sink for atmospheric methane (CH4) and play an important role in modulating the global CH4 budget. However, whether CH4 uptake by forest soils is affected by global environmental change is unknown. We measured soil to atmosphere net CH4 fluxes in temperate forests at two long-term ecological research sites in the northeastern United States from the late 1990s to the mid-2010s. We found that annual soil CH4 uptake decreased by 62% and 53% in urban and rural forests in Baltimore, Maryland and by 74% and 89% in calcium-fertilized and reference forests at Hubbard Brook, New Hampshire over this period. This decrease occurred despite marked declines in nitrogen deposition and increases in atmospheric CH4 concentration and temperature, which should lead to increases in CH4 uptake. This decrease in soil CH4 uptake appears to be driven by increases in precipitation and soil hydrological flux. Furthermore, an analysis of CH4 uptake around the globe showed that CH4 uptake in forest soils has decreased by an average of 77% from 1988 to 2015, particularly in forests located from 0 to 60 °N latitude where precipitation has been increasing. We conclude that the soil CH4 sink may be declining and overestimated in several regions across the globe.},
}

*Forests
Maryland
Methane/*metabolism
*Models, Biological
*Soil

@article {pmid29996410,
year = {2018},
author = {Vuorenmaa, J and Augustaitis, A and Beudert, B and Bochenek, W and Clarke, N and de Wit, HA and Dirnböck, T and Frey, J and Hakola, H and Kleemola, S and Kobler, J and Krám, P and Lindroos, AJ and Lundin, L and Löfgren, S and Marchetto, A and Pecka, T and Schulte-Bisping, H and Skotak, K and Srybny, A and Szpikowski, J and Ukonmaanaho, L and Váňa, M and Åkerblom, S and Forsius, M},
title = {Long-term changes (1990-2015) in the atmospheric deposition and runoff water chemistry of sulphate, inorganic nitrogen and acidity for forested catchments in Europe in relation to changes in emissions and hydrometeorological conditions.},
journal = {The Science of the total environment},
volume = {625},
number = {},
pages = {1129-1145},
doi = {10.1016/j.scitotenv.2017.12.245},
pmid = {29996410},
issn = {1879-1026},
abstract = {The international Long-Term Ecological Research Network (ILTER) encompasses hundreds of long-term research/monitoring sites located in a wide array of ecosystems that can help us understand environmental change across the globe. We evaluated long-term trends (1990-2015) for bulk deposition, throughfall and runoff water chemistry and fluxes, and climatic variables in 25 forested catchments in Europe belonging to the UNECE International Cooperative Programme on Integrated Monitoring of Air Pollution Effects on Ecosystems (ICP IM). Many of the IM sites form part of the monitoring infrastructures of this larger ILTER network. Trends were evaluated for monthly concentrations of non-marine (anthropogenic fraction, denoted as x) sulphate (xSO4) and base cations x(Ca+Mg), hydrogen ion (H+), inorganic N (NO3 and NH4) and ANC (Acid Neutralising Capacity) and their respective fluxes into and out of the catchments and for monthly precipitation, runoff and air temperature. A significant decrease of xSO4 deposition resulted in decreases in concentrations and fluxes of xSO4 in runoff, being significant at 90% and 60% of the sites, respectively. Bulk deposition of NO3 and NH4 decreased significantly at 60-80% (concentrations) and 40-60% (fluxes) of the sites. Concentrations and fluxes of NO3 in runoff decreased at 73% and 63% of the sites, respectively, and NO3 concentrations decreased significantly at 50% of the sites. Thus, the LTER/ICP IM network confirms the positive effects of the emission reductions in Europe. Air temperature increased significantly at 61% of the sites, while trends for precipitation and runoff were rarely significant. The site-specific variation of xSO4 concentrations in runoff was most strongly explained by deposition. Climatic variables and deposition explained the variation of inorganic N concentrations in runoff at single sites poorly, and as yet there are no clear signs of a consistent deposition-driven or climate-driven increase in inorganic N exports in the catchments.},
}

@article {pmid29940083,
year = {2019},
author = {Mata, VA and Rebelo, H and Amorim, F and McCracken, GF and Jarman, S and Beja, P},
title = {How much is enough? Effects of technical and biological replication on metabarcoding dietary analysis.},
journal = {Molecular ecology},
volume = {28},
number = {2},
pages = {165-175},
doi = {10.1111/mec.14779},
pmid = {29940083},
issn = {1365-294X},
support = {//EDP Energias de Portugal/International ; IF/00497/2013//Fundação para Ciência e Tecnologia/International ; LTER/BIA-BEC/0004/2009//Fundação para Ciência e Tecnologia/International ; PD/BD/113462/2015//Fundação para Ciência e Tecnologia/International ; PD/BD/52606/2014//Fundação para Ciência e Tecnologia/International ; 668981//EU Horizon 2020/International ; },
abstract = {DNA metabarcoding is increasingly used in dietary studies to estimate diversity, composition and frequency of occurrence of prey items. However, few studies have assessed how technical and biological replication affect the accuracy of diet estimates. This study addresses these issues using the European free-tailed bat Tadarida teniotis, involving high-throughput sequencing of a small fragment of the COI gene in 15 separate faecal pellets and a 15-pellet pool per each of 20 bats. We investigated how diet descriptors were affected by variability among (a) individuals, (b) pellets of each individual and (c) PCRs of each pellet. In addition, we investigated the impact of (d) analysing separate pellets vs. pellet pools. We found that diet diversity estimates increased steadily with the number of pellets analysed per individual, with seven pellets required to detect ~80% of prey species. Most variation in diet composition was associated with differences among individual bats, followed by pellets per individual and PCRs per pellet. The accuracy of frequency of occurrence estimates increased with the number of pellets analysed per bat, with the highest error rates recorded for prey consumed infrequently by many individuals. Pools provided poor estimates of diet diversity and frequency of occurrence, which were comparable to analysing a single pellet per individual, and consistently missed the less common prey items. Overall, our results stress that maximizing biological replication is critical in dietary metabarcoding studies and emphasize that analysing several samples per individual rather than pooled samples produce more accurate results.},
}

@article {pmid29929254,
year = {2018},
author = {Rogora, M and Frate, L and Carranza, ML and Freppaz, M and Stanisci, A and Bertani, I and Bottarin, R and Brambilla, A and Canullo, R and Carbognani, M and Cerrato, C and Chelli, S and Cremonese, E and Cutini, M and Di Musciano, M and Erschbamer, B and Godone, D and Iocchi, M and Isabellon, M and Magnani, A and Mazzola, L and Morra di Cella, U and Pauli, H and Petey, M and Petriccione, B and Porro, F and Psenner, R and Rossetti, G and Scotti, A and Sommaruga, R and Tappeiner, U and Theurillat, JP and Tomaselli, M and Viglietti, D and Viterbi, R and Vittoz, P and Winkler, M and Matteucci, G},
title = {Assessment of climate change effects on mountain ecosystems through a cross-site analysis in the Alps and Apennines.},
journal = {The Science of the total environment},
volume = {624},
number = {},
pages = {1429-1442},
doi = {10.1016/j.scitotenv.2017.12.155},
pmid = {29929254},
issn = {1879-1026},
abstract = {Mountain ecosystems are sensitive and reliable indicators of climate change. Long-term studies may be extremely useful in assessing the responses of high-elevation ecosystems to climate change and other anthropogenic drivers from a broad ecological perspective. Mountain research sites within the LTER (Long-Term Ecological Research) network are representative of various types of ecosystems and span a wide bioclimatic and elevational range. Here, we present a synthesis and a review of the main results from ecological studies in mountain ecosystems at 20 LTER sites in Italy, Switzerland and Austria covering in most cases more than two decades of observations. We analyzed a set of key climate parameters, such as temperature and snow cover duration, in relation to vascular plant species composition, plant traits, abundance patterns, pedoclimate, nutrient dynamics in soils and water, phenology and composition of freshwater biota. The overall results highlight the rapid response of mountain ecosystems to climate change, with site-specific characteristics and rates. As temperatures increased, vegetation cover in alpine and subalpine summits increased as well. Years with limited snow cover duration caused an increase in soil temperature and microbial biomass during the growing season. Effects on freshwater ecosystems were also observed, in terms of increases in solutes, decreases in nitrates and changes in plankton phenology and benthos communities. This work highlights the importance of comparing and integrating long-term ecological data collected in different ecosystems for a more comprehensive overview of the ecological effects of climate change. Nevertheless, there is a need for (i) adopting co-located monitoring site networks to improve our ability to obtain sound results from cross-site analysis, (ii) carrying out further studies, in particular short-term analyses with fine spatial and temporal resolutions to improve our understanding of responses to extreme events, and (iii) increasing comparability and standardizing protocols across networks to distinguish local patterns from global patterns.},
}

@article {pmid29900358,
year = {2018},
author = {Cibic, T and Comici, C and Falconi, C and Fornasaro, D and Karuza, A and Lipizer, M},
title = {Phytoplankton community and physical-chemical data measured in the Gulf of Trieste (northern Adriatic Sea) over the period March 2006-February 2007.},
journal = {Data in brief},
volume = {19},
number = {},
pages = {586-593},
pmid = {29900358},
issn = {2352-3409},
abstract = {Biological, hydrological and chemical data were acquired at monthly intervals from March 2006 to February 2007, at the Long-Term Ecological Research site C1 in the Gulf of Trieste, in the northernmost part of the Adriatic Sea. The biological dataset comprises total chl a and phaeopigment concentrations, and the distinction of the total phytoplankton biomass into three photoautotrophic community fractions, i.e. cyanobacteria, nano- and microphytoplankton, collected at discrete depths. Hydrological data encompass the thermohaline properties of the water column (temperature and salinity profiles from CTD casts). Chemical data consist of silicate and phosphate concentrations obtained from discrete seawater samples collected with Niskin bottles at four depths (0.5-5-10-15 m). Data presented here are related to the paper "Structural and functional response of phytoplankton to reduced river inputs and anomalous physical-chemical conditions in the Gulf of Trieste (northern Adriatic Sea) by Cibic et al. (2018) [1].},
}

@article {pmid29898563,
year = {2018},
author = {Kogovšek, T and Vodopivec, M and Raicich, F and Uye, SI and Malej, A},
title = {Comparative analysis of the ecosystems in the northern Adriatic Sea and the Inland Sea of Japan: Can anthropogenic pressures disclose jellyfish outbreaks?.},
journal = {The Science of the total environment},
volume = {626},
number = {},
pages = {982-994},
doi = {10.1016/j.scitotenv.2018.01.011},
pmid = {29898563},
issn = {1879-1026},
mesh = {Animals ; *Ecosystem ; Environmental Monitoring/*methods ; Eutrophication ; Italy ; Japan ; Oceans and Seas ; Population Growth ; Scyphozoa/*growth & development ; Seawater/chemistry ; Temperature ; Water Pollution/analysis/statistics & numerical data ; },
abstract = {A prominent increase in the moon jellyfish (genus Aurelia) populations has been observed since 1980 in two semi-enclosed temperate seas: the northern Adriatic Sea and the Inland Sea of Japan. Therefore, we reviewed long-term environmental and biotic data from the two Long-Term Ecological Research (LTER) sites, along with the increase in the moon jellyfish occurrence to elucidate how these coastal seas shifted to the jellyfish-dominated ecosystems. The principal component analysis of atmospheric data revealed a simultaneous occurrence of similar climatic changes in the early 1980s; thereafter, air temperature increased steadily and precipitation decreased but became more extreme. Accordingly, the average seawater temperature from March to October, a period of polyps' asexual reproduction i.e. budding, increased, potentially leading to an increase in the reproductive rates of local polyp populations. Conspicuous eutrophication occurred due to the rise of anthropogenic activities in both areas from the 1960s onwards. This coincided with an increase of the stock size of forage fishes, such as anchovy and sardine, but not the population size of the jellyfish. However, by the end of the 1980s, when the eutrophication lessened due to the regulations of nutrients loads from the land, the productive fishing grounds of both systems turned into a state that may be described as 'jellyfish-permeated,' as manifested by a drastic decrease in fish landings and a prominent increase in the intensity and frequency of medusa blooms. A steady increase in artificial marine structures that provide substrate for newly settled polyps might further contribute to the enhancement of jellyfish population size. Elevated fishing pressure and/or predation by jellyfish on ichthyoplankton and zooplankton might jeopardize the recruitment of anchovy, so that the anchovy catch has never recovered fully. These semi-enclosed seas may represent many temperate coastal waters with increased anthropogenic stressors, which have degraded the ecosystem from fish-dominated to jellyfish-dominated.},
}

Animals
*Ecosystem
Environmental Monitoring/*methods
Eutrophication
Italy
Japan
Oceans and Seas
Population Growth
Scyphozoa/*growth & development
Seawater/chemistry
Temperature
Water Pollution/analysis/statistics & numerical data

@article {pmid29898550,
year = {2018},
author = {Mirtl, M and T Borer, E and Djukic, I and Forsius, M and Haubold, H and Hugo, W and Jourdan, J and Lindenmayer, D and McDowell, WH and Muraoka, H and Orenstein, DE and Pauw, JC and Peterseil, J and Shibata, H and Wohner, C and Yu, X and Haase, P},
title = {Genesis, goals and achievements of Long-Term Ecological Research at the global scale: A critical review of ILTER and future directions.},
journal = {The Science of the total environment},
volume = {626},
number = {},
pages = {1439-1462},
doi = {10.1016/j.scitotenv.2017.12.001},
pmid = {29898550},
issn = {1879-1026},
abstract = {Since its founding in 1993 the International Long-term Ecological Research Network (ILTER) has gone through pronounced development phases. The current network comprises 44 active member LTER networks representing 700 LTER Sites and ~80 LTSER Platforms across all continents, active in the fields of ecosystem, critical zone and socio-ecological research. The critical challenges and most important achievements of the initial phase have now become state-of-the-art in networking for excellent science. At the same time increasing integration, accelerating technology, networking of resources and a strong pull for more socially relevant scientific information have been modifying the mission and goals of ILTER. This article provides a critical review of ILTER's mission, goals, development and impacts. Major characteristics, tools, services, partnerships and selected examples of relative strengths relevant for advancing ILTER are presented. We elaborate on the tradeoffs between the needs of the scientific community and stakeholder expectations. The embedding of ILTER in an increasingly collaborative landscape of global environmental observation and ecological research networks and infrastructures is also reflected by developments of pioneering regional and national LTER networks such as SAEON in South Africa, CERN/CEOBEX in China, TERN in Australia or eLTER RI in Europe. The primary role of ILTER is currently seen as a mechanism to investigate ecosystem structure, function, and services in response to a wide range of environmental forcings using long-term, place-based research. We suggest four main fields of activities and advancements for the next decade through development/delivery of a: (1) Global multi-disciplinary community of researchers and research institutes; (2) Strategic global framework and strong partnerships in ecosystem observation and research; (3) Global Research Infrastructure (GRI); and (4) a scientific knowledge factory for societally relevant information on sustainable use of natural resources.},
}

@article {pmid29898505,
year = {2018},
author = {Haase, P and Tonkin, JD and Stoll, S and Burkhard, B and Frenzel, M and Geijzendorffer, IR and Häuser, C and Klotz, S and Kühn, I and McDowell, WH and Mirtl, M and Müller, F and Musche, M and Penner, J and Zacharias, S and Schmeller, DS},
title = {The next generation of site-based long-term ecological monitoring: Linking essential biodiversity variables and ecosystem integrity.},
journal = {The Science of the total environment},
volume = {613-614},
number = {},
pages = {1376-1384},
doi = {10.1016/j.scitotenv.2017.08.111},
pmid = {29898505},
issn = {1879-1026},
mesh = {*Biodiversity ; Decision Making ; *Ecosystem ; Environmental Monitoring/*methods/statistics & numerical data ; *Environmental Policy ; },
abstract = {Global change effects on biodiversity and human wellbeing call for improved long-term environmental data as a basis for science, policy and decision making, including increased interoperability, multifunctionality, and harmonization. Based on the example of two global initiatives, the International Long-Term Ecological Research (ILTER) network and the Group on Earth Observations Biodiversity Observation Network (GEO BON), we propose merging the frameworks behind these initiatives, namely ecosystem integrity and essential biodiversity variables, to serve as an improved guideline for future site-based long-term research and monitoring in terrestrial, freshwater and coastal ecosystems. We derive a list of specific recommendations of what and how to measure at a monitoring site and call for an integration of sites into co-located site networks across individual monitoring initiatives, and centered on ecosystems. This facilitates the generation of linked comprehensive ecosystem monitoring data, supports synergies in the use of costly infrastructures, fosters cross-initiative research and provides a template for collaboration beyond the ILTER and GEO BON communities.},
}

*Biodiversity
Decision Making
*Ecosystem
Environmental Monitoring/*methods/statistics & numerical data
*Environmental Policy

@article {pmid29892379,
year = {2018},
author = {Potter, TI and Greenville, AC and Dickman, CR},
title = {Assessing the potential for intraguild predation among taxonomically disparate micro-carnivores: marsupials and arthropods.},
journal = {Royal Society open science},
volume = {5},
number = {5},
pages = {171872},
pmid = {29892379},
issn = {2054-5703},
abstract = {Interspecific competition may occur when resources are limited, and is often most intense between animals in the same ecological guild. Intraguild predation (IGP) is a distinctive form of interference competition, where a dominant predator selectively kills subordinate rivals to gain increased access to resources. However, before IGP can be identified, organisms must be confirmed as members of the same guild and occur together in space and time. The lesser hairy-footed dunnart (Sminthopsis youngsoni, Dasyuridae) is a generalist marsupial insectivore in arid Australia, but consumes wolf spiders (Lycosa spp., Lycosidae) disproportionately often relative to their availability. Here, we test the hypothesis that this disproportionate predation is a product of frequent encounter rates between the interactants due to high overlap in their diets and use of space and time. Diet and prey availability were determined using direct observations and invertebrate pitfall trapping, microhabitat use by tracking individuals of both species-groups, and temporal activity using spotlighting and camera traps. Major overlap (greater than 75% similarity) was found in diet and temporal activity, and weaker overlap in microhabitat use. Taken together, these findings suggest reasonable potential, for the first time, for competition and intraguild predation to occur between taxa as disparate as marsupials and spiders.},
}

@article {pmid29890590,
year = {2018},
author = {Dick, J and Orenstein, DE and Holzer, JM and Wohner, C and Achard, AL and Andrews, C and Avriel-Avni, N and Beja, P and Blond, N and Cabello, J and Chen, C and Díaz-Delgado, R and Giannakis, GV and Gingrich, S and Izakovicova, Z and Krauze, K and Lamouroux, N and Leca, S and Melecis, V and Miklós, K and Mimikou, M and Niedrist, G and Piscart, C and Postolache, C and Psomas, A and Santos-Reis, M and Tappeiner, U and Vanderbilt, K and Van Ryckegem, G},
title = {What is socio-ecological research delivering? A literature survey across 25 international LTSER platforms.},
journal = {The Science of the total environment},
volume = {622-623},
number = {},
pages = {1225-1240},
doi = {10.1016/j.scitotenv.2017.11.324},
pmid = {29890590},
issn = {1879-1026},
abstract = {With an overarching goal of addressing global and regional sustainability challenges, Long Term Socio-Ecological Research Platforms (LTSER) aim to conduct place-based research, to collect and synthesize both environmental and socio-economic data, and to involve a broader stakeholder pool to set the research agenda. To date there have been few studies examining the output from LTSER platforms. In this study we enquire if the socio-ecological research from 25 self-selected LTSER platforms of the International Long-Term Ecological Research (ILTER) network has produced research products which fulfil the aims and ambitions of the paradigm shift from ecological to socio-ecological research envisaged at the turn of the century. In total we assessed 4983 publically available publications, of which 1112 were deemed relevant to the socio-ecological objectives of the platform. A series of 22 questions were scored for each publication, assessing relevance of responses in terms of the disciplinary focus of research, consideration of human health and well-being, degree of stakeholder engagement, and other relevant variables. The results reflected the diverse origins of the individual platforms and revealed a wide range in foci, temporal periods and quantity of output from participating platforms, supporting the premise that there is a growing trend in socio-ecological research at long-term monitoring platforms. Our review highlights the challenges of realizing the top-down goal to harmonize international network activities and objectives and the need for bottom-up, self-definition for research platforms. This provides support for increasing the consistency of LTSER research while preserving the diversity of regional experiences.},
}

@article {pmid29860010,
year = {2018},
author = {Holmberg, M and Aherne, J and Austnes, K and Beloica, J and De Marco, A and Dirnböck, T and Fornasier, MF and Goergen, K and Futter, M and Lindroos, AJ and Krám, P and Neirynck, J and Nieminen, TM and Pecka, T and Posch, M and Pröll, G and Rowe, EC and Scheuschner, T and Schlutow, A and Valinia, S and Forsius, M},
title = {Modelling study of soil C, N and pH response to air pollution and climate change using European LTER site observations.},
journal = {The Science of the total environment},
volume = {640-641},
number = {},
pages = {387-399},
doi = {10.1016/j.scitotenv.2018.05.299},
pmid = {29860010},
issn = {1879-1026},
abstract = {Current climate warming is expected to continue in coming decades, whereas high N deposition may stabilize, in contrast to the clear decrease in S deposition. These pressures have distinctive regional patterns and their resulting impact on soil conditions is modified by local site characteristics. We have applied the VSD+ soil dynamic model to study impacts of deposition and climate change on soil properties, using MetHyd and GrowUp as pre-processors to provide input to VSD+. The single-layer soil model VSD+ accounts for processes of organic C and N turnover, as well as charge and mass balances of elements, cation exchange and base cation weathering. We calibrated VSD+ at 26 ecosystem study sites throughout Europe using observed conditions, and simulated key soil properties: soil solution pH (pH), soil base saturation (BS) and soil organic carbon and nitrogen ratio (C:N) under projected deposition of N and S, and climate warming until 2100. The sites are forested, located in the Mediterranean, forested alpine, Atlantic, continental and boreal regions. They represent the long-term ecological research (LTER) Europe network, including sites of the ICP Forests and ICP Integrated Monitoring (IM) programmes under the UNECE Convention on Long-range Transboundary Air Pollution (LRTAP), providing high quality long-term data on ecosystem response. Simulated future soil conditions improved under projected decrease in deposition and current climate conditions: higher pH, BS and C:N at 21, 16 and 12 of the sites, respectively. When climate change was included in the scenario analysis, the variability of the results increased. Climate warming resulted in higher simulated pH in most cases, and higher BS and C:N in roughly half of the cases. Especially the increase in C:N was more marked with climate warming. The study illustrates the value of LTER sites for applying models to predict soil responses to multiple environmental changes.},
}

@article {pmid29760116,
year = {2018},
author = {Schofield, O and Brown, M and Kohut, J and Nardelli, S and Saba, G and Waite, N and Ducklow, H},
title = {Changes in the upper ocean mixed layer and phytoplankton productivity along the West Antarctic Peninsula.},
journal = {Philosophical transactions. Series A, Mathematical, physical, and engineering sciences},
volume = {376},
number = {2122},
pages = {},
pmid = {29760116},
issn = {1471-2962},
abstract = {The West Antarctic Peninsula (WAP) has experienced significant change over the last 50 years. Using a 24 year spatial time series collected by the Palmer Long Term Ecological Research programme, we assessed long-term patterns in the sea ice, upper mixed layer depth (MLD) and phytoplankton productivity. The number of sea ice days steadily declined from the 1980s until a recent reversal that began in 2008. Results show regional differences between the northern and southern regions sampled during regional ship surveys conducted each austral summer. In the southern WAP, upper ocean MLD has shallowed by a factor of 2. Associated with the shallower mixed layer is enhanced phytoplankton carbon fixation. In the north, significant interannual variability resulted in the mixed layer showing no trended change over time and there was no significant increase in the phytoplankton productivity. Associated with the recent increases in sea ice there has been an increase in the photosynthetic efficiency (chlorophyll a-normalized carbon fixation) in the northern and southern regions of the WAP. We hypothesize the increase in sea ice results in increased micronutrient delivery to the continental shelf which in turn leads to enhanced photosynthetic performance.This article is part of the theme issue 'The marine system of the West Antarctic Peninsula: status and strategy for progress in a region of rapid change'.},
}

@article {pmid29758883,
year = {2018},
author = {Xia, S and Liu, Y and Yu, X and Fu, B},
title = {Challenges in coupling LTER with environmental assessments: An insight from potential and reality of the Chinese Ecological Research Network in servicing environment assessments.},
journal = {The Science of the total environment},
volume = {633},
number = {},
pages = {1302-1313},
doi = {10.1016/j.scitotenv.2018.03.284},
pmid = {29758883},
issn = {1879-1026},
abstract = {Environmental assessments estimate, evaluate and predict the consequences of natural processes and human activities on the environment. Long-term ecosystem observation and research networks (LTERs) are potentially valuable infrastructure to support environmental assessments. However, very few environmental assessments have successfully incorporated them. In this study, we try to reveal the current status of coupling LTERs with environmental assessments and look at the challenges involved in improving this coupling through exploring the role that Chinese Ecological Research Network (CERN), the LTER of China, currently plays in regional environment assessments. A review of official protocols and standards, regional assessments and CERN researches related to ecosystems and environment shows that there is great potential for coupling CERN with environment assessments. However in practice, CERN does not currently play the expected role. Remote sensing and irregular inventory data are still the main data sources currently used in regional assessments. Several causes led to the present situation: (1) insufficient cross-site research and failure to scale up site-level variables to the regional scale; (2) data barriers resulting from incompatible protocols and low data usability due to lack of data assimilation and scaling; and (3) absence of indicators relevant to human activities in existing monitoring protocols. For these reasons, enhancing cross-site monitoring and research, data assimilation and scaling up are critical steps required to improve coupling of LTER with environmental assessments. Site-focused long-term monitoring should be combined with wide-scale ground surveys and remote sensing to establish an effective connection between different environmental monitoring platforms for regional assessments. It is also necessary to revise the current monitoring protocols to include human activities and their impacts on the ecosystem, or change the LTERs into Long-Term Socio-Ecological Research (LTSER) networks.},
}

@article {pmid29732670,
year = {2018},
author = {Carlson, CJ and Getz, WM and Kausrud, KL and Cizauskas, CA and Blackburn, JK and Bustos Carrillo, FA and Colwell, R and Easterday, WR and Ganz, HH and Kamath, PL and Økstad, OA and Turner, WC and Kolstø, AB and Stenseth, NC},
title = {Spores and soil from six sides: interdisciplinarity and the environmental biology of anthrax (Bacillus anthracis).},
journal = {Biological reviews of the Cambridge Philosophical Society},
volume = {93},
number = {4},
pages = {1813-1831},
doi = {10.1111/brv.12420},
pmid = {29732670},
issn = {1469-185X},
mesh = {Animals ; Anthrax/microbiology ; Bacillus anthracis/*genetics/*physiology ; Humans ; *Interdisciplinary Research ; *Soil Microbiology ; *Spores, Bacterial ; },
abstract = {Environmentally transmitted diseases are comparatively poorly understood and managed, and their ecology is particularly understudied. Here we identify challenges of studying environmental transmission and persistence with a six-sided interdisciplinary review of the biology of anthrax (Bacillus anthracis). Anthrax is a zoonotic disease capable of maintaining infectious spore banks in soil for decades (or even potentially centuries), and the mechanisms of its environmental persistence have been the topic of significant research and controversy. Where anthrax is endemic, it plays an important ecological role, shaping the dynamics of entire herbivore communities. The complex eco-epidemiology of anthrax, and the mysterious biology of Bacillus anthracis during its environmental stage, have necessitated an interdisciplinary approach to pathogen research. Here, we illustrate different disciplinary perspectives through key advances made by researchers working in Etosha National Park, a long-term ecological research site in Namibia that has exemplified the complexities of the enzootic process of anthrax over decades of surveillance. In Etosha, the role of scavengers and alternative routes (waterborne transmission and flies) has proved unimportant relative to the long-term persistence of anthrax spores in soil and their infection of herbivore hosts. Carcass deposition facilitates green-ups of vegetation to attract herbivores, potentially facilitated by the role of anthrax spores in the rhizosphere. The underlying seasonal pattern of vegetation, and herbivores' immune and behavioural responses to anthrax risk, interact to produce regular 'anthrax seasons' that appear to be a stable feature of the Etosha ecosystem. Through the lens of microbiologists, geneticists, immunologists, ecologists, epidemiologists, and clinicians, we discuss how anthrax dynamics are shaped at the smallest scale by population genetics and interactions within the bacterial communities up to the broadest scales of ecosystem structure. We illustrate the benefits and challenges of this interdisciplinary approach to disease ecology, and suggest ways anthrax might offer insights into the biology of other important pathogens. Bacillus anthracis, and the more recently emerged Bacillus cereus biovar anthracis, share key features with other environmentally transmitted pathogens, including several zoonoses and panzootics of special interest for global health and conservation efforts. Understanding the dynamics of anthrax, and developing interdisciplinary research programs that explore environmental persistence, is a critical step forward for understanding these emerging threats.},
}

Animals
Anthrax/microbiology
Bacillus anthracis/*genetics/*physiology
Humans
*Interdisciplinary Research
*Soil Microbiology
*Spores, Bacterial

@article {pmid29708645,
year = {2018},
author = {Herren, CM and McMahon, KD},
title = {Keystone taxa predict compositional change in microbial communities.},
journal = {Environmental microbiology},
volume = {20},
number = {6},
pages = {2207-2217},
doi = {10.1111/1462-2920.14257},
pmid = {29708645},
issn = {1462-2920},
support = {DGE- 1256259//National Science Foundation/ ; DGE-1256259//United States National Science Foundation (NSF) GRFP award/ ; NTL-LTER DEB-1440297//NSF Long Term Ecological Research program/ ; DEB-1344254//INSPIRE award/ ; Hatch Project 1002996//National Institute of Food and Agriculture, U.S. Department of Agriculture/ ; },
abstract = {The influence of biotic interactions on microbial community assembly is intensely debated. We hypothesized that keystone taxa, which influence community assembly through strong biotic interactions, are important for regulating microbial community composition. While highly connected microbes have been identified, evidence that these taxa act as keystones is lacking, because keystone status requires influence on whole-community dynamics. We address this gap, showing that small subsets of highly connected keystone taxa (generally 1%-5% of richness) can be optimal predictors of whole-community compositional change. In three long-term data sets, greater connectivity due to the presence of keystone taxa corresponded to lower compositional turnover. We further hypothesized that the influence of keystone taxa would be diminished when environmental disturbance was a strong driver of compositional change. We used two case studies of reference and disturbed communities to investigate how biotic and abiotic forces interact to shape community composition. Most of the same taxa were present in both the reference and disturbed communities, but keystone taxa had much greater explanatory power in the reference communities. Our results suggest that greater biotic connectivity arising from the presence of keystone taxa is stabilizing to community composition, and that keystone taxa can be good indicators of pending community shifts.},
}

@article {pmid29635875,
year = {2018},
author = {Bowman, JS and Kavanaugh, MT and Doney, SC and Ducklow, HW},
title = {Recurrent seascape units identify key ecological processes along the western Antarctic Peninsula.},
journal = {Global change biology},
volume = {24},
number = {7},
pages = {3065-3078},
doi = {10.1111/gcb.14161},
pmid = {29635875},
issn = {1365-2486},
mesh = {Antarctic Regions ; Biomass ; *Climate Change ; *Ecosystem ; Ice Cover ; Phytoplankton ; Seasons ; Temperature ; },
abstract = {The western Antarctic Peninsula (WAP) is a bellwether of global climate change and natural laboratory for identifying interactions between climate and ecosystems. The Palmer Long-Term Ecological Research (LTER) project has collected data on key ecological and environmental processes along the WAP since 1993. To better understand how key ecological parameters are changing across space and time, we developed a novel seascape classification approach based on in situ temperature, salinity, chlorophyll a, nitrate + nitrite, phosphate, and silicate. We anticipate that this approach will be broadly applicable to other geographical areas. Through the application of self-organizing maps (SOMs), we identified eight recurrent seascape units (SUs) in these data. These SUs have strong fidelity to known regional water masses but with an additional layer of biogeochemical detail, allowing us to identify multiple distinct nutrient profiles in several water masses. To identify the temporal and spatial distribution of these SUs, we mapped them across the Palmer LTER sampling grid via objective mapping of the original parameters. Analysis of the abundance and distribution of SUs since 1993 suggests two year types characterized by the partitioning of chlorophyll a into SUs with different spatial characteristics. By developing generalized linear models for correlated, time-lagged external drivers, we conclude that early spring sea ice conditions exert a strong influence on the distribution of chlorophyll a and nutrients along the WAP, but not necessarily the total chlorophyll a inventory. Because the distribution and density of phytoplankton biomass can have an impact on biomass transfer to the upper trophic levels, these results highlight anticipated links between the WAP marine ecosystem and climate.},
}

Antarctic Regions
Biomass
*Climate Change
*Ecosystem
Ice Cover
Phytoplankton
Seasons
Temperature

@article {pmid29627562,
year = {2018},
author = {Greenville, AC and Burns, E and Dickman, CR and Keith, DA and Lindenmayer, DB and Morgan, JW and Heinze, D and Mansergh, I and Gillespie, GR and Einoder, L and Fisher, A and Russell-Smith, J and Metcalfe, DJ and Green, PT and Hoffmann, AA and Wardle, GM},
title = {Biodiversity responds to increasing climatic extremes in a biome-specific manner.},
journal = {The Science of the total environment},
volume = {634},
number = {},
pages = {382-393},
doi = {10.1016/j.scitotenv.2018.03.285},
pmid = {29627562},
issn = {1879-1026},
abstract = {An unprecedented rate of global environmental change is predicted for the next century. The response to this change by ecosystems around the world is highly uncertain. To address this uncertainty, it is critical to understand the potential drivers and mechanisms of change in order to develop more reliable predictions. Australia's Long Term Ecological Research Network (LTERN) has brought together some of the longest running (10-60years) continuous environmental monitoring programs in the southern hemisphere. Here, we compare climatic variables recorded at five LTERN plot network sites during their period of operation and place them into the context of long-term climatic trends. Then, using our unique Australian long-term datasets (total 117 survey years across four biomes), we synthesize results from a series of case studies to test two hypotheses: 1) extreme weather events for each plot network have increased over the last decade, and; 2) trends in biodiversity will be associated with recent climate change, either directly or indirectly through climate-mediated disturbance (wildfire) responses. We examined the biodiversity responses to environmental change for evidence of non-linear behavior. In line with hypothesis 1), an increase in extreme climate events occurred within the last decade for each plot network. For hypothesis 2), climate, wildfire, or both were correlated with biodiversity responses at each plot network, but there was no evidence of non-linear change. However, the influence of climate or fire was context-specific. Biodiversity responded to recent climate change either directly or indirectly as a consequence of changes in fire regimes or climate-mediated fire responses. A national long-term monitoring framework allowed us to find contrasting species abundance or community responses to climate and disturbance across four of the major biomes of Australia, highlighting the need to establish and resource long-term monitoring programs across representative ecosystem types, which are likely to show context-specific responses.},
}

@article {pmid29623101,
year = {2018},
author = {Sari, M and Tuna, C},
title = {Prediction of Pathological Subjects Using Genetic Algorithms.},
journal = {Computational and mathematical methods in medicine},
volume = {2018},
number = {},
pages = {6154025},
pmid = {29623101},
issn = {1748-6718},
mesh = {Adolescent ; Adult ; Aged ; *Algorithms ; *Cluster Analysis ; Humans ; Knee Injuries/*diagnosis ; Middle Aged ; Models, Theoretical ; Mutation ; Programming Languages ; Range of Motion, Articular ; Reproducibility of Results ; Rotation ; Tibia/*physiology/*physiopathology ; Young Adult ; },
abstract = {This paper aims at estimating pathological subjects from a population through various physical information using genetic algorithm (GA). For comparison purposes, K-Means (KM) clustering algorithm has also been used for the estimation. Dataset consisting of some physical factors (age, weight, and height) and tibial rotation values was provided from the literature. Tibial rotation types are four groups as RTER, RTIR, LTER, and LTIR. Each tibial rotation group is divided into three types. Narrow (Type 1) and wide (Type 3) angular values were called pathological and normal (Type 2) angular values were called nonpathological. Physical information was used to examine if the tibial rotations of the subjects were pathological. Since the GA starts randomly and walks all solution space, the GA is seen to produce far better results than the KM for clustering and optimizing the tibial rotation data assessments with large number of subjects even though the KM algorithm has similar effect with the GA in clustering with a small number of subjects. These findings are discovered to be very useful for all health workers such as physiotherapists and orthopedists, in which this consequence is expected to help clinicians in organizing proper treatment programs for patients.},
}

Adolescent
Adult
Aged
*Algorithms
*Cluster Analysis
Humans
Knee Injuries/*diagnosis
Middle Aged
Models, Theoretical
Mutation
Programming Languages
Range of Motion, Articular
Reproducibility of Results
Rotation
Tibia/*physiology/*physiopathology
Young Adult

@article {pmid29603190,
year = {2018},
author = {Prather, CM and Belovsky, GE and Cantrell, SA and González, G},
title = {Tropical herbivorous phasmids, but not litter snails, alter decomposition rates by modifying litter bacteria.},
journal = {Ecology},
volume = {99},
number = {4},
pages = {782-791},
doi = {10.1002/ecy.2169},
pmid = {29603190},
issn = {0012-9658},
abstract = {Consumers can alter decomposition rates through both feces and selective feeding in many ecosystems, but these combined effects have seldom been examined in tropical ecosystems. Members of the detrital food web (litter-feeders or microbivores) should presumably have greater effects on decomposition than herbivores, members of the green food web. Using litterbag experiments within a field enclosure experiment, we determined the relative effects of common litter snails (Megalomastoma croceum) and herbivorous walking sticks (Lamponius portoricensis) on litter composition, decomposition rates, and microbes in a Puerto Rican rainforest, and whether consumer effects were altered by canopy cover presence. Although canopy presence did not alter consumers' effects, focal organisms had unexpected influences on decomposition. Decomposition was not altered by litter snails, but herbivorous walking sticks reduced leaf decomposition by about 50% through reductions in high quality litter abundance and, consequently, lower bacterial richness and abundance. This relatively unexplored but potentially important link between tropical herbivores, detritus, and litter microbes in this forest demonstrates the need to consider autotrophic influences when examining rainforest ecosystem processes.},
}

@article {pmid29597270,
year = {2018},
author = {Sari, M and Tuna, C and Akogul, S},
title = {Prediction of Tibial Rotation Pathologies Using Particle Swarm Optimization and K-Means Algorithms.},
journal = {Journal of clinical medicine},
volume = {7},
number = {4},
pages = {},
pmid = {29597270},
issn = {2077-0383},
abstract = {The aim of this article is to investigate pathological subjects from a population through different physical factors. To achieve this, particle swarm optimization (PSO) and K-means (KM) clustering algorithms have been combined (PSO-KM). Datasets provided by the literature were divided into three clusters based on age and weight parameters and each one of right tibial external rotation (RTER), right tibial internal rotation (RTIR), left tibial external rotation (LTER), and left tibial internal rotation (LTIR) values were divided into three types as Type 1, Type 2 and Type 3 (Type 2 is non-pathological (normal) and the other two types are pathological (abnormal)), respectively. The rotation values of every subject in any cluster were noted. Then the algorithm was run and the produced values were also considered. The values of the produced algorithm, the PSO-KM, have been compared with the real values. The hybrid PSO-KM algorithm has been very successful on the optimal clustering of the tibial rotation types through the physical criteria. In this investigation, Type 2 (pathological subjects) is of especially high predictability and the PSO-KM algorithm has been very successful as an operation system for clustering and optimizing the tibial motion data assessments. These research findings are expected to be very useful for health providers, such as physiotherapists, orthopedists, and so on, in which this consequence may help clinicians to appropriately designing proper treatment schedules for patients.},
}

@article {pmid29528525,
year = {2018},
author = {Rowland, JA and Nicholson, E and Murray, NJ and Keith, DA and Lester, RE and Bland, LM},
title = {Selecting and applying indicators of ecosystem collapse for risk assessments.},
journal = {Conservation biology : the journal of the Society for Conservation Biology},
volume = {32},
number = {6},
pages = {1233-1245},
doi = {10.1111/cobi.13107},
pmid = {29528525},
issn = {1523-1739},
support = {LP130100435//Centre of Excellence for Environmental Decisions, Australian Research Council/ ; //Deakin University/ ; //Veski Inspiring Women Fellowship/ ; //Research Training Program Scholarship/ ; },
abstract = {Ongoing ecosystem degradation and transformation are major threats to biodiversity. Measuring ecosystem change toward collapse relies on monitoring indicators that quantify key ecological processes. Yet little guidance is available on selection and use of indicators for ecosystem risk assessment. We reviewed indicator use in ecological studies of ecosystem collapse in marine pelagic and temperate forest ecosystems. We examined indicator-selection methods, indicator types (geographic distribution, abiotic, biotic), methods of assessing multiple indicators, and temporal quality of time series. We compared how these factors were applied in the ecological studies with how they were applied in risk assessments by using the International Union for Conservation of Nature's Red List of Ecosystems (RLE), for which indicators are used to estimate risk of ecosystem collapse. Ecological studies and RLE assessments rarely reported how indicators were selected, particularly in terrestrial ecosystems. Few ecological studies and RLE assessments quantified ecosystem change based on all 3 indicator types, and indicators types used differed between marine and terrestrial ecosystems. Several studies used indices or multivariate analyses to assess multiple indicators simultaneously, but RLE assessments did not because as RLE guidelines advise against them. Most studies and RLE assessments used time-series data that spanned at least 30 years, which increases the probability of reliably detecting change. Limited use of indicator-selection protocols and infrequent use of all 3 indicator types may hamper accurate detection of change. To improve the value of risk assessments for informing policy and management, we recommend using explicit protocols, including conceptual models, to identify and select indicators; a range of indicators spanning distributional, abiotic, and biotic features; indices and multivariate analyses with extreme care until guidelines are developed; time series with sufficient data to increase ability to accurately diagnose directional change; data from multiple sources to support assessments; and explicitly reporting steps in the assessment process.},
}

@article {pmid29503723,
year = {2018},
author = {Orwig, DA and Boucher, P and Paynter, I and Saenz, E and Li, Z and Schaaf, C},
title = {The potential to characterize ecological data with terrestrial laser scanning in Harvard Forest, MA.},
journal = {Interface focus},
volume = {8},
number = {2},
pages = {20170044},
pmid = {29503723},
issn = {2042-8898},
abstract = {Contemporary terrestrial laser scanning (TLS) is being used widely in forest ecology applications to examine ecosystem properties at increasing spatial and temporal scales. Harvard Forest (HF) in Petersham, MA, USA, is a long-term ecological research (LTER) site, a National Ecological Observatory Network (NEON) location and contains a 35 ha plot which is part of Smithsonian Institution's Forest Global Earth Observatory (ForestGEO). The combination of long-term field plots, eddy flux towers and the detailed past historical records has made HF very appealing for a variety of remote sensing studies. Terrestrial laser scanners, including three pioneering research instruments: the Echidna Validation Instrument, the Dual-Wavelength Echidna Lidar and the Compact Biomass Lidar, have already been used both independently and in conjunction with airborne laser scanning data and forest census data to characterize forest dynamics. TLS approaches include three-dimensional reconstructions of a plot over time, establishing the impact of ice storm damage on forest canopy structure, and characterizing eastern hemlock (Tsuga canadensis) canopy health affected by an invasive insect, the hemlock woolly adelgid (Adelges tsugae). Efforts such as those deployed at HF are demonstrating the power of TLS as a tool for monitoring ecological dynamics, identifying emerging forest health issues, measuring forest biomass and capturing ecological data relevant to other disciplines. This paper highlights various aspects of the ForestGEO plot that are important to current TLS work, the potential for exchange between forest ecology and TLS, and emphasizes the strength of combining TLS data with long-term ecological field data to create emerging opportunities for scientific study.},
}

@article {pmid29484805,
year = {2018},
author = {Thomas Clark, A and Lehman, C and Tilman, D},
title = {Identifying mechanisms that structure ecological communities by snapping model parameters to empirically observed tradeoffs.},
journal = {Ecology letters},
volume = {21},
number = {4},
pages = {494-505},
doi = {10.1111/ele.12910},
pmid = {29484805},
issn = {1461-0248},
mesh = {Biota ; *Ecosystem ; Models, Biological ; Plants ; *Species Specificity ; },
abstract = {Theory predicts that interspecific tradeoffs are primary determinants of coexistence and community composition. Using information from empirically observed tradeoffs to augment the parametrisation of mechanism-based models should therefore improve model predictions, provided that tradeoffs and mechanisms are chosen correctly. We developed and tested such a model for 35 grassland plant species using monoculture measurements of three species characteristics related to nitrogen uptake and retention, which previous experiments indicate as important at our site. Matching classical theoretical expectations, these characteristics defined a distinct tradeoff surface, and models parameterised with these characteristics closely matched observations from experimental multi-species mixtures. Importantly, predictions improved significantly when we incorporated information from tradeoffs by 'snapping' characteristics to the nearest location on the tradeoff surface, suggesting that the tradeoffs and mechanisms we identify are important determinants of local community structure. This 'snapping' method could therefore constitute a broadly applicable test for identifying influential tradeoffs and mechanisms.},
}

Biota
*Ecosystem
Models, Biological
Plants
*Species Specificity

@article {pmid29474487,
year = {2018},
author = {Lindenmayer, DB and Blanchard, W and Blair, D and McBurney, L and Stein, J and Banks, SC},
title = {Empirical relationships between tree fall and landscape-level amounts of logging and fire.},
journal = {PloS one},
volume = {13},
number = {2},
pages = {e0193132},
pmid = {29474487},
issn = {1932-6203},
mesh = {*Forestry ; *Forests ; *Fraxinus ; *Models, Theoretical ; *Wind ; },
abstract = {Large old trees are critically important keystone structures in forest ecosystems globally. Populations of these trees are also in rapid decline in many forest ecosystems, making it important to quantify the factors that influence their dynamics at different spatial scales. Large old trees often occur in forest landscapes also subject to fire and logging. However, the effects on the risk of collapse of large old trees of the amount of logging and fire in the surrounding landscape are not well understood. Using an 18-year study in the Mountain Ash (Eucalyptus regnans) forests of the Central Highlands of Victoria, we quantify relationships between the probability of collapse of large old hollow-bearing trees at a site and the amount of logging and the amount of fire in the surrounding landscape. We found the probability of collapse increased with an increasing amount of logged forest in the surrounding landscape. It also increased with a greater amount of burned area in the surrounding landscape, particularly for trees in highly advanced stages of decay. The most likely explanation for elevated tree fall with an increasing amount of logged or burned areas in the surrounding landscape is change in wind movement patterns associated with cutblocks or burned areas. Previous studies show that large old hollow-bearing trees are already at high risk of collapse in our study area. New analyses presented here indicate that additional logging operations in the surrounding landscape will further elevate that risk. Current logging prescriptions require the protection of large old hollow-bearing trees on cutblocks. We suggest that efforts to reduce the probability of collapse of large old hollow-bearing trees on unlogged sites will demand careful landscape planning to limit the amount of timber harvesting in the surrounding landscape.},
}

*Forestry
*Forests
*Fraxinus
*Models, Theoretical
*Wind

@article {pmid29426160,
year = {2018},
author = {Morabito, G and Mazzocchi, MG and Salmaso, N and Zingone, A and Bergami, C and Flaim, G and Accoroni, S and Basset, A and Bastianini, M and Belmonte, G and Bernardi Aubry, F and Bertani, I and Bresciani, M and Buzzi, F and Cabrini, M and Camatti, E and Caroppo, C and Cataletto, B and Castellano, M and Del Negro, P and de Olazabal, A and Di Capua, I and Elia, AC and Fornasaro, D and Giallain, M and Grilli, F and Leoni, B and Lipizer, M and Longobardi, L and Ludovisi, A and Lugliè, A and Manca, M and Margiotta, F and Mariani, MA and Marini, M and Marzocchi, M and Obertegger, U and Oggioni, A and Padedda, BM and Pansera, M and Piscia, R and Povero, P and Pulina, S and Romagnoli, T and Rosati, I and Rossetti, G and Rubino, F and Sarno, D and Satta, CT and Sechi, N and Stanca, E and Tirelli, V and Totti, C and Pugnetti, A},
title = {Plankton dynamics across the freshwater, transitional and marine research sites of the LTER-Italy Network. Patterns, fluctuations, drivers.},
journal = {The Science of the total environment},
volume = {627},
number = {},
pages = {373-387},
doi = {10.1016/j.scitotenv.2018.01.153},
pmid = {29426160},
issn = {1879-1026},
mesh = {Animals ; *Ecosystem ; *Environmental Monitoring ; Italy ; Phytoplankton ; Plankton/*physiology ; Population Dynamics ; Zooplankton ; },
abstract = {A first synoptic and trans-domain overview of plankton dynamics was conducted across the aquatic sites belonging to the Italian Long-Term Ecological Research Network (LTER-Italy). Based on published studies, checked and complemented with unpublished information, we investigated phytoplankton and zooplankton annual dynamics and long-term changes across domains: from the large subalpine lakes to mountain lakes and artificial lakes, from lagoons to marine coastal ecosystems. This study permitted identifying common and unique environmental drivers and ecological functional processes controlling seasonal and long-term temporal course. The most relevant patterns of plankton seasonal succession were revealed, showing that the driving factors were nutrient availability, stratification regime, and freshwater inflow. Phytoplankton and mesozooplankton displayed a wide interannual variability at most sites. Unidirectional or linear long-term trends were rarely detected but all sites were impacted across the years by at least one, but in many case several major stressor(s): nutrient inputs, meteo-climatic variability at the local and regional scale, and direct human activities at specific sites. Different climatic and anthropic forcings frequently co-occurred, whereby the responses of plankton communities were the result of this environmental complexity. Overall, the LTER investigations are providing an unparalleled framework of knowledge to evaluate changes in the aquatic pelagic systems and management options.},
}

Animals
*Ecosystem
*Environmental Monitoring
Italy
Phytoplankton
Plankton/*physiology
Population Dynamics
Zooplankton

@article {pmid29408064,
year = {2018},
author = {Dessu, SB and Price, RM and Troxler, TG and Kominoski, JS},
title = {Effects of sea-level rise and freshwater management on long-term water levels and water quality in the Florida Coastal Everglades.},
journal = {Journal of environmental management},
volume = {211},
number = {},
pages = {164-176},
doi = {10.1016/j.jenvman.2018.01.025},
pmid = {29408064},
issn = {1095-8630},
mesh = {*Ecosystem ; Florida ; Fresh Water ; Gulf of Mexico ; Water ; *Water Quality ; Wetlands ; },
abstract = {Since the 1880s, hydrological modification of the Greater Florida Everglades has reduced water levels and flows in Everglades National Park (ENP). The Comprehensive Everglades Restoration Program (CERP) began in 2000 to restore pre-drainage flows and preserve the natural landscape of the Everglades. However, sea-level rise (SLR) was not considered in the development of CERP. We used long-term data (2001-2016) from the Florida Coastal Everglades-Long Term Ecological Research Program to quantify and model the spatial dynamics of water levels, salinity, and nutrients in response to changes in climate, freshwater management and SLR in the Shark River Slough (SRS), ENP. Results indicate that fresh-to-marine head difference (FMHD) was the single most important factor affecting marine-to-freshwater hydrologic connectivity and transport of salinity and phosphorous upstream from the Gulf of Mexico. Sea-level has increasingly exceeded ground surface elevation at the most downstream freshwater site in SRS, thereby reducing the FMHD. We showed a higher impact of SLR in the dry season when there was practically no freshwater inflow to raise FMHD. We also demonstrated effectiveness of inflow depends more on the monthly distribution than the total annual volume. Hence, the impact per unit volume of inflow is significantly higher in the dry season in preventing high salinity and marine-derived nutrient levels. We advocate that FMHD needs to be factored into water management decisions to reduce adverse and likely irreversible effects of SLR throughout the Everglades landscape.},
}

*Ecosystem
Florida
Fresh Water
Gulf of Mexico
Water
*Water Quality
Wetlands

@article {pmid29396346,
year = {2018},
author = {Maccherini, S and Bacaro, G and Marignani, M},
title = {Beneficial effects of restoration practices can be thwarted by climate extremes.},
journal = {The Science of the total environment},
volume = {626},
number = {},
pages = {851-859},
doi = {10.1016/j.scitotenv.2018.01.117},
pmid = {29396346},
issn = {1879-1026},
abstract = {The impacts of climate extremes on species, communities and ecosystems have become critical concerns to science and society. Under a changing climate, how restoration outcomes are affected by extreme climate variables is a largely unknown topic. We analyzed the effects of experimental factors (grazing and sowing of native species), extreme climate events (intense precipitation and extreme temperatures indexes) and their combination on the restoration progress of a dry, calcareous grassland in Tuscany (Italy) with a 1 year before/15 years continuous annual monitoring after, control/impact (BACI) experiment. Grazing had a beneficial effect on the diversity of the grassland, while sowing had a limited impact. The climatic index that most affected the entire plant community composition was the number of very heavy precipitation days. The interaction of grazing and extreme climatic indexes had a significant detrimental effect on restoration outcomes, increasing the cover of synanthropic and Cosmopolitan-Subcosmopolitan generalist species and decreasing the cover of more valuable species such endemic species. In the richest grazed plots, species richness showed a lower sensitivity to the average precipitation per wet day but in grazed site, restoration outcomes can be negatively influenced by the intensification of precipitation and temperature extremes. In a context of progressive tropicalization of the Mediterranean area, to assist managers setting achievable restoration goals, restoration practitioners should consider that climate extremes might interfere with the beneficial effects of restoration practices.},
}

@article {pmid29291051,
year = {2017},
author = {Greenville, AC and Wardle, GM and Dickman, CR},
title = {Desert mammal populations are limited by introduced predators rather than future climate change.},
journal = {Royal Society open science},
volume = {4},
number = {11},
pages = {170384},
pmid = {29291051},
issn = {2054-5703},
abstract = {Climate change is predicted to place up to one in six species at risk of extinction in coming decades, but extinction probability is likely to be influenced further by biotic interactions such as predation. We use structural equation modelling to integrate results from remote camera trapping and long-term (17-22 years) regional-scale (8000 km2) datasets on vegetation and small vertebrates (greater than 38 880 captures) to explore how biotic processes and two key abiotic drivers influence the structure of a diverse assemblage of desert biota in central Australia. We use our models to predict how changes in rainfall and wildfire are likely to influence the cover and productivity of the dominant vegetation and the impacts of predators on their primary rodent prey over a 100-year timeframe. Our results show that, while vegetation cover may decline due to climate change, the strongest negative effect on prey populations in this desert system is top-down suppression from introduced predators.},
}

@article {pmid29275260,
year = {2018},
author = {Mollenhauer, H and Kasner, M and Haase, P and Peterseil, J and Wohner, C and Frenzel, M and Mirtl, M and Schima, R and Bumberger, J and Zacharias, S},
title = {Long-term environmental monitoring infrastructures in Europe: observations, measurements, scales, and socio-ecological representativeness.},
journal = {The Science of the total environment},
volume = {624},
number = {},
pages = {968-978},
doi = {10.1016/j.scitotenv.2017.12.095},
pmid = {29275260},
issn = {1879-1026},
mesh = {Climate ; *Ecology ; Ecosystem ; *Environmental Monitoring ; Europe ; *Research ; },
abstract = {The challenges posed by climate and land use change are increasingly complex, with ever-increasing and accelerating impacts on the global environmental system. The establishment of an internationally harmonized, integrated, and long-term operated environmental monitoring infrastructure is one of the major challenges of modern environmental research. Increased efforts are currently being made in Europe to establish such a harmonized pan-European observation infrastructure, and the European network of Long-Term Ecological Research sites - LTER-Europe - is of particular importance. By evaluating 477 formally accredited LTER-Europe sites, this study gives an overview of the current distribution of these infrastructures and the present condition of long-term environmental research in Europe. We compiled information on long-term biotic and abiotic observations and measurements and examined the representativeness in terms of continental biogeographical and socio-ecological gradients. The results were used to identify gaps in both measurements and coverage of the aforementioned gradients. Furthermore, an overview of the current state of the LTER-Europe observation strategies is given. The latter forms the basis for investigating the comparability of existing LTER-Europe monitoring concepts both in terms of observational design as well as in terms of the scope of the environmental compartments, variables and properties covered.},
}

Climate
*Ecology
Ecosystem
*Environmental Monitoring
Europe
*Research

@article {pmid29265568,
year = {2018},
author = {Petrie, MD and Peters, DPC and Yao, J and Blair, JM and Burruss, ND and Collins, SL and Derner, JD and Gherardi, LA and Hendrickson, JR and Sala, OE and Starks, PJ and Steiner, JL},
title = {Regional grassland productivity responses to precipitation during multiyear above- and below-average rainfall periods.},
journal = {Global change biology},
volume = {24},
number = {5},
pages = {1935-1951},
doi = {10.1111/gcb.14024},
pmid = {29265568},
issn = {1365-2486},
mesh = {Climate Change ; *Grassland ; Poaceae/physiology ; *Rain ; },
abstract = {There is considerable uncertainty in the magnitude and direction of changes in precipitation associated with climate change, and ecosystem responses are also uncertain. Multiyear periods of above- and below-average rainfall may foretell consequences of changes in rainfall regime. We compiled long-term aboveground net primary productivity (ANPP) and precipitation (PPT) data for eight North American grasslands, and quantified relationships between ANPP and PPT at each site, and in 1-3 year periods of above- and below-average rainfall for mesic, semiarid cool, and semiarid warm grassland types. Our objective was to improve understanding of ANPP dynamics associated with changing climatic conditions by contrasting PPT-ANPP relationships in above- and below-average PPT years to those that occurred during sequences of multiple above- and below-average years. We found differences in PPT-ANPP relationships in above- and below-average years compared to long-term site averages, and variation in ANPP not explained by PPT totals that likely are attributed to legacy effects. The correlation between ANPP and current- and prior-year conditions changed from year to year throughout multiyear periods, with some legacy effects declining, and new responses emerging. Thus, ANPP in a given year was influenced by sequences of conditions that varied across grassland types and climates. Most importantly, the influence of prior-year ANPP often increased with the length of multiyear periods, whereas the influence of the amount of current-year PPT declined. Although the mechanisms by which a directional change in the frequency of above- and below-average years imposes a persistent change in grassland ANPP require further investigation, our results emphasize the importance of legacy effects on productivity for sequences of above- vs. below-average years, and illustrate the utility of long-term data to examine these patterns.},
}

Climate Change
*Grassland
Poaceae/physiology
*Rain

@article {pmid29195206,
year = {2018},
author = {Jourdan, J and O'Hara, RB and Bottarin, R and Huttunen, KL and Kuemmerlen, M and Monteith, D and Muotka, T and Ozoliņš, D and Paavola, R and Pilotto, F and Springe, G and Skuja, A and Sundermann, A and Tonkin, JD and Haase, P},
title = {Effects of changing climate on European stream invertebrate communities: A long-term data analysis.},
journal = {The Science of the total environment},
volume = {621},
number = {},
pages = {588-599},
doi = {10.1016/j.scitotenv.2017.11.242},
pmid = {29195206},
issn = {1879-1026},
mesh = {Animals ; *Climate Change ; Conservation of Natural Resources ; *Ecosystem ; Europe ; Introduced Species ; *Invertebrates ; *Rivers ; Temperature ; },
abstract = {Long-term observations on riverine benthic invertebrate communities enable assessments of the potential impacts of global change on stream ecosystems. Besides increasing average temperatures, many studies predict greater temperature extremes and intense precipitation events as a consequence of climate change. In this study we examined long-term observation data (10-32years) of 26 streams and rivers from four ecoregions in the European Long-Term Ecological Research (LTER) network, to investigate invertebrate community responses to changing climatic conditions. We used functional trait and multi-taxonomic analyses and combined examinations of general long-term changes in communities with detailed analyses of the impact of different climatic drivers (i.e., various temperature and precipitation variables) by focusing on the response of communities to climatic conditions of the previous year. Taxa and ecoregions differed substantially in their response to climate change conditions. We did not observe any trend of changes in total taxonomic richness or overall abundance over time or with increasing temperatures, which reflects a compensatory turnover in the composition of communities; sensitive Plecoptera decreased in response to warmer years and Ephemeroptera increased in northern regions. Invasive species increased with an increasing number of extreme days which also caused an apparent upstream community movement. The observed changes in functional feeding group diversity indicate that climate change may be associated with changes in trophic interactions within aquatic food webs. These findings highlight the vulnerability of riverine ecosystems to climate change and emphasize the need to further explore the interactive effects of climate change variables with other local stressors to develop appropriate conservation measures.},
}

Animals
*Climate Change
Conservation of Natural Resources
*Ecosystem
Europe
Introduced Species
*Invertebrates
*Rivers
Temperature

@article {pmid29158517,
year = {2017},
author = {Cianelli, D and D'Alelio, D and Uttieri, M and Sarno, D and Zingone, A and Zambianchi, E and d'Alcalà, MR},
title = {Disentangling physical and biological drivers of phytoplankton dynamics in a coastal system.},
journal = {Scientific reports},
volume = {7},
number = {1},
pages = {15868},
pmid = {29158517},
issn = {2045-2322},
abstract = {This proof-of-concept study integrates the surface currents measured by high-frequency coastal radars with plankton time-series data collected at a fixed sampling point from the Mediterranean Sea (MareChiara Long Term Ecological Research site in the Gulf of Naples) to characterize the spatial origin of phytoplankton assemblages and to scrutinize the processes ruling their dynamics. The phytoplankton community generally originated from the coastal waters whereby species succession was mainly regulated by biological factors (life-cycle processes, species-specific physiological performances and inter-specific interactions). Physical factors, e.g. the alternation between coastal and offshore waters and the horizontal mixing, were also important drivers of phytoplankton dynamics promoting diversity maintenance by i) advecting species from offshore and ii) diluting the resident coastal community so as to dampen resource stripping by dominant species and thereby increase the numerical importance of rarer species. Our observations highlight the resilience of coastal communities, which may favour their persistence over time and the prevalence of successional events over small time and space scales. Although coastal systems may act differently from one another, our findings provide a conceptual framework to address physical-biological interactions occurring in coastal basins, which can be generalised to other areas.},
}

@article {pmid28931744,
year = {2017},
author = {Bland, LM and Regan, TJ and Dinh, MN and Ferrari, R and Keith, DA and Lester, R and Mouillot, D and Murray, NJ and Nguyen, HA and Nicholson, E},
title = {Using multiple lines of evidence to assess the risk of ecosystem collapse.},
journal = {Proceedings. Biological sciences},
volume = {284},
number = {1863},
pages = {},
pmid = {28931744},
issn = {1471-2954},
mesh = {Animals ; Anthozoa ; *Conservation of Natural Resources ; *Coral Reefs ; *Ecosystem ; Forecasting ; *Risk Assessment ; },
abstract = {Effective ecosystem risk assessment relies on a conceptual understanding of ecosystem dynamics and the synthesis of multiple lines of evidence. Risk assessment protocols and ecosystem models integrate limited observational data with threat scenarios, making them valuable tools for monitoring ecosystem status and diagnosing key mechanisms of decline to be addressed by management. We applied the IUCN Red List of Ecosystems criteria to quantify the risk of collapse of the Meso-American Reef, a unique ecosystem containing the second longest barrier reef in the world. We collated a wide array of empirical data (field and remotely sensed), and used a stochastic ecosystem model to backcast past ecosystem dynamics, as well as forecast future ecosystem dynamics under 11 scenarios of threat. The ecosystem is at high risk from mass bleaching in the coming decades, with compounding effects of ocean acidification, hurricanes, pollution and fishing. The overall status of the ecosystem is Critically Endangered (plausibly Vulnerable to Critically Endangered), with notable differences among Red List criteria and data types in detecting the most severe symptoms of risk. Our case study provides a template for assessing risks to coral reefs and for further application of ecosystem models in risk assessment.},
}

Animals
Anthozoa
*Conservation of Natural Resources
*Coral Reefs
*Ecosystem
Forecasting
*Risk Assessment

@article {pmid28921808,
year = {2017},
author = {Schmidt, JE and Weese, DJ and Lau, JA},
title = {Long-term agricultural management does not alter the evolution of a soybean-rhizobium mutualism.},
journal = {Ecological applications : a publication of the Ecological Society of America},
volume = {27},
number = {8},
pages = {2487-2496},
doi = {10.1002/eap.1625},
pmid = {28921808},
issn = {1051-0761},
abstract = {Leguminous crops, like soybeans, often rely on biologically fixed nitrogen via their symbiosis with rhizobia rather than synthetic nitrogen inputs. However, agricultural management practices may influence the effectiveness of biological nitrogen fixation (BNF). While the ecological effects of agricultural management on rhizobia have received some attention, the evolutionary effects have been neglected in comparison. Resource mutualism theory predicts that evolutionary effects are likely, however. Both fertilization and tillage are predicted to cause the evolution of rhizobia that provide fewer growth benefits to plant hosts and fix less nitrogen. This study capitalized on a Long-Term Ecological Research experiment that manipulated agricultural management practices in a corn-soybean-wheat row crop system for 24 yr to investigate whether four different management practices (conventional, no-till, low chemical input, and certified organic) cause rhizobia populations to evolve to become more or less cooperative. We found little evidence that 24 yr of varying management practices affect the net growth benefits rhizobia provide to soybeans, although soybean plants inoculated with soils collected from conventional treatments tended to have lower BNF rates than plants inoculated with soils from the no-till, low input, and organic management treatments. These findings suggest that rhizobia will continue to provide adequate growth benefits to leguminous crops in the future, even in intensively managed systems.},
}

@article {pmid28898749,
year = {2017},
author = {Alignier, A and Aviron, S},
title = {Time-lagged response of carabid species richness and composition to past management practices and landscape context of semi-natural field margins.},
journal = {Journal of environmental management},
volume = {204},
number = {Pt 1},
pages = {282-290},
doi = {10.1016/j.jenvman.2017.08.054},
pmid = {28898749},
issn = {1095-8630},
mesh = {Agriculture/methods ; Biodiversity ; *Crops, Agricultural ; *Ecosystem ; Forests ; France ; },
abstract = {Field margins are key features for the maintenance of biodiversity and associated ecosystem services in agricultural landscapes. Little is known about the effects of management practices of old semi-natural field margins, and their historical dimension regarding past management practices and landscape context is rarely considered. In this paper, the relative influence of recent and past management practices and landscape context (during the last five years) were assessed on the local biodiversity (species richness and composition) of carabid assemblages of field margins in agricultural landscapes of northwestern France. The results showed that recent patterns of carabid species richness and composition were best explained by management practices and landscape context measured four or five years ago. It suggests the existence of a time lag in the response of carabid assemblages to past environmental conditions of field margins. The relative contribution of past management practices and past landscape context varied depending on the spatial scale at which landscape context was taken into account. Carabid species richness was higher in grazed or sprayed field margins probably due to increased heterogeneity in habitat conditions. Field margins surrounded by grasslands and crops harbored species associated with open habitats whilst forest species dominated field margins surrounded by woodland. Landscape effect was higher at fine spatial scale, within 50 m around field margins. The present study highlights the importance of considering time-lagged responses of biodiversity when managing environment. It also suggests that old semi-natural field margins should not be considered as undisturbed habitats but more as management units being part of farming activities in agricultural landscapes, as for arable fields.},
}

Agriculture/methods
Biodiversity
*Crops, Agricultural
*Ecosystem
Forests
France

@article {pmid28884803,
year = {2017},
author = {Bradford, MA and Leiserowitz, A and Feinberg, G and Rosenthal, SA and Lau, JA},
title = {Long-Term Research in Ecology and Evolution (LTREE): 2015 survey data.},
journal = {Ecology},
volume = {98},
number = {11},
pages = {2980},
doi = {10.1002/ecy.1999},
pmid = {28884803},
issn = {0012-9658},
mesh = {*Biological Evolution ; *Ecology ; Research Design ; Surveys and Questionnaires ; },
abstract = {To systematically assess views on contributions and future activities for long-term research in ecology and evolution (LTREE), we conducted and here provide data responses and associated metadata for a survey of ecological and evolutionary scientists. The survey objectives were to: (1) Identify and prioritize research questions that are important to address through long-term, ecological field experiments; and (2) understand the role that these experiments might play in generating and applying ecological and evolutionary knowledge. The survey was developed adhering to the standards of the American Association for Public Opinion Research. It was administered online using Qualtrics Survey Software. Survey creation was a multi-step process, with questions and format developed and then revised with, for example, input from an external advisory committee comprising senior and junior ecological and evolutionary researchers. The final questionnaire was released to ~100 colleagues to ensure functionality and then fielded 2 d later (January 7th , 2015). Two professional societies distributed it to their membership, including the Ecological Society of America, and it was posted to three list serves. The questionnaire was available through February 8th 2015 and completed by 1,179 respondents. The distribution approach targeted practicing ecologists and evolutionary biologists in the U.S. Quantitative (both ordinal and categorical) closed-ended questions used a predefined set of response categories, facilitating direct comparison across all respondents. Qualitative, open-ended questions, provided respondents the opportunity to develop their own answers. We employed quantitative questions to score views on the extent to which long-term experimental research has contributed to understanding in ecology and evolutionary biology; its role compared to other approaches (e.g., short-term experiments); justifications for and caveats to long-term experiments; and the relative importance of incentives for conducting long-term research. Qualitative questions were used to assess community views on the most important topics and questions for long-term research to address, and primary incentives and challenges to realizing this work. Finally, demographic data were collected to determine if views were conditional on such things as years of experience and field of expertise. The final questionnaire and all responses are provided for unrestricted use.},
}

*Biological Evolution
*Ecology
Research Design
Surveys and Questionnaires

@article {pmid28855365,
year = {2017},
author = {Dallas, T and Huang, S and Nunn, C and Park, AW and Drake, JM},
title = {Estimating parasite host range.},
journal = {Proceedings. Biological sciences},
volume = {284},
number = {1861},
pages = {},
pmid = {28855365},
issn = {1471-2954},
mesh = {Animals ; Ecology ; *Host Specificity ; Host-Parasite Interactions ; Mammals/*parasitology ; New Mexico ; Parasites/*classification ; },
abstract = {Estimating the number of host species that a parasite can infect (i.e. host range) provides key insights into the evolution of host specialism and is a central concept in disease ecology. Host range is rarely estimated in real systems, however, because variation in species relative abundance and the detection of rare species makes it challenging to confidently estimate host range. We applied a non-parametric richness indicator to estimate host range in simulated and empirical data, allowing us to assess the influence of sampling heterogeneity and data completeness. After validating our method on simulated data, we estimated parasite host range for a sparsely sampled global parasite occurrence database (Global Mammal Parasite Database) and a repeatedly sampled set of parasites of small mammals from New Mexico (Sevilleta Long Term Ecological Research Program). Estimation accuracy varied strongly with parasite taxonomy, number of parasite occurrence records, and the shape of host species-abundance distribution (i.e. the dominance and rareness of species in the host community). Our findings suggest that between 20% and 40% of parasite host ranges are currently unknown, highlighting a major gap in our understanding of parasite specificity, host-parasite network structure, and parasite burdens.},
}

Animals
Ecology
*Host Specificity
Host-Parasite Interactions
Mammals/*parasitology
New Mexico
Parasites/*classification

@article {pmid28851094,
year = {2017},
author = {Foster, CN and Barton, PS and Robinson, NM and MacGregor, CI and Lindenmayer, DB},
title = {Effects of a large wildfire on vegetation structure in a variable fire mosaic.},
journal = {Ecological applications : a publication of the Ecological Society of America},
volume = {27},
number = {8},
pages = {2369-2381},
doi = {10.1002/eap.1614},
pmid = {28851094},
issn = {1051-0761},
abstract = {Management guidelines for many fire-prone ecosystems highlight the importance of maintaining a variable mosaic of fire histories for biodiversity conservation. Managers are encouraged to aim for fire mosaics that are temporally and spatially dynamic, include all successional states of vegetation, and also include variation in the underlying "invisible mosaic" of past fire frequencies, severities, and fire return intervals. However, establishing and maintaining variable mosaics in contemporary landscapes is subject to many challenges, one of which is deciding how the fire mosaic should be managed following the occurrence of large, unplanned wildfires. A key consideration for this decision is the extent to which the effects of previous fire history on vegetation and habitats persist after major wildfires, but this topic has rarely been investigated empirically. In this study, we tested to what extent a large wildfire interacted with previous fire history to affect the structure of forest, woodland, and heath vegetation in Booderee National Park in southeastern Australia. In 2003, a summer wildfire burned 49.5% of the park, increasing the extent of recently burned vegetation (<10 yr post-fire) to more than 72% of the park area. We tracked the recovery of vegetation structure for nine years following the wildfire and found that the strength and persistence of fire effects differed substantially between vegetation types. Vegetation structure was modified by wildfire in forest, woodland, and heath vegetation, but among-site variability in vegetation structure was reduced only by severe fire in woodland vegetation. There also were persistent legacy effects of the previous fire regime on some attributes of vegetation structure including forest ground and understorey cover, and woodland midstorey and overstorey cover. For example, woodland midstorey cover was greater on sites with higher fire frequency, irrespective of the severity of the 2003 wildfire. Our results show that even after a large, severe wildfire, underlying fire histories can contribute substantially to variation in vegetation structure. This highlights the importance of ensuring that efforts to reinstate variation in vegetation fire age after large wildfires do not inadvertently reduce variation in vegetation structure generated by the underlying invisible mosaic.},
}

@article {pmid28830052,
year = {2018},
author = {Listopad, CMCS and Köbel, M and Príncipe, A and Gonçalves, P and Branquinho, C},
title = {The effect of grazing exclusion over time on structure, biodiversity, and regeneration of high nature value farmland ecosystems in Europe.},
journal = {The Science of the total environment},
volume = {610-611},
number = {},
pages = {926-936},
doi = {10.1016/j.scitotenv.2017.08.018},
pmid = {28830052},
issn = {1879-1026},
mesh = {Agriculture ; Animals ; *Biodiversity ; Cattle ; *Climate Change ; *Environmental Restoration and Remediation ; *Farms ; Grassland ; Herbivory ; Portugal ; Trees/growth & development ; },
abstract = {Climate change and increasing socio-economic pressure is placing many ecosystems of high ecological and economic value at risk. This is particularly urgent in dryland ecosystems, such as the montado, a multifunctional savannah-like system heavily modeled by grazing. There is still an ongoing debate about the trade-offs between livestock grazing and the potential for ecosystem regeneration. While it is consensual that overgrazing hinders the development of the shrubs and trees in this system, the effects of undergrazing or grazing exclusion are unclear. This study provides the unique opportunity to study the impact of grazing on compositional and structural biodiversity by examining the ecological chronosequence in a long-term ecological research site, located in Portugal, where grazing exclusion was controlled for over 15years. As the threat of intensification persists, even in areas where climate shifts are evident, there is a critical need to understand if and how the montado might recover by removing grazing pressure. We evaluate succession on structural and compositional diversity after grazing pressure is removed from the landscape at 5, 10, and 15years post-cattle exclusion and contrast it with currently grazed plots. A LiDAR-derived structural diversity index (LHDI), a surrogate of ecosystem structure and function first developed for the pine-grassland woodland systems, is used to quantify the impact of grazing exclusion on structure and natural regeneration. The distribution of the vegetation, particularly those of the herbaceous and shrub strata (>10≤150cm), presents statistically significant changes. The LHDI closely mimics the compositional biodiversity of the shrubs, with an increase in diversity with increased years without grazing. Under present climate conditions, both shrub regeneration and the establishment of tree saplings were strongly promoted by grazing exclusion, which has important management implications for the long-term sustainability of montado systems.},
}

Agriculture
Animals
*Biodiversity
Cattle
*Climate Change
*Environmental Restoration and Remediation
*Farms
Grassland
Herbivory
Portugal
Trees/growth & development

@article {pmid28815369,
year = {2017},
author = {Abuhelou, F and Mansuy-Huault, L and Lorgeoux, C and Catteloin, D and Collin, V and Bauer, A and Kanbar, HJ and Gley, R and Manceau, L and Thomas, F and Montargès-Pelletier, E},
title = {Suspended particulate matter collection methods influence the quantification of polycyclic aromatic compounds in the river system.},
journal = {Environmental science and pollution research international},
volume = {24},
number = {28},
pages = {22717-22729},
pmid = {28815369},
issn = {1614-7499},
support = {ANR-14-CE01-0019//Agence Nationale de la Recherche/ ; },
mesh = {China ; Environmental Monitoring/*methods ; Geologic Sediments/*chemistry ; Particulate Matter/*analysis ; Polycyclic Aromatic Hydrocarbons/*analysis ; Rivers/*chemistry ; Water Movements ; Water Pollutants, Chemical/*analysis ; },
abstract = {In this study, we compared the influence of two different collection methods, filtration (FT) and continuous flow field centrifugation (CFC), on the concentration and the distribution of polycyclic aromatic compounds (PACs) in suspended particulate matter (SPM) occurring in river waters. SPM samples were collected simultaneously with FT and CFC from a river during six sampling campaigns over 2 years, covering different hydrological contexts. SPM samples were analyzed to determine the concentration of PACs including 16 polycyclic aromatic hydrocarbons (PAHs), 11 oxygenated PACs (O-PACs), and 5 nitrogen PACs (N-PACs). Results showed significant differences between the two separation methods. In half of the sampling campaigns, PAC concentrations differed from a factor 2 to 30 comparing FT and CFC-collected SPMs. The PAC distributions were also affected by the separation method. FT-collected SPM were enriched in 2-3 ring PACs whereas CFC-collected SPM had PAC distributions dominated by medium to high molecular weight compounds typical of combustion processes. This could be explained by distinct cut-off threshold of the two separation methods and strongly suggested the retention of colloidal and/or fine matter on glass-fiber filters particularly enriched in low molecular PACs. These differences between FT and CFC were not systematic but rather enhanced by high water flow rates.},
}

China
Environmental Monitoring/*methods
Geologic Sediments/*chemistry
Particulate Matter/*analysis
Polycyclic Aromatic Hydrocarbons/*analysis
Rivers/*chemistry
Water Movements
Water Pollutants, Chemical/*analysis

@article {pmid28805959,
year = {2017},
author = {Carcaillet, C and Blarquez, O},
title = {Fire ecology of a tree glacial refugium on a nunatak with a view on Alpine glaciers.},
journal = {The New phytologist},
volume = {216},
number = {4},
pages = {1281-1290},
doi = {10.1111/nph.14721},
pmid = {28805959},
issn = {1469-8137},
mesh = {Biomass ; Chronology as Topic ; Climate Change ; *Fires ; *Forests ; France ; *Ice Cover ; *Larix ; Paleontology ; *Pinus ; Trees ; },
abstract = {In paleoecology, the function of biomass as a fire driver has become a focus of attention in cold ecosystems, and concerns have been raised about climate in this context. Little is known about the fire frequency and fire-plant relationships during glaciation when woodlands were limited and the climate was cold. Fire history and tree biomass were reconstructed from sedimentary charcoal and macroremains, respectively, archived in lake sediments from the western Alps. Two nunataks were investigated, both with lacustrine sediments covering the last 21 000 yr at least. During the Last Glacial Maximum (LGM) and the Lateglacial, fires occurred only on the nunatak sheltering woody plants. Cembra pine (Pinus cembra) and larch (Larix decidua) survived above glaciers during the LGM, thus evidencing a biological refugium and supporting the nunatak theory. We highlighted a long-term relationship between fires and dominant trees over the last 21 000 yr, where fire frequencies track the global climate and the local changes in tree biomass. Glacial climate (dry, cold) does not rule out fires. Fuel load and composition were significant fire drivers, with cembra pine dominating during colder periods with rare fires, and larch during the warmer Holocene with frequent fires. These findings increase knowledge of fire ecology in cold environments, and open perspectives in tree population genetics by considering new areas of tree glacial refugia in Europe.},
}

Biomass
Chronology as Topic
Climate Change
*Fires
*Forests
France
*Ice Cover
*Larix
Paleontology
*Pinus
Trees

@article {pmid28779184,
year = {2017},
author = {Flower, H and Rains, M and Fitz, C},
title = {Visioning the Future: Scenarios Modeling of the Florida Coastal Everglades.},
journal = {Environmental management},
volume = {60},
number = {5},
pages = {989-1009},
pmid = {28779184},
issn = {1432-1009},
support = {Florida Coastal Everglades Long-Term Ecological Research program under Cooperative Agreements No. DEB-1237517, Grant No. DBI-0620409, and Grant No. DEB-9910514//National Science Foundation/International ; },
mesh = {*Climate Change ; Conservation of Natural Resources/*trends ; Florida ; Forecasting ; Fresh Water ; *Models, Theoretical ; Oceans and Seas ; Soil ; *Wetlands ; },
abstract = {In this paper, we provide screening-level analysis of plausible Everglades ecosystem response by 2060 to sea level rise (0.50 m) interacting with macroclimate change (1.5 °C warming, 7% increase in evapotranspiration, and rainfall that either increases or decreases by 10%). We used these climate scenarios as input to the Ecological Landscape Model to simulate changes to seven interactive hydro-ecological metrics. Mangrove forest and other marine influences migrated up to 15 km inland in both scenarios, delineated by the saltwater front. Freshwater habitat area decreased by 25-30% under our two climate change scenarios and was largely replaced by mangroves and, in the increased rainfall scenario, open water as well. Significant mangroves drowned along northern Florida Bay in both climate change scenarios due to sea level rise. Increased rainfall of 10% provided significant benefits to the spatial and temporal salinity regime within the marine-influenced zone, providing a more gradual and natural adjustment for at-risk flora and fauna. However, increased rainfall also increased the risk of open water, due to water depths that inhibited mangrove establishment and reduced peat accumulation rates. We infer that ecological effects related to sea level rise may occur in the extreme front-edge of saltwater intrusion, that topography will control the incursion of this zone as sea level rises, and that differences in freshwater availability will have ecologically significant effects on ecosystem resilience through the temporal and spatial pattern of salinity changes.},
}

*Climate Change
Conservation of Natural Resources/*trends
Florida
Forecasting
Fresh Water
*Models, Theoretical
Oceans and Seas
Soil
*Wetlands

@article {pmid28778793,
year = {2017},
author = {Pietrelli, L and Di Gennaro, A and Menegoni, P and Lecce, F and Poeta, G and Acosta, ATR and Battisti, C and Iannilli, V},
title = {Pervasive plastisphere: First record of plastics in egagropiles (Posidonia spheroids).},
journal = {Environmental pollution (Barking, Essex : 1987)},
volume = {229},
number = {},
pages = {1032-1036},
doi = {10.1016/j.envpol.2017.07.098},
pmid = {28778793},
issn = {1873-6424},
mesh = {Alismatales/*chemistry ; Ecosystem ; *Environmental Monitoring ; Italy ; Plastics/*analysis ; Polyethylene/analysis ; Polymers/analysis ; Water Pollutants, Chemical/*analysis ; },
abstract = {The ability of Posidonia oceanica spheroids (egagropiles, EG) to incorporate plastics was investigated along the central Italy coast. Plastics were found in the 52.84% of the egagropiles collected (n = 685). The more represented size of plastics has range within 1-1.5 cm, comparable to the size of natural fibres. Comparing plastics occurring both in EG and in surrounding sand, Polyethylene, Polyester and Nylon were the most abundant polymers in EG, while PSE, PE, PP and PET were the most represented in sand. In particular PE and PP were significantly more represented in sand, while PE, Nylon, Polyester and microfibers (as pills) were more represented in EG. Within plastics found in EG, 26.9% were microfibers as small pills (<1 cm), mainly composed of polyamide, polyester, cotton and PET mixing. These microfibers might be produced by discharges from washing machines and currently represents an emerging pollutant with widespread distribution in marine and freshwater ecosystems.},
}

Alismatales/*chemistry
Ecosystem
*Environmental Monitoring
Italy
Plastics/*analysis
Polyethylene/analysis
Polymers/analysis
Water Pollutants, Chemical/*analysis

@article {pmid28719191,
year = {2017},
author = {Maizel, AC and Li, J and Remucal, CK},
title = {Relationships Between Dissolved Organic Matter Composition and Photochemistry in Lakes of Diverse Trophic Status.},
journal = {Environmental science & technology},
volume = {51},
number = {17},
pages = {9624-9632},
pmid = {28719191},
issn = {1520-5851},
support = {S10 OD018475/OD/NIH HHS/United States ; },
mesh = {*Lakes ; Organic Chemicals ; *Photochemistry ; Water ; Wisconsin ; },
abstract = {The North Temperate Lakes Long-Term Ecological Research site includes seven lakes in northern Wisconsin that vary in hydrology, trophic status, and landscape position. We examine the molecular composition of dissolved organic matter (DOM) within these lakes using Fourier transform-ion cyclotron resonance mass spectrometry (FT-ICR MS) and quantify DOM photochemical activity using probe compounds. Correlations between the relative intensity of individual molecular formulas and reactive species production demonstrate the influence of DOM composition on photochemistry. For example, highly aromatic, tannin-like formulas correlate positively with triplet formation rates, but negatively with triplet quantum yields, as waters enriched in highly aromatic formulas exhibit much higher rates of light absorption, but only slightly higher rates of triplet production. While commonly utilized optical properties also correlate with DOM composition, the ability of FT-ICR MS to characterize DOM subpopulations provides unique insight into the mechanisms through which DOM source and environmental processing determine composition and photochemical activity.},
}

*Lakes
Organic Chemicals
*Photochemistry
Water
Wisconsin

@article {pmid28690791,
year = {2017},
author = {Caddy-Retalic, S and Andersen, AN and Aspinwall, MJ and Breed, MF and Byrne, M and Christmas, MJ and Dong, N and Evans, BJ and Fordham, DA and Guerin, GR and Hoffmann, AA and Hughes, AC and van Leeuwen, SJ and McInerney, FA and Prober, SM and Rossetto, M and Rymer, PD and Steane, DA and Wardle, GM and Lowe, AJ},
title = {Bioclimatic transect networks: Powerful observatories of ecological change.},
journal = {Ecology and evolution},
volume = {7},
number = {13},
pages = {4607-4619},
pmid = {28690791},
issn = {2045-7758},
abstract = {Transects that traverse substantial climate gradients are important tools for climate change research and allow questions on the extent to which phenotypic variation associates with climate, the link between climate and species distributions, and variation in sensitivity to climate change among biomes to be addressed. However, the potential limitations of individual transect studies have recently been highlighted. Here, we argue that replicating and networking transects, along with the introduction of experimental treatments, addresses these concerns. Transect networks provide cost-effective and robust insights into ecological and evolutionary adaptation and improve forecasting of ecosystem change. We draw on the experience and research facilitated by the Australian Transect Network to demonstrate our case, with examples, to clarify how population- and community-level studies can be integrated with observations from multiple transects, manipulative experiments, genomics, and ecological modeling to gain novel insights into how species and systems respond to climate change. This integration can provide a spatiotemporal understanding of past and future climate-induced changes, which will inform effective management actions for promoting biodiversity resilience.},
}

@article {pmid28646231,
year = {2017},
author = {Engel, A and Piontek, J and Metfies, K and Endres, S and Sprong, P and Peeken, I and Gäbler-Schwarz, S and Nöthig, EM},
title = {Inter-annual variability of transparent exopolymer particles in the Arctic Ocean reveals high sensitivity to ecosystem changes.},
journal = {Scientific reports},
volume = {7},
number = {1},
pages = {4129},
pmid = {28646231},
issn = {2045-2322},
abstract = {Transparent exopolymer particles (TEP) are a class of marine gel particles and important links between surface ocean biology and atmospheric processes. Derived from marine microorganisms, these particles can facilitate the biological pumping of carbon dioxide to the deep sea, or act as cloud condensation and ice nucleation particles in the atmosphere. Yet, environmental controls on TEP abundance in the ocean are poorly known. Here, we investigated some of these controls during the first multiyear time-series on TEP abundance for the Fram Strait, the Atlantic gateway to the Central Arctic Ocean. Data collected at the Long-Term Ecological Research observatory HAUSGARTEN during 2009 to 2014 indicate a strong biological control with highest abundance co-occurring with the prymnesiophyte Phaeocystis pouchetii. Higher occurrence of P. pouchetii in the Arctic Ocean has previously been related to northward advection of warmer Atlantic waters, which is expected to increase in the future. Our study highlights the role of plankton key species in driving climate relevant processes; thus, changes in plankton distribution need to be accounted for when estimating the ocean's biogeochemical response to global change.},
}

@article {pmid28624948,
year = {2018},
author = {Maunoury-Danger, F and Felten, V and Bojic, C and Fraysse, F and Cosin Ponce, M and Dedourge-Geffard, O and Geffard, A and Guérold, F and Danger, M},
title = {Metal release from contaminated leaf litter and leachate toxicity for the freshwater crustacean Gammarus fossarum.},
journal = {Environmental science and pollution research international},
volume = {25},
number = {12},
pages = {11281-11294},
pmid = {28624948},
issn = {1614-7499},
support = {TransMet//INSU EC2CO/ ; 1172C0040//ADEME/ ; L01648/PROJET//OTELO/ ; },
mesh = {Amphipoda/chemistry/drug effects ; Animals ; Cadmium/*analysis ; Ecosystem ; Ecotoxicology/*methods ; Fresh Water ; Metals/*analysis/chemistry ; Phosphorus/*analysis ; Plant Leaves/*chemistry ; Toxicity Tests ; Zinc/*analysis ; },
abstract = {Industrialization has left large surfaces of contaminated soils, which may act as a source of pollution for contiguous ecosystems, either terrestrial or aquatic. When polluted sites are recolonized by plants, dispersion of leaf litter might represent a non-negligible source of contaminants, especially metals. To evaluate the risks associated to contaminated leaf litter dispersion in aquatic ecosystems, we first measured the dynamics of metal loss from leaf litter during a 48-h experimental leaching. We used aspen (Populus tremula L.), a common tree species on these polluted sites, and collected leaf litter on three polluted sites (settling pond of a former steel mill) and three control sites situated in the same geographic area. Then, toxicity tests were carried out on individuals of a key detritivore species widely used in ecotoxicology tests, Gammarus fossarum (Crustacea, Amphipoda), with uncontaminated and contaminated leaf litter leachates, using a battery of biomarkers selected for their sensitivity to metallic stress. Leaf litters collected on polluted sites exhibited not only significantly higher cadmium and zinc concentrations but also lower lignin contents. All leaf litters released high amounts of chemical elements during the leaching process, especially potassium and magnesium, and, in a lesser extent, phosphorus, calcium, and trace metals (copper, cadmium, and zinc but not lead). Toxicity tests revealed that the most important toxic effects measured on G. fossarum were due to leaf litter leachates by themselves, whatever the origin of litter (from polluted or control sites), confirming the toxicity of such substances, probably due to their high content in phenolic compounds. Small additional toxic effects of leachates from contaminated leaf litters were only evidenced on gammarid lipid peroxidation, indicating that contaminated leaf litter leachates might be slightly more toxic than uncontaminated ones, but in a very reduced manner. Further studies will be required to verify if these patterns are generalizable to other species and to investigate the effects of contaminated leaf litter ingestion by consumers on aquatic food webs. Nevertheless, our results do not permit to exclude potential chronic effects of an exposure to contaminated leaf litter leachates in aquatic ecosystems.},
}

Amphipoda/chemistry/drug effects
Animals
Cadmium/*analysis
Ecosystem
Ecotoxicology/*methods
Fresh Water
Metals/*analysis/chemistry
Phosphorus/*analysis
Plant Leaves/*chemistry
Toxicity Tests
Zinc/*analysis

@article {pmid28624939,
year = {2018},
author = {Rollin, M and Coulaud, R and Danger, M and Sohm, B and Flayac, J and Bec, A and Chaumot, A and Geffard, O and Felten, V},
title = {Additive effect of calcium depletion and low resource quality on Gammarus fossarum (Crustacea, Amphipoda) life history traits.},
journal = {Environmental science and pollution research international},
volume = {25},
number = {12},
pages = {11264-11280},
pmid = {28624939},
issn = {1614-7499},
support = {ANR-13-BSV7-0004-01//ANR MULTISTRESS/ ; },
mesh = {Amphipoda/*drug effects ; Animals ; Calcium/chemistry/*pharmacology ; Ecosystem ; Life History Traits ; Plant Leaves/*chemistry ; Rivers ; },
abstract = {Gammarus fossarum is an often-abundant crustacean detritivore that contributes importantly to leaf litter breakdown in oligotrophic, mainly heterotrophic, headwater streams. This species requires large amounts of Ca to moult, thus allowing growth and reproduction. Because resource quality is tightly coupled to the organism's growth and physiological status, we hypothesised that low Ca concentration [Ca] and low food resource quality (low phosphorus [P] and/or reduced highly unsaturated fatty acid [HUFA] contents) would interactively impair molecular responses (gene expression) and reproduction of G. fossarum. To investigate the effects of food resources quality, we experimentally manipulated the P content of sycamore leaves and also used diatoms because they contain high amounts of HUFAs. Three resource quality treatments were tested: low quality (LQ, unmanipulated leaves: low P content), high quality 1 (HQ1; P-manipulated leaves: high P content), and high quality 2 (unmanipulated leaves supplemented with a pellet containing diatoms: high P and HUFA content). Naturally, demineralised stream water was supplemented with CaSO4 to obtain three Ca concentrations (2, 3.5, and 10.5 mg Ca L-1). For 21 days, pairs of G. fossarum were individually exposed to one of the nine treatments (3 [Ca] × 3 resource qualities). At the individual level, strong and significant delays in moult stage were observed in gammarids exposed to lower [Ca] and to lower resource quality, with additive effects lengthening the duration of the reproductive cycle. Effects at the molecular level were investigated by measuring expression of 12 genes involved in energy production, translation, or Ca or P homeostasis. Expression of ATP synthase beta (higher in HQ2), calcified cuticle protein (higher in HQ1 and HQ2), and tropomyosin (higher in HQ2 compared to HQ1) was significantly affected by resource quality, and significant additive effects on Ca transporting ATPase expression were induced by [Ca] and resource quality (higher for low [Ca] and higher resource quality). These results highlight the potential drastic deleterious effects of water [Ca] depletion on G. fossarum physiology, populations, and ecosystem functioning, especially in oligotrophic environments.},
}

Amphipoda/*drug effects
Animals
Calcium/chemistry/*pharmacology
Ecosystem
Life History Traits
Plant Leaves/*chemistry
Rivers

@article {pmid28616191,
year = {2017},
author = {Firbank, LG and Bertora, C and Blankman, D and Delle Vedove, G and Frenzel, M and Grignani, C and Groner, E and Kertész, M and Krab, EJ and Matteucci, G and Menta, C and Mueller, CW and Stadler, J and Kunin, WE},
title = {Towards the co-ordination of terrestrial ecosystem protocols across European research infrastructures.},
journal = {Ecology and evolution},
volume = {7},
number = {11},
pages = {3967-3975},
pmid = {28616191},
issn = {2045-7758},
abstract = {The study of ecosystem processes over multiple scales of space and time is often best achieved using comparable data from multiple sites. Yet, long-term ecological observatories have often developed their own data collection protocols. Here, we address this problem by proposing a set of ecological protocols suitable for widespread adoption by the ecological community. Scientists from the European ecological research community prioritized terrestrial ecosystem parameters that could benefit from a more consistent approach to data collection within the resources available at most long-term ecological observatories. Parameters for which standard methods are in widespread use, or for which methods are evolving rapidly, were not selected. Protocols were developed by domain experts, building on existing methods where possible, and refined through a process of field testing and training. They address above-ground plant biomass; decomposition; land use and management; leaf area index; soil mesofaunal diversity; soil C and N stocks, and greenhouse gas emissions from soils. These complement existing methods to provide a complete assessment of ecological integrity. These protocols offer integrated approaches to ecological data collection that are low cost and are starting to be used across the European Long Term Ecological Research community.},
}

@article {pmid28615350,
year = {2017},
author = {Schlaich, AE and Bouten, W and Bretagnolle, V and Heldbjerg, H and Klaassen, RHG and Sørensen, IH and Villers, A and Both, C},
title = {A circannual perspective on daily and total flight distances in a long-distance migratory raptor, the Montagu's harrier, Circus pygargus.},
journal = {Biology letters},
volume = {13},
number = {6},
pages = {},
pmid = {28615350},
issn = {1744-957X},
mesh = {Animal Migration ; Animals ; Denmark ; *Falconiformes ; Female ; France ; Male ; Netherlands ; },
abstract = {Long-distance migrants are particularly recognized for the distances covered on migration, yet little is known about the distances they cover during the rest of the year. GPS-tracks of 29 Montagu's harriers from breeding areas in France, The Netherlands and Denmark showed that harriers fly between 35 653 and 88 049 km yr-1, of which on average only 28.5% is on migration. Mean daily distances during migration were 296 km d-1 in autumn and 252 km d-1 in spring. Surprisingly, males' daily distances during breeding (217 km d-1) were close to those during migration, whereas breeding females moved significantly less (101 km d-1) than males. In terms of flight distance, the breeding season seemed nearly as demanding as migration periods for males. During the six winter months, both sexes moved less (114 and 128 km d-1 for females and males, respectively) than during migration. Harriers therefore covered shorter daily distances during winter which might allow birds to compensate for the more demanding phases of migration and breeding.},
}

Animal Migration
Animals
Denmark
*Falconiformes
Female
France
Male
Netherlands

@article {pmid28596410,
year = {2017},
author = {Heinsch, SC and Otto-Hanson, L and Hsu, SY and Kinkel, L and Smanski, MJ},
title = {Genome Sequences for Streptomyces spp. Isolated from Disease-Suppressive Soils and Long-Term Ecological Research Sites.},
journal = {Genome announcements},
volume = {5},
number = {23},
pages = {},
pmid = {28596410},
issn = {2169-8287},
abstract = {We report here the high-quality genome sequences of three Streptomyces spp. isolated as part of a long-term study of microbial soil ecology. Streptomyces sp. strain GS93-23 was isolated from naturally disease-suppressive soil (DSS) in Grand Rapids, MN, and Streptomyces sp. strains S3-4 and 3211-3 were isolated from experimental plots in the Cedar Creek Ecosystem Science Reserve (CCESR).},
}

@article {pmid28589285,
year = {2017},
author = {Pietrelli, L and Poeta, G and Battisti, C and Sighicelli, M},
title = {Characterization of plastic beach debris finalized to its removal: a proposal for a recycling scheme.},
journal = {Environmental science and pollution research international},
volume = {24},
number = {19},
pages = {16536-16542},
pmid = {28589285},
issn = {1614-7499},
mesh = {*Bathing Beaches ; *Environmental Monitoring ; Italy ; *Plastics ; Recycling ; Spectroscopy, Fourier Transform Infrared ; },
abstract = {Characterization of beach debris is crucial to assess the strategy to answer questions such as recycling. With the aim to assess its use in a recycling scheme, in this note, we carried out a physical and chemical characterization of plastic litter from a pilot beach in Central Italy, using the FT-IR spectroscopy and thermoanalysis. Fourteen polymers, having mainly thermoplastic origin, were identified; among them, the most represented are polyethylene (41.7%) and polypropylene (36.9%). Chemical and mechanical degradation were clearly observed by an IR spectrum. The thermogravimetric analysis curve of the plastic blend shows the melting point at 120-140 °C, and degradation occurs almost totally in a one-step process within 300-500 °C. The high heating value of the plastic debris is 43.9 MJ kg-1. Polymer blends obtained by beach debris show mechanical properties similar to the virgin high-density polyethylene polymer. Following the beach plastic debris characterization, a recycling scheme was suggested.},
}

*Bathing Beaches
*Environmental Monitoring
Italy
*Plastics
Recycling
Spectroscopy, Fourier Transform Infrared

@article {pmid28500769,
year = {2017},
author = {Kaspari, M and Bujan, J and Weiser, MD and Ning, D and Michaletz, ST and Zhili, H and Enquist, BJ and Waide, RB and Zhou, J and Turner, BL and Wright, SJ},
title = {Biogeochemistry drives diversity in the prokaryotes, fungi, and invertebrates of a Panama forest.},
journal = {Ecology},
volume = {98},
number = {8},
pages = {2019-2028},
doi = {10.1002/ecy.1895},
pmid = {28500769},
issn = {0012-9658},
mesh = {Animals ; *Biodiversity ; Ecosystem ; *Forests ; Fungi/*classification ; Invertebrates/*classification ; Panama ; Soil ; *Soil Microbiology ; },
abstract = {Humans are both fertilizing the world and depleting its soils, decreasing the diversity of aquatic ecosystems and terrestrial plants in the process. We know less about how nutrients shape the abundance and diversity of the prokaryotes, fungi, and invertebrates of Earth's soils. Here we explore this question in the soils of a Panama forest subject to a 13-yr fertilization with factorial combinations of nitrogen (N), phosphorus (P), and potassium (K) and a separate micronutrient cocktail. We contrast three hypotheses linking biogeochemistry to abundance and diversity. Consistent with the Stress Hypothesis, adding N suppressed the abundance of invertebrates and the richness of all three groups of organisms by ca. 1 SD or more below controls. Nitrogen addition plots were 0.8 pH units more acidic with 18% more exchangeable aluminum, which is toxic to both prokaryotes and eukaryotes. These stress effects were frequently reversed, however, when N was added with P (for prokaryotes and invertebrates) and with added K (for fungi). Consistent with the Abundance Hypothesis, adding P generally increased prokaryote and invertebrate diversity, and adding K enhanced invertebrate diversity. Also consistent with the Abundance Hypothesis, increases in invertebrate abundance generated increases in richness. We found little evidence for the Competition Hypothesis: that single nutrients suppressed diversity by favoring a subset of high nutrient specialists, and that nutrient combinations suppressed diversity even more. Instead, combinations of nutrients, and especially the cation/micronutrient treatment, yielded the largest increases in richness in the two eukaryote groups. In sum, changes in soil biogeochemistry revealed a diversity of responses among the three dominant soil groups, positive synergies among nutrients, and-in contrast with terrestrial plants-the frequent enhancement of soil biodiversity.},
}

Animals
*Biodiversity
Ecosystem
*Forests
Fungi/*classification
Invertebrates/*classification
Panama
Soil
*Soil Microbiology

@article {pmid28494280,
year = {2017},
author = {Kanbar, HJ and Montargès-Pelletier, E and Losson, B and Bihannic, I and Gley, R and Bauer, A and Villieras, F and Manceau, L and El Samrani, AG and Kazpard, V and Mansuy-Huault, L},
title = {Iron mineralogy as a fingerprint of former steelmaking activities in river sediments.},
journal = {The Science of the total environment},
volume = {599-600},
number = {},
pages = {540-553},
doi = {10.1016/j.scitotenv.2017.04.156},
pmid = {28494280},
issn = {1879-1026},
abstract = {Submerged sediment cores were collected upstream of a dam in the Orne River, northeastern France. This dam was built in the context of steelmaking to constitute a water reservoir for blast furnace cooling and wet cleaning of furnace smokes. The dam also enhanced sediment deposition in the upstream zone. This study was performed to unravel the contamination status of sediments and to evidence possible contribution sources. The sediment layers were analyzed for water content, grain size, chemical composition, crystalline phases at a bulk scale and poorly crystalline and amorphous phases at a sub-micrometer scale. Visual aspect, texture, color, and chemical and mineralogical analyses showed that the settled sediments were mainly composed of fine black matter, certainly comprising steelmaking by-products. Those materials were highly enriched with Fe, Zn, Pb and other trace metals, except for a relatively thin layer of surficial sediments that had settled more recently. Bulk mineralogy revealed crystalline iron minerals, such as magnetite, goethite, wuestite and pyrite, in the deep layers of the sediment cores. Furthermore, microscopic investigations evidenced the presence of ferrospheres, goethite nanoparticles and newly formed Fe-aluminosilicates; all originating from the former steelmaking facilities. The variation of iron mineralogy, combined with specific chemical profiles and other sediment features, demonstrate the different contributions that constitute the sediment deposit. Furthermore, chemical and mineralogical features of goethite and Fe-aluminosilicates could be used as a fingerprint for such contaminated sediments.},
}

@article {pmid28493884,
year = {2017},
author = {Blair, DP and Blanchard, W and Banks, SC and Lindenmayer, DB},
title = {Non-linear growth in tree ferns, Dicksonia antarctica and Cyathea australis.},
journal = {PloS one},
volume = {12},
number = {5},
pages = {e0176908},
pmid = {28493884},
issn = {1932-6203},
mesh = {Ferns/*growth & development ; Fires ; Forests ; Models, Biological ; Nonlinear Dynamics ; South Australia ; Trees/*growth & development ; },
abstract = {Tree ferns are an important structural component of forests in many countries. However, because their regeneration is often unrelated to major disturbances, their age is often difficult to determine. In addition, rates of growth may not be uniform, which further complicates attempts to determine their age. In this study, we measured 5 years of growth of Cyathea australis and Dicksonia antarctica after a large wildfire in 2009 in south-eastern Australia. We found growth rates of these two species were unaffected by aspect and elevation but slope had a minor effect with D. antarctica growing 0.3mm faster for each additional degree of slope. Geographic location influenced growth in both species by up to 12 - 14mm/yr. The most consistent factor influencing growth rate, however, was initial height at the time of the 2009 fire; a finding consistent in both species and all geographic locations. For both tree fern species, individuals that were taller at the commencement of the study had greater overall growth for the duration of the study. This effect did not decrease even among the tallest tree ferns in our study (up to 6 metres tall). Overall, Cyathea australis averaged 73 (± 22)mm/year of growth (± 1SD), with the rate increasing 5mm/yr per metre of additional height. Dicksonia antarctica averaged 33 (± 13)mm/year, increasing by 6mm/yr/m. Growth rates dependent on initial height were unexpected and we discuss possible reasons for this finding. Variable growth rates also suggest that common age estimation methods of dividing height by average growth rate are likely to underestimate the age of short tree ferns, while overestimating the age of tall tree ferns, particularly if they have been subject to a fire.},
}

Ferns/*growth & development
Fires
Forests
Models, Biological
Nonlinear Dynamics
South Australia
Trees/*growth & development