@article {8842, title = {A fiddler crab reduces plant growth in its expanded range}, journal = {Ecology}, volume = {104310}, year = {2023}, month = {Dec-12-2023}, issn = {0012-9658}, doi = {10.1002/ecy.4203}, url = {https://esajournals.onlinelibrary.wiley.com/doi/10.1002/ecy.4203}, author = {Mart{\'\i}nez-Soto, Kayla S. and Johnson, David S.} } @article {viana_four_2023, title = {Four Fundamental Questions to Evaluate Land Change Models with an Illustration of a Cellular Automata{\textendash}Markov Model}, journal = {Annals of the American Association of Geographers}, volume = {113}, year = {2023}, pages = {2497{\textendash}2511}, abstract = {Numerous models exist for users to simulate land change to communicate with an audience concerning future land change. This article raises four fundamental questions to help model users decide whether to use any model: (1) Can the user understand the model? (2) Can the audience understand the model? (3) Can the user control the model? (4) Does the model address the goals of the specific application? This article applies these questions to the popular cellular automata{\textendash}Markov (CA{\textendash}Markov) model as IDRISI{\textquoteright}s CA{\textendash}Markov module expresses. Sensitivity analysis examines 120 ways to set the module{\textquoteright}s parameters. Verification compares the module{\textquoteright}s behavior to the software{\textquoteright}s documentation. Results show that the cellular automata{\textquoteright}s allocation fails to follow the quantity of change that the Markov module computes. The module{\textquoteright}s behavior is likely to cause users to misinterpret the validation metrics and to miscommunicate with audiences. Thus, the answers to the four questions were not satisfactory for this article{\textquoteright}s case study. This article{\textquoteright}s framework helps users to judge a model{\textquoteright}s appropriateness for a specific application by combining sensitivity analysis with verification in a manner that helps to interpret validation. Users should answer the four questions as they decide whether to use any software{\textquoteright}s modules.}, keywords = {an{\'a}lisis de sensibilidad, CA-Markov, CA{\textendash}Markov, IDRISI software, IDRISI软件, sensitivity analysis, software IDRISI, validaci{\'o}n, Validation, verificaci{\'o}n, verification, 敏感性分析, 确认, 验证}, issn = {2469-4452}, doi = {10.1080/24694452.2023.2232435}, url = {https://doi.org/10.1080/24694452.2023.2232435}, author = {Viana, Cl{\'a}udia M. and Pontius Jr., Robert Gilmore and Rocha, Jorge} } @article {jankowski_long-term_2023, title = {Long-Term Changes in Concentration and Yield of Riverine Dissolved Silicon From the Poles to the Tropics}, journal = {Global Biogeochemical Cycles}, volume = {37}, year = {2023}, pages = {e2022GB007678}, abstract = {Riverine exports of silicon (Si) influence global carbon cycling through the growth of marine diatoms, which account for \~{}25\% of global primary production. Climate change will likely alter river Si exports in biome-specific ways due to interacting shifts in chemical weathering rates, hydrologic connectivity, and metabolic processes in aquatic and terrestrial systems. Nonetheless, factors driving long-term changes in Si exports remain unexplored at local, regional, and global scales. We evaluated how concentrations and yields of dissolved Si (DSi) changed over the last several decades of rapid climate warming using long-term data sets from 60 rivers and streams spanning the globe (e.g., Antarctic, tropical, temperate, boreal, alpine, Arctic systems). We show that widespread changes in river DSi concentration and yield have occurred, with the most substantial shifts occurring in alpine and polar regions. The magnitude and direction of trends varied within and among biomes, were most strongly associated with differences in land cover, and were often independent of changes in river discharge. These findings indicate that there are likely diverse mechanisms driving change in river Si biogeochemistry that span the land-water interface, which may include glacial melt, changes in terrestrial vegetation, and river productivity. Finally, trends were often stronger in months outside of the growing season, particularly in temperate and boreal systems, demonstrating a potentially important role of shifting seasonality for the flux of Si from rivers. Our results have implications for the timing and magnitude of silica processing in rivers and its delivery to global oceans.}, keywords = {and modeling, biogeochemical cycles, biogeochemistry, hydrologic time series analysis, impacts of global change, nutrients and nutrient cycling, processes, river, silica, trends}, issn = {1944-9224}, doi = {10.1029/2022GB007678}, url = {https://onlinelibrary.wiley.com/doi/abs/10.1029/2022GB007678}, author = {Jankowski, Kathi Jo and Johnson, Keira and Sethna, Lienne and Julian, Paul and Wymore, Adam S. and Shogren, Arial J. and Thomas, Patrick K. and Sullivan, Pamela L. and McKnight, Diane M. and McDowell, William H. and Heindel, Ruth and Jones, Jeremy B. and Wollheim, Wilfred and Abbott, Benjamin and Deegan, Linda and Carey, Joanna C.} } @article {rand_parasite_2023, title = {Parasite manipulation of host phenotypes inferred from transcriptional analyses in a trematode-amphipod system}, journal = {Molecular Ecology}, volume = {32}, year = {2023}, pages = {5028{\textendash}5041}, abstract = {Manipulation of host phenotypes by parasites is hypothesized to be an adaptive strategy enhancing parasite transmission across hosts and generations. Characterizing the molecular mechanisms of manipulation is important to advance our understanding of host{\textendash}parasite coevolution. The trematode (Levinseniella byrdi) is known to alter the colour and behaviour of its amphipod host (Orchestia grillus) presumably increasing predation of amphipods which enhances trematode transmission through its life cycle. We sampled 24 infected and 24 uninfected amphipods from a salt marsh in Massachusetts to perform differential gene expression analysis. In addition, we constructed novel genomic tools for O. grillus including a de novo genome and transcriptome. We discovered that trematode infection results in upregulation of amphipod transcripts associated with pigmentation and detection of external stimuli, and downregulation of multiple amphipod transcripts implicated in invertebrate immune responses, such as vacuolar ATPase genes. We hypothesize that suppression of immune genes and the altered expression of genes associated with coloration and behaviour may allow the trematode to persist in the amphipod and engage in further biochemical manipulation that promotes transmission. The genomic tools and transcriptomic analyses reported provide new opportunities to discover how parasites alter diverse pathways underlying host phenotypic changes in natural populations.}, keywords = {amphipod, differential expression, ecological genomics, host{\textendash}parasite co-evolution, infection response, Orchestia grillus, parasite manipulation, population genetics, trematode}, issn = {1365-294X}, doi = {10.1111/mec.17093}, url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/mec.17093}, author = {Rand, David M. and Nunez, Joaquin C. B. and Williams, Shawn and Rong, Stephen and Burley, John T. and Neil, Kimberly B. and Spierer, Adam N. and McKerrow, Wilson and Johnson, David S. and Raynes, Yevgeniy and Fayton, Thomas J. and Skvir, Nicholas and Ferranti, David A. and Zeff, Maya Greenhill and Lyons, Amanda and Okami, Naima and Morgan, David M. and Kinney, Kealohanuiopuna and Brown, Bianca R. P. and Giblin, Anne E. and Cardon, Zoe G.} } @article {8777, title = {Quantifying Flow Velocities in River Deltas via Remotely Sensed Suspended Sediment Concentration}, journal = {Geophysical Research Letters}, volume = {50}, year = {2023}, month = {Apr-02-2025}, issn = {0094-8276}, doi = {10.1029/2022GL101392}, url = {https://onlinelibrary.wiley.com/doi/10.1029/2022GL101392}, author = {Donatelli, Carmine and Passalacqua, Paola and Wright, Kyle and Salter, Gerard and Lamb, Michael P. and Jensen, Daniel and Fagherazzi, Sergio} } @article {8794, title = {Recent Acceleration of Wetland Accretion and Carbon Accumulation Along the U.S. East Coast}, journal = {Earth{\textquoteright}s Future}, volume = {11151}, year = {2023}, month = {Jan-03-2023}, issn = {2328-4277}, doi = {10.1029/2022EF003037}, url = {https://agupubs.onlinelibrary.wiley.com/doi/10.1029/2022EF003037https://agupubs.onlinelibrary.wiley.com/doi/pdf/10.1029/2022EF003037}, author = {Weston, Nathaniel B. and Rodriguez, Elise and Donnelly, Brian and Solohin, Elena and Jezycki, Kristen and Demberger, Sandra and Sutter, Lori A. and Morris, James T. and Neubauer, Scott C. and Craft, Christopher B.} } @article {johnston_spatial_2023, title = {Spatial dimensions of water quality value in New England river networks}, journal = {Proceedings of the National Academy of Sciences}, volume = {120}, year = {2023}, pages = {e2120255119}, abstract = {Households{\textquoteright} willingness to pay (WTP) for water quality improvements{\textemdash}representing their economic value{\textemdash}depends on where improvements occur. Households often hold higher values for improvements close to their homes or iconic areas. Are there other areas where improvements might hold high value to individual households, do effects on WTP vary by type of improvement, and can these areas be identified even if they are not anticipated by researchers? To answer these questions, we integrated a water quality model and map-based, interactive choice experiment to estimate households{\textquoteright} WTP for water quality improvements throughout a river network covering six New England states. The choice experiment was implemented using a push-to-web survey over a sample of New England households. Voting scenarios used to elicit WTP included interactive geographic information system (GIS) maps that illustrated three water quality measures at various zoom levels across the study domain. We captured data on how respondents maneuvered through these maps prior to answering the value-eliciting questions. Results show that WTP was influenced by regionwide quality improvements and improvements surrounding each respondent{\textquoteright}s home, as anticipated, but also by improvements in individualized locations identifiable via each respondent{\textquoteright}s map interactions. These spatial WTP variations only appear for low-quality rivers and are focused around particular areas of New England. The study shows that dynamic map interactions can convey salient information for WTP estimation and that predicting spatial WTP heterogeneity based primarily on home or iconic locations, as typically done, may overlook areas where water quality has high value.}, doi = {10.1073/pnas.2120255119}, url = {https://www.pnas.org/doi/abs/10.1073/pnas.2120255119}, author = {Johnston, Robert J. and Moeltner, Klaus and Peery, Seth and Ndebele, Tom and Yao, Zhenyu and Crema, Stefano and Wollheim, Wilfred M. and Besedin, Elena} } @article {8771, title = {Are amphipods Orchestia grillus (Bosc, 1802) (Amphipoda: Talitridae) infected with the trematode Levinseniella byrdi (Heard, 1968) drawn to the light?}, journal = {Journal of Crustacean Biology}, volume = {42}, year = {2022}, month = {Jan-06-2022}, issn = {0278-0372}, doi = {10.1093/jcbiol/ruac017}, url = {https://academic.oup.com/jcb/article/doi/10.1093/jcbiol/ruac017/6563377}, author = {Johnson, David S} } @article {bogdan_biological_2022, title = {Biological {Networks} across {Scales}{\textemdash}{The} {Theoretical} and {Empirical} {Foundations} for {Time}-{Varying} {Complex} {Networks} that {Connect} {Structure} and {Function} across {Levels} of {Biological} {Organization}}, journal = {Integrative and Comparative Biology}, volume = {61}, number = {6}, year = {2022}, month = {feb}, pages = {1991{\textendash}2010}, abstract = {Abstract Many biological systems across scales of size and complexity exhibit a time-varying complex network structure that emerges and self-organizes as a result of interactions with the environment. Network interactions optimize some intrinsic cost functions that are unknown and involve for example energy efficiency, robustness, resilience, and frailty. A wide range of networks exist in biology, from gene regulatory networks important for organismal development, protein interaction networks that govern physiology and metabolism, and neural networks that store and convey information to networks of microbes that form microbiomes within hosts, animal contact networks that underlie social systems, and networks of populations on the landscape connected by migration. Increasing availability of extensive (big) data is amplifying our ability to quantify biological networks. Similarly, theoretical methods that describe network structure and dynamics are being developed. Beyond static networks representing snapshots of biological systems, collections of longitudinal data series can help either at defining and characterizing network dynamics over time or analyzing the dynamics constrained to networked architectures. Moreover, due to interactions with the environment and other biological systems, a biological network may not be fully observable. Also, subnetworks may emerge and disappear as a result of the need for the biological system to cope with for example invaders or new information flows. The confluence of these developments renders tractable the question of how the structure of biological networks predicts and controls network dynamics. In particular, there may be structural features that result in homeostatic networks with specific higher-order statistics (e.g., multifractal spectrum), which maintain stability over time through robustness and/or resilience to perturbation. Alternative, plastic networks may respond to perturbation by (adaptive to catastrophic) shifts in structure. Here, we explore the opportunity for discovering universal laws connecting the structure of biological networks with their function, positioning them on the spectrum of time-evolving network structure, that is, dynamics of networks, from highly stable to exquisitely sensitive to perturbation. If such general laws exist, they could transform our ability to predict the response of biological systems to perturbations{\textemdash}an increasingly urgent priority in the face of anthropogenic changes to the environment that affect life across the gamut of organizational scales.}, issn = {1540-7063, 1557-7023}, doi = {10.1093/icb/icab069}, url = {https://academic.oup.com/icb/article/61/6/1991/6281074}, author = {Bogdan, Paul and Caetano-Anoll{\'e}s, Gustavo and Jolles, Anna and Kim, Hyunju and Morris, James and Murphy, Cheryl A and Royer, Catherine and Snell, Edward H and Steinbrenner, Adam and Strausfeld, Nicholas} } @inbook {fagherazzi_ecogeomorphology_2022, title = {Ecogeomorphology of Salt Marshes}, booktitle = {Treatise on Geomorphology (Second Edition)}, year = {2022}, pages = {445 {\textendash} 462}, publisher = {Academic Press}, organization = {Academic Press}, keywords = {Belowground biomass Ecogeomorphology Halophyte vegetation Nutrient enrichment Root scalping Salt marsh Sea level rise Tidal channels Tides and wind waves}, doi = {10.1016/B978-0-12-818234-5.00194-2}, url = {https://www.sciencedirect.com/science/article/pii/B9780128182345001942?via\%3Dihub}, author = {Fagherazzi, S. and FitzGerald, D.M. and Fulweiler, R.W. and Hughes, Z. and Wiberg, P.L. and McGlathery, K.J. and Morris, J.T. and Tolhurst, T. J. and Deegan, L.A. and Johnson, D.S. and Lesser, J.S. and Nelson, J.A.}, editor = {Shroder, J.F.} } @article {huang_removal_2022, title = {Removal of {Fecal} {Indicator} {Bacteria} by {River} {Networks}}, journal = {Water}, volume = {14}, number = {4}, year = {2022}, month = {feb}, pages = {617}, abstract = {Fecal contamination is a significant source of water quality impairment globally. Aquatic ecosystems can provide an important ecosystem service of fecal contamination removal. Understanding the processes that regulate the removal of fecal contamination among river networks across flow conditions is critical. We applied a river network model, the Framework for Aquatic Modeling in the Earth System (FrAMES-Ecoli), to quantify removal of fecal indicator bacteria by river networks across flow conditions during summers in a series of New England watersheds of different characteristics. FrAMES-Ecoli simulates sources, transport, and riverine removal of Escherichia coli (E. coli). Aquatic E. coli removal was simulated in both the water column and the hyporheic zone, and is a function of hydraulic conditions, flow exchange rates with the hyporheic zone, and die-off in each compartment. We found that, at the river network scale during summers, removal by river networks can be high (19{\textendash}99\%) with variability controlled by hydrologic conditions, watershed size, and distribution of sources in the watershed. Hydrology controls much of the variability, with 68{\textendash}99\% of network scale inputs removed under base flow conditions and 19{\textendash}85\% removed during storm events. Removal by the water column alone could not explain the observed pattern in E. coli, suggesting that processes such as hyporheic removal must be considered. These results suggest that river network removal of fecal indicator bacteria should be taken into consideration in managing fecal contamination at critical downstream receiving waters.}, issn = {2073-4441}, doi = {10.3390/w14040617}, url = {https://www.mdpi.com/2073-4441/14/4/617}, author = {Huang, Tao and Wollheim, Wilfred M. and Jones, Stephen H.} } @article {zhang_using_2022, title = {Using rapid repeat {SAR} interferometry to improve hydrodynamic models of flood propagation in coastal wetlands}, journal = {Advances in Water Resources}, volume = {159}, year = {2022}, month = {jan}, pages = {104088}, issn = {03091708}, doi = {10.1016/j.advwatres.2021.104088}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0309170821002402}, author = {Zhang, Xiaohe and Jones, Cathleen E. and Oliver-Cabrera, Talib and Simard, Marc and Fagherazzi, Sergio} } @article {wittyngham_biotic_2021, title = {Biotic {Recovery} {Following} {Ice}-{Rafting} in a {Salt} {Marsh}}, journal = {Estuaries and Coasts}, year = {2021}, month = {nov}, issn = {1559-2723, 1559-2731}, doi = {10.1007/s12237-021-01023-z}, url = {https://link.springer.com/10.1007/s12237-021-01023-z}, author = {Wittyngham, Serina S. and Pant, Manisha and Mart{\'\i}nez-Soto, Kayla and Johnson, David S.} } @article {iwaniec_connectivity_2021, title = {Connectivity: insights from the {U}.{S}. {Long} {Term} {Ecological} {Research} {Network}}, journal = {Ecosphere}, volume = {12}, number = {5}, year = {2021}, month = {may}, issn = {2150-8925, 2150-8925}, doi = {10.1002/ecs2.3432}, url = {https://onlinelibrary.wiley.com/doi/10.1002/ecs2.3432}, author = {Iwaniec, David M. and Gooseff, Michael and Suding, Katharine N. and Samuel Johnson, David and Reed, Daniel C. and Peters, Debra P. C. and Adams, Byron and Barrett, John E. and Bestelmeyer, Brandon T. and Castorani, Max C. N. and Cook, Elizabeth M. and Davidson, Melissa J. and Groffman, Peter M. and Hanan, Niall P. and Huenneke, Laura F. and Johnson, Pieter T. J. and McKnight, Diane M. and Miller, Robert J. and Okin, Gregory S. and Preston, Daniel L. and Rassweiler, Andrew and Ray, Chris and Sala, Osvaldo E. and Schooley, Robert L. and Seastedt, Timothy and Spasojevic, Marko J. and Vivoni, Enrique R.} } @article {lesser_cross-habitat_2021, title = {Cross-habitat access modifies the {\textquoteleft}trophic relay{\textquoteright} in {New} {England} saltmarsh ecosystems}, journal = {Food Webs}, volume = {29}, year = {2021}, month = {dec}, pages = {e00206}, issn = {23522496}, doi = {10.1016/j.fooweb.2021.e00206}, url = {https://linkinghub.elsevier.com/retrieve/pii/S2352249621000197}, author = {Lesser, Justin S. and Floyd, Olivia and Fedors, Katrina and Deegan, Linda A. and Johnson, David S. and Nelson, James A.} } @article {avolio_determinants_2021, title = {Determinants of community compositional change are equally affected by global change}, journal = {Ecology Letters}, volume = {24}, number = {9}, year = {2021}, month = {sep}, pages = {1892{\textendash}1904}, issn = {1461-023X, 1461-0248}, doi = {10.1111/ele.13824}, url = {https://onlinelibrary.wiley.com/doi/10.1111/ele.13824}, author = {Avolio, Meghan L. and Komatsu, Kimberly J. and Collins, Scott L. and Grman, Emily and Koerner, Sally E. and Tredennick, Andrew T. and Wilcox, Kevin R. and Baer, Sara and Boughton, Elizabeth H. and Britton, Andrea J. and Foster, Bryan and Gough, Laura and Hovenden, Mark and Isbell, Forest and Jentsch, Anke and Johnson, David S. and Knapp, Alan K. and Kreyling, Juergen and Langley, J. Adam and Lortie, Christopher and McCulley, Rebecca L. and McLaren, Jennie R. and Reich, Peter B. and Seabloom, Eric W. and Smith, Melinda D. and Suding, Katharine N. and Suttle, K. Blake and Tognetti, Pedro M.}, editor = {Anderson, Marti} } @article {evenden_encoding_2021, title = {Encoding a {Categorical} {Independent} {Variable} for {Input} to {TerrSet}{\textquoteright}s {Multi}-{Layer} {Perceptron}}, journal = {ISPRS International Journal of Geo-Information}, volume = {10}, number = {10}, year = {2021}, month = {oct}, pages = {686}, abstract = {The profession debates how to encode a categorical variable for input to machine learning algorithms, such as neural networks. A conventional approach is to convert a categorical variable into a collection of binary variables, which causes a burdensome number of correlated variables. TerrSet{\textquoteright}s Land Change Modeler proposes encoding a categorical variable onto the continuous closed interval from 0 to 1 based on each category{\textquoteright}s Population Evidence Likelihood (PEL) for input to the Multi-Layer Perceptron, which is a type of neural network. We designed examples to test the wisdom of these encodings. The results show that encoding a categorical variable based on each category{\textquoteright}s Sample Empirical Probability (SEP) produces results similar to binary encoding and superior to PEL encoding. The Multi-Layer Perceptron{\textquoteright}s sigmoidal smoothing function can cause PEL encoding to produce nonsensical results, while SEP encoding produces straightforward results. We reveal the encoding methods by illustrating how a dependent variable gains across an independent variable that has four categories. The results show that PEL can differ substantially from SEP in ways that have important implications for practical extrapolations. If users must encode a categorical variable for input to a neural network, then we recommend SEP encoding, because SEP efficiently produces outputs that make sense.}, issn = {2220-9964}, doi = {10.3390/ijgi10100686}, url = {https://www.mdpi.com/2220-9964/10/10/686}, author = {Evenden, Emily and Pontius Jr, Robert Gilmore} } @article {shafizadeh-moghadam_integrating_2021, title = {Integrating a {Forward} {Feature} {Selection} algorithm, {Random} {Forest}, and {Cellular} {Automata} to extrapolate urban growth in the {Tehran}-{Karaj} {Region} of {Iran}}, journal = {Computers, Environment and Urban Systems}, volume = {87}, year = {2021}, month = {may}, pages = {101595}, issn = {01989715}, doi = {10.1016/j.compenvurbsys.2021.101595}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0198971521000028}, author = {Shafizadeh-Moghadam, Hossein and Minaei, Masoud and Pontius Jr, Robert Gilmore and Asghari, Ali and Dadashpoor, Hashem} } @article {jin_river_2021, title = {River body extraction from sentinel-{2A}/{B} {MSI} images based on an adaptive multi-scale region growth method}, journal = {Remote Sensing of Environment}, volume = {255}, year = {2021}, month = {mar}, pages = {112297}, issn = {00344257}, doi = {10.1016/j.rse.2021.112297}, url = {https://linkinghub.elsevier.com/retrieve/pii/S0034425721000158}, author = {Jin, Song and Liu, Yongxue and Fagherazzi, Sergio and Mi, Huan and Qiao, Gang and Xu, Wenxuan and Sun, Chao and Liu, Yongchao and Zhao, Bingxue and Fichot, C{\'e}dric G.} } @article {liu_total_2021, title = {The {Total} {Operating} {Characteristic} from {Stratified} {Random} {Sampling} with an {Application} to {Flood} {Mapping}}, journal = {Remote Sensing}, volume = {13}, number = {19}, year = {2021}, month = {sep}, pages = {3922}, abstract = {The Total Operating Characteristic (TOC) measures how the ranks of an index variable distinguish between presence and absence in a binary reference variable. Previous methods to generate the TOC required the reference data to derive from a census or a simple random sample. However, many researchers apply stratified random sampling to collect reference data because stratified random sampling is more efficient than simple random sampling for many applications. Our manuscript derives a new methodology that uses stratified random sampling to generate the TOC. An application to flood mapping illustrates how the TOC compares the abilities of three indices to diagnose water. The TOC shows visually and quantitatively each index{\textquoteright}s diagnostic ability relative to baselines. Results show that the Modified Normalized Difference Water Index has the greatest diagnostic ability, while the Normalized Difference Vegetation Index has diagnostic ability greater than the Normalized Difference Water Index at the threshold where the Diagnosed Presence equals the Abundance of water. Some researchers consider only one accuracy metric at only one threshold, whereas the TOC allows visualization of several metrics at all thresholds. The TOC gives more information and clearer interpretation compared to the popular Relative Operating Characteristic. Our software generates the TOC from a census, simple random sample, or stratified random sample. The TOC Curve Generator is free as an executable file at a website that our manuscript gives.}, issn = {2072-4292}, doi = {10.3390/rs13193922}, url = {https://www.mdpi.com/2072-4292/13/19/3922}, author = {Liu, Zhen and Pontius Jr, Robert Gilmore} } @article {PIE503, title = {A climate migrant escapes its parasites}, journal = {Marine Ecological Progress Series}, volume = {641}, year = {2020}, note = {PI Plum Data}, pages = {111-121}, keywords = {climate change, climate migrant, enemy-release hypothesis, fiddler crab, global change, LTER-PIE, parasite escape, population dynamics, range expansions, range shift}, doi = {10.3354/meps13278}, author = {Johnson, D.S. and Shields, J.D. and Doucette, D. and Heard, R.} } @article {PIE502, title = {The density of the Atlantic marsh fiddler crab (Minuca pugnax, Smith, 1870) (Decapoda: Brachyura: Ocypodidae) in its expanded range in the Gulf of Maine, USA }, journal = {Journal of Crustacean Biology}, volume = {40}, year = {2020}, note = {PI Plum Data}, pages = {544-548}, keywords = {climate migrant, ecosystem engineer, LTER-PIE, ocean warming, population dynamics, range expansion, range shift, Uca pugnax}, doi = {10.1093/jcbiol/ruaa049}, author = {Martinez-Soto, K.S. and Johnson, D.S.} } @article {xie_enhanced_2020, title = {Enhanced {Intensity} {Analysis} to {Quantify} {Categorical} {Change} and to {Identify} {Suspicious} {Land} {Transitions}: {A} {Case} {Study} of {Nanchang}, {China}}, journal = {Remote Sensing}, volume = {12}, number = {20}, year = {2020}, pages = {3323}, abstract = {Conventional methods to analyze a transition matrix do not offer in-depth signals concerning land changes. The land change community needs an effective approach to visualize both the size and intensity of land transitions while considering possible map errors. We propose a framework that integrates error analysis, intensity analysis, and difference components, and then uses the framework to analyze land change in Nanchang, the capital city of Jiangxi province, China. We used remotely sensed data for six categories at four time points: 1989, 2000, 2008, and 2016. We had a confusion matrix for only 2016, which estimated that the map of 2016 had a 12\% error, while the temporal difference during 2008{\textendash}2016 was 22\% of the spatial extent. Our tools revealed suspected errors at other years by analyzing the patterns of temporal difference. For example, the largest component of temporal difference was exchange, which could indicate map errors. Our framework identified categories that gained during one time interval then lost during the subsequent time interval, which raised the suspicion of map error. This proposed framework facilitated visualization of the size and intensity of land transitions while illustrating possible map errors that the profession routinely ignores.}, issn = {2072-4292}, doi = {10.3390/rs12203323}, url = {https://www.mdpi.com/2072-4292/12/20/3323}, author = {Xie, Zheyu and Pontius Jr, Robert Gilmore and Huang, Jinliang and Nitivattananon, Vilas} } @article {PIE501, title = {The fiddler crab Minuca pugnax () (Decapoda: Brachyura: Ocypodidae) reduces saltmarsh algae in its expanded range }, journal = {Journal of Crustacean Biology}, year = {2020}, note = {PI Plum Data}, keywords = {LTER-PIE}, doi = {10.1093/jcbiol/ruaa073}, author = {Johnson, D.S. and Martinez-Soto, K.S. and Pant, M. and Wittyngham, S.S and Goetz, E.M.} } @article {sills_fisheries_2020, title = {Fisheries rely on threatened salt marshes}, journal = {Science}, volume = {370}, number = {6517}, year = {2020}, month = {nov}, pages = {670{\textendash}671}, issn = {0036-8075, 1095-9203}, doi = {10.1126/science.abe9332}, url = {https://www.science.org/doi/10.1126/science.abe9332}, author = {Baker, Ronald and Taylor, Matthew D. and Able, Kenneth W. and Beck, Michael W. and Cebrian, Just and Colombano, Denise D. and Connolly, Rod M. and Currin, Carolyn and Deegan, Linda A. and Feller, Ilka C. and Gilby, Ben L. and Kimball, Matthew E. and Minello, Thomas J. and Rozas, Lawrence P. and Simenstad, Charles and Turner, R. Eugene and Waltham, Nathan J. and Weinstein, Michael P. and Ziegler, Shelby L. and zu Ermgassen, Philine S.E. and Alcott, Caitlin and Alford, Scott B. and Barbeau, Myriam A. and Crosby, Sarah C. and Dodds, Kate and Frank, Alyssa and Goeke, Janelle and Goodridge Gaines, Lucy A. and Hardcastle, Felicity E. and Henderson, Christopher J. and James, W. Ryan and Kenworthy, Matthew D. and Lesser, Justin and Mallick, Debbrota and Martin, Charles W. and McDonald, Ashley E. and McLuckie, Catherine and Morrison, Blair H. and Nelson, James A. and Norris, Gregory S. and Ollerhead, Jeff and Pahl, James W. and Ramsden, Sarah and Rehage, Jennifer S. and Reinhardt, James F. and Rezek, Ryan J. and Risse, L. Mark and Smith, Joseph A.M. and Sparks, Eric L. and Staver, Lorie W.}, editor = {Sills, Jennifer} } @article {bowen_not_2020, title = {Not {All} {Nitrogen} {Is} {Created} {Equal}: {Differential} {Effects} of {Nitrate} and {Ammonium} {Enrichment} in {Coastal} {Wetlands}}, journal = {BioScience}, volume = {70}, number = {12}, year = {2020}, month = {dec}, pages = {1108{\textendash}1119}, abstract = {Abstract Excess reactive nitrogen (N) flows from agricultural, suburban, and urban systems to coasts, where it causes eutrophication. Coastal wetlands take up some of this N, thereby ameliorating the impacts on nearshore waters. Although the consequences of N on coastal wetlands have been extensively studied, the effect of the specific form of N is not often considered. Both oxidized N forms (nitrate, NO3-) and reduced forms (ammonium, NH4+) can relieve nutrient limitation and increase primary production. However, unlike NH4+, NO3- can also be used as an electron acceptor for microbial respiration. We present results demonstrating that, in salt marshes, microbes use NO3- to support organic matter decomposition and primary production is less stimulated than when enriched with reduced N. Understanding how different forms of N mediate the balance between primary production and decomposition is essential for managing coastal wetlands as N enrichment and sea level rise continue to assail our coasts.}, issn = {0006-3568, 1525-3244}, doi = {10.1093/biosci/biaa140}, url = {https://academic.oup.com/bioscience/article/70/12/1108/6025501}, author = {Bowen, Jennifer L and Giblin, Anne E and Murphy, Anna E and Bulseco, Ashley N and Deegan, Linda A and Johnson, David S and Nelson, James A and Mozdzer, Thomas J and Sullivan, Hillary L} } @article {PIE488, title = {Tidal Wetland Gross Primary Production Across the Continental United States, 2000{\textendash}2019.}, journal = {Global Biogeochemical Cycles}, volume = {34}, year = {2020}, note = {PI}, keywords = {blue carbon, eddy covariance, LTER-PIE, organic matter, primary production, tidal wetlands}, doi = {10.1029/2019GB006349}, author = {Feagin, A. and Forbrich, I. and Huff, T.P. and Barr, J. G. and Ruiz-Plancarte, J. and Fuentes, J. D. and NaJJar, R. G. and Vargas, R. and V{\'a}zquez-Lule, A. and Windham-Myers. L. and Kroeger, K. D. and Ward, E. J. and Moore, G. W. and Leclerc, M. and Krauss, K. W. and Stagg, C. L. and Alber, M. and Knox, S. H. and Sch{\"a}fer, K.V.R. and Bianchi, T. S. and Hutchings, J. A. and Nahrawi, H. and Noormets, A. and Mitra, B. and Jaimes, A. and Hinson, A. L. and Bergamaschi, B. and King, J. S. and Miao, G.} } @article {lesser_trophic_2020, title = {Trophic niche size and overlap decreases with increasing ecosystem productivity}, journal = {Oikos}, volume = {129}, number = {9}, year = {2020}, month = {sep}, pages = {1303{\textendash}1313}, issn = {0030-1299, 1600-0706}, doi = {10.1111/oik.07026}, url = {https://onlinelibrary.wiley.com/doi/10.1111/oik.07026}, author = {Lesser, Justin S. and James, W. Ryan and Stallings, Christopher D. and Wilson, Rachel M. and Nelson, James A.} } @article {PIE491, title = {Velocity skew controls the flushing of a tracer in a system of shallow bays with multiple inlets.}, journal = {Continental Shelf Research}, volume = {192}, year = {2020}, note = {PI}, keywords = {coastal bays, Delft3D, disturbance, Eulerian approach, flushing time, LTER-PIE, mass fraction decay, tracer transport}, doi = {10.1016/j.csr.2019.104008}, author = {Palazzoli, I and Leonardi, N. and Jimenez-Robles, A.M. and Fagherazzi, S.} } @mastersthesis {PIE483, title = {Assessing heavy metal pollution in estuarine systems along the eastern United States in relation to land use land cover changes.}, volume = {MS}, year = {2019}, note = {Grad}, school = {Villanova University}, type = {mastersthesis}, address = {Villanova, PA}, keywords = {disturbance, estuaries, heavy metals, land cover, land use, LTER-PIE}, author = {Jezycki, K.} } @article {nelson_feedbacks_2019, title = {Feedbacks {Between} {Nutrient} {Enrichment} and {Geomorphology} {Alter} {Bottom}-{Up} {Control} on {Food} {Webs}}, journal = {Ecosystems}, volume = {22}, number = {2}, year = {2019}, month = {mar}, pages = {229{\textendash}242}, issn = {1432-9840, 1435-0629}, doi = {10.1007/s10021-018-0265-x}, url = {http://link.springer.com/10.1007/s10021-018-0265-x}, author = {Nelson, James A. and Johnson, David Samuel and Deegan, Linda A. and Spivak, Amanda C. and Sommer, Nathalie R.} } @article {PIE500, title = {The fiddler crab, Minuca pugnax, follows Bergmann{\textquoteright}s rule.}, journal = {Ecology and Evolution}, volume = {9}, year = {2019}, note = {PI Plum Data}, pages = {14489-14497}, keywords = {Bergmann{\textquoteright}s rule, fiddler crab, Gulf of Maine, LTER-PIE, population dynamics, salt marsh, temperature-size rule, tropicalization}, doi = {10.1002/ece3.5883}, author = {Johnson, D.S. and Crowley, C. and Longmire, K. and Nelson, J.A. and Williams, B. and Wittyngham, S.} } @article {johnson_fiddler_2019, title = {The fiddler crab, Minuca pugnax, follows Bergmann{\textquoteright}s rule}, journal = {Ecology and Evolution}, volume = {9}, year = {2019}, pages = {14489{\textendash}14497}, abstract = {Bergmann{\textquoteright}s rule predicts that organisms at higher latitudes are larger than ones at lower latitudes. Here, we examine the body size pattern of the Atlantic marsh fiddler crab, Minuca pugnax (formerly Uca pugnax), from salt marshes on the east coast of the United States across 12 degrees of latitude. We found that M. pugnax followed Bergmann{\textquoteright}s rule and that, on average, crab carapace width increased by 0.5 mm per degree of latitude. Minuca pugnax body size also followed the temperature{\textendash}size rule with body size inversely related to mean water temperature. Because an organism{\textquoteright}s size influences its impact on an ecosystem, and M. pugnax is an ecosystem engineer that affects marsh functioning, the larger crabs at higher latitudes may have greater per-capita impacts on salt marshes than the smaller crabs at lower latitudes.}, keywords = {Bergmann{\textquoteright}s rule, fiddler crab, Gulf of Maine, salt marsh, temperature{\textendash}size rule, tropicalization}, issn = {2045-7758}, doi = {10.1002/ece3.5883}, url = {https://onlinelibrary.wiley.com/doi/abs/10.1002/ece3.5883}, author = {Johnson, David Samuel and Crowley, Cynthia and Longmire, Katherine and Nelson, James and Williams, Bethany and Wittyngham, Serina} } @article {PIE499, title = {Global-change effects on plant communities are magnified by time and the number of global-change factors imposed.}, journal = {Proceedings of the National Academy of Sciences of the United States of America}, volume = {116}, year = {2019}, note = {PI Plum Data}, pages = {17867-17873}, keywords = {community composition, global change experiments, herbaceous plants, LTER-PIE, population dynamics, species richness}, doi = {10.1073/pnas.1819027116}, author = {Komatsu, K.J. and Avolio, M.L and Lemoine, N.P. and Isbell, F. and Grman, E. and Houseman, G.R. and Koerner, S.E. and Johnson, D.S. and Wilcox, K.R. and Alatalo, J.M. and Anderson, J.P. and Aerts, R. and Baer, S.G. and Baldwin, A.H. and Bates, J. and Beierkuhnlein, C. and Belote, R.T. and Blair, J. and Bloor, J.M.G. and Bohlen, P.J. and Bork, E.W. and Boughton, E.H. and Bowman, W.D. and Britton, A.J. and Cahill Jr, J.F. and Chaneton, E. and Chiariello, N.R. and Cheng, J.} } @article {PIE496, title = {Intensity Analysis to communicate land change during three time intervals in two regions of Quanzhou City, China.}, journal = {GIScience \& Remote Sensing}, year = {2019}, note = {PI}, keywords = {China, GIS, intensity analysis, land change, LTER-PIE, Quanzhou City, regionalization}, doi = {10.1080/15481603.2019.1658420}, author = {Quan, B. and Pontius Jr, R.G. and Song H.} } @article {langley_ambient_2018, title = {Ambient changes exceed treatment effects on plant species abundance in global change experiments}, journal = {Global Change Biology}, volume = {24}, number = {12}, year = {2018}, month = {dec}, pages = {5668{\textendash}5679}, issn = {1354-1013, 1365-2486}, doi = {10.1111/gcb.14442}, url = {https://onlinelibrary.wiley.com/doi/10.1111/gcb.14442}, author = {Langley, J. Adam and Chapman, Samantha K. and La Pierre, Kimberly J. and Avolio, Meghan and Bowman, William D. and Johnson, David S. and Isbell, Forest and Wilcox, Kevin R. and Foster, Bryan L. and Hovenden, Mark J. and Knapp, Alan K. and Koerner, Sally E. and Lortie, Christopher J. and Megonigal, James P. and Newton, Paul C. D. and Reich, Peter B. and Smith, Melinda D. and Suttle, Kenwyn B. and Tilman, David} } @article {PIE471, title = {Discontinuities in soil strength contribute to destabilization of nutrient-enriched creeks}, journal = {Ecosphere}, year = {2018}, note = {PI}, keywords = {disturbance, eutrophication, LTER-PIE, marsh loss, sea level rise, soil shear strength, wetland soil}, doi = {10.1002/ecs2.2329}, author = {Wigand, C. and Watson, E.B. and Martin, R. and Johnson, D.S. and Warren, R.S. and Hansen, A. and Davey, E. and Johnson, R. and Deegan, L.} } @article {PIE448, title = {Feedbacks Between Nutrient Enrichment and Geomorphology Alter Bottom-Up Control on Food Webs}, journal = {Ecosystems}, year = {2018}, note = {PI Plum Data}, keywords = {estuary, food web theory, geomorphology, inorganic nutrients, landscape control, LTER-PIE, nutrient enrichment, population dynamics, saltmarsh, spatially coupled, trophic subsidy}, doi = {10.1007/s10021-018-0265-x}, author = {Nelson, J.A. and Johnson, D.S. and Deegan, L.A. and Spivak, A.C. and Sommer, N.R.} } @article {castagno_intense_2018, title = {Intense {Storms} {Increase} the {Stability} of {Tidal} {Bays}}, journal = {Geophysical Research Letters}, volume = {45}, number = {11}, year = {2018}, month = {jun}, pages = {5491{\textendash}5500}, issn = {0094-8276, 1944-8007}, doi = {10.1029/2018GL078208}, url = {https://onlinelibrary.wiley.com/doi/10.1029/2018GL078208}, author = {Castagno, Katherine A. and Jim{\'e}nez-Robles, Alfonso M. and Donnelly, Jeffrey P. and Wiberg, Patricia L. and Fenster, Michael S. and Fagherazzi, Sergio} } @article {wilcox_asynchrony_2017, title = {Asynchrony among local communities stabilises ecosystem function of metacommunities}, journal = {Ecology Letters}, volume = {20}, number = {12}, year = {2017}, month = {dec}, pages = {1534{\textendash}1545}, issn = {1461-023X, 1461-0248}, doi = {10.1111/ele.12861}, url = {https://onlinelibrary.wiley.com/doi/10.1111/ele.12861}, author = {Wilcox, Kevin R. and Tredennick, Andrew T. and Koerner, Sally E. and Grman, Emily and Hallett, Lauren M. and Avolio, Meghan L. and La Pierre, Kimberly J. and Houseman, Gregory R. and Isbell, Forest and Johnson, David Samuel and Alatalo, Juha M. and Baldwin, Andrew H. and Bork, Edward W. and Boughton, Elizabeth H. and Bowman, William D. and Britton, Andrea J. and Cahill, James F. and Collins, Scott L. and Du, Guozhen and Eskelinen, Anu and Gough, Laura and Jentsch, Anke and Kern, Christel and Klanderud, Kari and Knapp, Alan K. and Kreyling, Juergen and Luo, Yiqi and McLaren, Jennie R. and Megonigal, Patrick and Onipchenko, Vladimir and Prev{\'e}y, Janet and Price, Jodi N. and Robinson, Clare H. and Sala, Osvaldo E. and Smith, Melinda D. and Soudzilovskaia, Nadejda A. and Souza, Lara and Tilman, David and White, Shannon R. and Xu, Zhuwen and Yahdjian, Laura and Yu, Qiang and Zhang, Pengfei and Zhang, Yunhai}, editor = {Gurevitch, Jessica} } @article {PIE437, title = {Bottom-up control of parasites}, journal = {Ecosphere}, volume = {8}, number = {10}, year = {2017}, note = {PI Plum Data}, keywords = {coastal wetlands, disease ecology, disturbance, eutrophication, fertilizer, host traits, inorganic nutrients, intertidal, LTER-PIE, population dynamics}, doi = {10.1002/ecs2.1885}, author = {Johnson, D.S. and Heard, R.} } @article {PIE440, title = {Rules to write mathematics to clarify metrics such as the land use dynamic degrees}, journal = {Landscape Ecology}, volume = {32}, number = {12}, year = {2017}, note = {PI}, pages = {2249-2260}, keywords = {annual change percentage, China, CLUDD, disturbance, intensity analysis, land change, LTER-PIE, mathematical notation}, doi = {10.1007/s10980-017-0584-x}, author = {Pontius, R.G., Jr. and Huang, J. and Jiang, W. and Khallaghi, S. and Lin, Y. and Liu, J. and Quan, B. and Ye, S.} } @article {PIE436, title = {Sea level rise may increase extinction risk of a saltmarsh ontogenetic habitat specialist}, journal = {Ecology and Evolution}, year = {2017}, note = {PI Plum Data}, keywords = {disturbance, estuary, extinction risk, gastropods, global change, indirect effects, LTER-PIE, nursery, population dynamics}, doi = {10.1002/ece3.3291}, author = {Johnson, D.S. and Williams, B.L.} } @mastersthesis {PIE432, title = {Applicability of LiDAR Technology in Saltmarshes: Landscape-Scale Predictive Models to Local-Scale Biomass Estimation}, volume = {M.S.}, year = {2016}, note = {Grad}, pages = {134}, school = {University of South Carolina}, type = {mastersthesis}, keywords = {LiDAR, LTER-PIE, primary production, salt marsh}, author = {Edwards Jr., J.D.} } @article {PIE421, title = {Contributions of organic and inorganic matter to sediment volume and accretion in tidal wetlands at steady state}, journal = {Earth{\textquoteright}s Future}, volume = {4}, year = {2016}, note = {PI Plum Data}, pages = {110-121}, keywords = {accretion, LTER-PIE, organic matter, primary production, sea level, wetlands}, doi = {10.1002/2015EF000334}, author = {Morris, J.T. and Barber, D.C. and Callaway, J.C. and Chambers, R. and Hagen, S.C. and Hopkinson, C.S. and Johnson, B.J. and Megonigal, P. and Neubauer, S.C. and Troxler, T. and Wigand, C.} } @inbook {PIE424, title = {From Headwaters to rivers to river networks: scaling in stream ecology}, booktitle = {Streams In a Changing Environment}, year = {2016}, note = {PI Plum Data}, pages = {349-388}, publisher = {Academic Press}, organization = {Academic Press}, keywords = {connectivity, LTER-PIE, rivers, streams}, doi = {10.1016/B978-0-12-405890-3.00008-7}, author = {Wollheim, W.M.}, editor = {Jones, J. and Stanley, E.} } @article {PIE416, title = {Saltmarsh plant responses to eutrophication}, journal = {Ecological Applications}, year = {2016}, note = {PI Plum Data}, keywords = {coastal wetland, disturbance, eutrophication, global change, inorganic nutrients, LTER-PIE, nutrient pollution, plants, primary production, salt marsh, Spartina}, doi = {10.1002/eap.1402}, author = {Johnson, D.S. and Warren, R.S. and Deegan, L.A. and Mozdzer, T.J.} } @article {PIE423, title = {SimiVal, a multi-criteria map comparison tool for land-change model projections}, journal = {Environmental Modelling \& Software}, year = {2016}, note = {PI Plum Data}, keywords = {land-change, land-change model, LTER-PIE, map tool}, doi = {10.1016/j.envsoft.2016.04.016}, author = {Bradley, A.V. and Rosa, I.M.D. and Pontius, R.G., Jr. and Ahmed, S.E. and Araujo, M.B. and Brown, D.G. and Brandao Jr, A. and Carnerio, T.G.S. and Hartley, A.J. and Smith, M.J. and Ewers, R.M.} } @article {PIE417, title = {A framework for quantifying the magnitude and variability of community responses to global change drivers}, journal = {Ecosphere}, volume = {6}, number = {12}, year = {2015}, note = {PI Synthesis}, keywords = {beta diversity, community dissimilarity, convergence, divergence, LTER-PIE, multivariate analysis, non-metric multidimensional scaling, population dynamics, rank abundance curve, species composition}, doi = {10.1890/ES15-00317.1}, author = {Avolio, M.L and La Pierre, K.J. and Houseman, G.R. and Koerner, S.E. and Grman, E. and Isbell, F. and Johnson, D.S. and Wilcox, K.R.} } @article {PIE395, title = {Ulva additions alter soil biogeochemistry and negatively impact Spartina alterniflora growth}, journal = {Marine Ecological Progress Series}, volume = {532}, year = {2015}, note = {PI}, pages = {59-72}, keywords = {allelochemicals, allelopathy, disturbance, eutrophic estuary, LTER-PIE, primary production, salt marsh, salt marsh loss}, doi = {10.3354/meps11334}, author = {Watson, E.B. and Wigand, C. and Oczkowski, A.J. and Sundberg, K. and Vendettuoli, D. and Jayaraman, S. and Saliba, K. and Morris, J.T.} } @article {PIE380, title = {The savory swimmer swims North: A northern range extension of the blue crab Callinectes sapidus?}, journal = {Journal of Crustacean Biology}, volume = {35}, number = {1}, year = {2015}, note = {PI Plum Data}, pages = {105-110}, keywords = {Callinectes, climate change, climate velocity, decapod, disturbance, LTER-PIE, marine invasion, population dynamics}, doi = {10.1163/1937240X-00002293}, author = {Johnson, D.S.} } @article {PIE406, title = {Urban evolution: the role of water}, journal = {Water Resources Research}, volume = {7}, year = {2015}, note = {PI Plum Data}, pages = {4063-4087}, keywords = {convergent urban evolution, disturbance, LTER-PIE, transitional ecosystems, urban adaptation, urban calcium cycle, urban karst, urban succession, urban watershed continuum}, doi = {10.3390/w7084063}, author = {Kaushal, S.S. and McDowell, W.H. and Wollheim, W.M. and Newcomer Johnson, T.A. and Mayer, P.M. and Belt, K.T. and Pennino, M.J.} } @article {PIE378, title = {Fiddler on the roof: a northern range extension for the marsh fiddler crab Uca pugnax}, journal = {Journal of Crustacean Biology}, volume = {34}, number = {5}, year = {2014}, note = {PI Plum Data}, pages = {671-673}, keywords = {climate velocity, decapod, disturbance, LTER-PIE, marine invasion, population dynamics, Uca}, doi = {10.1163/1937240X-00002268}, author = {Johnson, D.S.} } @article {PIE367, title = {The Lotic Intersite Nitrogen Experiments: an example of successful ecological research collaboration.}, journal = {Freshwater Science}, volume = {33}, number = {3}, year = {2014}, note = {PI Synthesis}, pages = {700-710}, keywords = {disturbance, inorganic nitrogen, LTER-PIE, nutrient enrichment, organic matter, streams}, doi = {10.1086/676938}, author = {Dodds, W.K. and Webster, J. R. and Crenshaw, C. and Helton, A.M. and O{\textquoteright}Brien, J.M. and Marti, E. and Hershey, A.E. and Tank, J.L. and Burgin, A.J. and Grimm, N.B. and Hamilton, S.K. and Sobota, D.J. and Poole, G.C. and Beaulieu, J. J. and Johnson, L.T. and Ashkenas, L.R. and Hall Jr., R.A. and Johnson, S.L. and Wollheim, W.M. and Bowden, W.B.} } @article {PIE309, title = {Chronic nutrient enrichment increases the density and biomass of the mudsnail, Nassarius obsoletus.}, journal = {Estuaries and Coasts}, volume = {36}, year = {2013}, note = {PD Plum Data}, pages = {28-35}, keywords = {bioindicator, biomonitoring, bottom-up, disturbance, estuatrine management, eutrophication, Ilyanassa obsoleta, LTER-PIE, nutrients, population dynamics}, doi = {10.1007/s12237-012-9555-2}, author = {Johnson, D.S. and Short, M.I.} } @inbook {PIE300, title = {Ecogeomorphology of Salt Marshes}, booktitle = {Treatise on Geomorphology}, volume = {12}, year = {2013}, note = {PI Plum Data}, pages = {180-200}, publisher = {Elsevier}, organization = {Elsevier}, keywords = {disturbance, geomorphology, LTER-PIE, nutrients, salt marsh}, author = {Fagherazzi, S. and FitzGerald, D.M. and Fulweiler, R.W. and Hughes, Z. and Wiberg, P.L. and McGlathery, K.J. and Morris, J.T. and Tolhurst, T.J. and Deegan, L.A. and Johnson, D.S.}, editor = {Shroder, J. and Butler, D. and Hubb, C.} } @inbook {PIE301, title = {Ecogeomorphology of Tidal Flats}, booktitle = {Treatise on Geomorphology}, volume = {12}, year = {2013}, note = {PI Plum Data}, pages = {201-220}, publisher = {Elsevier}, organization = {Elsevier}, keywords = {disturbance, estuary, geomorphology, LTER-PIE, tidal flats}, author = {Fagherazzi, S. and FitzGerald, D.M. and Fulweiler, R.W. and Hughes, Z. and Wiberg, P.L. and McGlathery, K.J. and Morris, J.T. and Tolhurst, T.J. and Deegan, L.A. and Johnson, D.S.}, editor = {Shroder, J. and Butler, D. and Hubb, C.} } @book {PIE373, title = {An Ecosystem Services Approach to Assessing the Impacts of the Deepwater Horizon Oil Spill in the Gulf of Mexico}, year = {2013}, note = {PI Synthesis}, pages = {246}, publisher = {National Academies Press}, organization = {National Academies Press}, address = {Washington, D.C.}, keywords = {disturbance, ecosystem services, LTER-PIE, resilience, restoration, wetlands}, author = {Mayer, L.A. and Boufadel, M.C. and Brenner, J. and Carney, R.S. and Cooper, C.K. and Deming, J.W. and Die, D.J. and Eagle, J. and Geraci, J.R. and Knuth, B.A. and Lee, K. and Morris, J.T. and Polasky, S. and Rabalais, N.N. and Stahl Jr., R.G. and Yoskowitz, D. and Waddell, K.}, editor = {National Research Council of the National Academies} } @book {PIE357, title = {Long-Term Trends in Ecological Systems: A Basis for Understanding Responses to Global Change. }, volume = {Technical Bulletin Number 1931}, year = {2013}, note = {PI Plum Data}, pages = {396}, publisher = {National Technical Information Services}, organization = {National Technical Information Services}, address = {Springfield, Virginia}, keywords = {disturbance, inorganic nutrients, LTER-PIE, organic matter, population dynamics, primary production}, author = {Peters, D.P.C. and Laney, C.M. and Lugo, A.E. and Collins, S.L. and Driscoll, C.T. and Groffman, P.M. and Grove, J.M. and Knapp, A.K. and JKratz, T.K. and Ohman, M.D. and Waide, R.B. and Yao, J.} } @article {PIE310, title = {Response of the benthic food web to short- and long-term nutrient enrichment in saltmarsh mudflats.}, journal = {Marine Ecological Progress Series}, volume = {474}, year = {2013}, note = {PD Plum Data}, pages = {27-41}, keywords = {bacteria, benthic food web, benthic microalgae, disturbance, grazing rates, inorganic nutrients, LTER-PIE, meiofauna, Nassarius obsoletus, nutrient enrichment, population dynamics}, doi = {10.3354/meps10090}, author = {Pascal, P-Y. and Fleeger, J.W. and Boschker, H.T.S. and Mitwally, H.M. and Johnson, D.S.} } @article {PIE306, title = {Coastal eutrophication as a driver of salt marsh loss}, journal = {Nature}, volume = {490}, year = {2012}, note = {PI Plum Data}, pages = {388-392}, keywords = {coastal eutrophication, disturbance, geomorphology, LTER-PIE, nutrients, organic matter, population dynamics, primary production, salt marsh}, doi = {10.1038/nature11533}, author = {Deegan, L.A. and Johnson, D.S. and Warren, R.S. and Peterson, B.J. and Fleeger, J.W. and Fagherazzi, S. and Wollheim, W.M.} } @article {PIE299, title = {Legacy effects material flux: structural catchment changes predate long-term studies.}, journal = {Bioscience}, volume = {62}, number = {6}, year = {2012}, note = {PI Plum Data}, pages = {575-584}, keywords = {inorganic nutrients, legacy effect, long-term studies, LTER-PIE, sedimentation, streams, structural and signal legacy effects}, doi = {10.1525/bio.2012.62.6.8}, author = {Bain, D. and Green, M.B. and Campbell, J. and Chamblee, J. and Fraterrigo, J. and Kaushal, S.S. and Martin, S. and Jordan, T. and Parolari, A. and Sobczak, W.V. and Weller, D.E. and Wollheim, W.M. and Boose, E. and Duncan, J. and Gettel, G. and Hall, B. and Kumar, P. and Thompson, J. and Vose, J. and Elliott, E. and Leigh, D.} } @article {PIE298, title = {Local scale carbon budgets and mitigation opportunities for the Northeastern United States.}, journal = {BioScience}, volume = {62}, year = {2012}, note = {PI Plum Data}, pages = {23-38}, keywords = {carbon, climate change, disturbance, energy, land use, LTER-PIE}, doi = {10.1525/bio.2012.62.1.7}, author = {Raciti, S. and Fahey, T. and Hall, B. and Driscoll, C. and Carranti, F.J. and Foster, D. and Gwyther, P.S. and Jenkins, J. and Hamburg, S. and Neill, C. and Ollinger, S. and Peery, B.W. and Quigley, E. and Sherman, R. and Thomas, R.Q. and Vadeboncoeur, T.M. and Weinstein, D. and Wilson, G. and Woodbury, P. and Yandik, W.} } @inbook {PIE304, title = {South Atlantic Tidal Wetlands}, booktitle = {Wetland Habitats of North America: Ecology and Conservation Concerns}, year = {2012}, note = {PI Plum Data}, pages = {45-61}, publisher = {University of California Press}, organization = {University of California Press}, address = {Berkeley, CA}, keywords = {ecology, LTER-PIE, salt marsh, tidal, wetland}, isbn = {9780520271647}, author = {Pennings, S. and Alber, M. and Alexander, C. and Booth, M. and Burd, A. and Cai, W-J. and Craft, C. and DePratter, C. and Di Iorio, D. and Hopkinson, C. and Joye, S. and Meile, C. and Moore, W. and Silliman, B. and Thompson, V. and Wares, J.}, editor = {Batzer, D.P. and Baldwin, A.} } @article {PIE379, title = {Surprises and insights from long term aquatic datasets and experiments.}, journal = {Bioscience}, volume = {62}, number = {8}, year = {2012}, note = {Grad}, pages = {709-721}, keywords = {data, disturbance, freshwater, inorganic nutrients, lakes, long term, LTER-PIE, population dynamics, streams}, doi = {10.1525/bio.2012.62.8.4}, author = {Dodds, W.K. and Robinson, C.T. and Gaiser, E.E. and Hansen, G.J.A. and Powell, H. and Smith, J.M. and Morse, N.B. and Johnson, S. and Gregory, S.V. and Bell, T. and Kratz, T.K. and McDowell, W.H.} } @article {PIE281, title = {High-marsh invertebrates are susceptible to eutrophication}, journal = {Marine Ecological Progress Series}, volume = {438}, year = {2011}, note = {PD Plum Data}, pages = {142-152}, keywords = {disturbance, epifauna, inorganic nutrients, LTER-PIE, Plum Island Estuary, population dynamics, salt marsh, Spartina alterniflora}, doi = {10.3354/meps09306}, author = {Johnson, D.S.} } @article {PIE284, title = {Natural abundance stable isotopes and dual isotope tracer additions help to resolve resources supporting a saltmarsh food web.}, journal = {Journal of Experimental Marine Biology and Ecology}, volume = {410}, year = {2011}, note = {PI Plum Data}, pages = {1-11}, keywords = {infauna, inorganic nutrients, isotope addition, LTER-PIE, Manayunkia aestuarina, organic matter, population dynamics, Spartina, stable isotopes}, doi = {10.1016/j.jembe.2011.08.007}, author = {Galvan, K. and Fleeger, J.W. and Peterson, B. and Drake, D. and Deegan, L.A. and Johnson, D.S.} } @article {, title = {Nitrous oxide emission from denitrification in stream and river networks}, journal = {Proceedings of the National Academy of Science}, volume = {108}, year = {2011}, note = {PI Plum Data}, pages = {214-219}, keywords = {inorganic nitrogen, LTER-PIE, nitrous oxide, streams}, doi = {210.1073/pnas.1011464108}, author = {Beaulieu, J. J. and Tank, J.L. and Hamilton, S. K. and Wollheim, W. and Hall, R. and Mulholland, P. and Peterson, B. and Ashkenas, L. and Cooper, L. and Dahm, C. and Dodds, W. and Grimm, N. and Johnson, S. and McDowell, W. and Poole, G. and Valett, H. and Arango, C. and Bernot, M. and Burgin, A. and Crenshaw, C. and Helton, A. and Johnson, L. and O{\textquoteright}Brien, J. and Potter, J. and Sheibley, D. and Sobota, D. and Thomas, S.} } @article {PIE273, title = {Research on coupled human and natural Systems (CHANS): Approach, challenges and strategies}, journal = {Bulletin of the Ecological Society of America}, volume = {92}, number = {2}, year = {2011}, note = {PI Plum Data}, pages = {218-228}, keywords = {CHANS, disturbance, LTER-PIE, population dynamics}, doi = {10.1890/0012-9623-92.2.218}, author = {McConnell, W.J. and Millington, J.D.A. and Reo, N.J. and Alberti, M. and Asbjornsen, H. and Baker, L.A. and Brozovi{\'c}, N. and Drinkwater, L.E. and Drzyzga, S.A. and Fragoso, J. and Holland, D.S. and Jantz, C.A. and Kohler, T.A. and Maschner, H.D.G. and Monticino, M. and Podest{\'a}, G. and Pontius, R.G., Jr. and Redman, C.L. and Sailor, D. and Urquhart, G. and Liu, Jianguo} } @article {PIE292, title = {Separation of river network scale nitrogen removal among main channel and two transient storage compartments}, journal = {Water Resources Research}, volume = {47}, year = {2011}, note = {PI Plum Data}, keywords = {LTER-PIE, nitrogen removal, nutrients, river network, transient storage}, doi = {10.1029/2010WR009896}, author = {Stewart, R.J. and Wollheim, W.M. and Gooseff, M. and Briggs, M.A. and Jacobs, J.M. and Peterson, B.J. and Hopkinson, C.S.} } @article {PIE272, title = {Thinking outside the channel: Modeling nitrogen cycling in networked river ecosystems}, journal = {Frontiers in Ecology and Environment}, volume = {9}, year = {2011}, note = {PI Plum Data}, pages = {229-238}, keywords = {inorganic nitrogen, LTER-PIE, nitrogen cycling modeling, rivers}, doi = {10.1890/080211}, author = {Helton, A.M. and Poole, G.C. and Meyer, J.L. and Wollheim, W.M. and Peterson, B.J. and Mulholland, P.J. and Bernhardt, E.S. and Stanford, J.A. and Arango, C. and Ashkenas, L.R. and Cooper, L.W. and Dodds, W.K. and Gregory, S.V. and Hall, R.O. and Hamilton, S.K. and Johnson, S.L. and McDowell, W.H. and Potter, J.D. and Tank, J.L. and Thomas, S.M. and Valett, H.M. and Webster, J.R. and Zeglin, L.} } @article {PIE280, title = {Use of computed tomography imaging for quantifying coarse roots, rhizomes, peat, and particle densities in marsh soils}, journal = {Ecological Applications}, volume = {21}, year = {2011}, note = {PI Plum Data}, pages = {2156-2171}, keywords = {bulk density, CAT scan, CT imaging, ecosystem services, eutrophication, LTER-PIE, monitoring program, organic matter, particle density, peat, rhizomes, roots, sea level rise, Spartina alterniflora}, doi = {10.1890/10-2037.1}, author = {Davey, E. and Wigand, C. and Johnson, R. and Sundberg, K. and Morris, J. and Roman, C.T.} } @article {PIE176, title = {The biogeochemical influences of nitrate, dissolved oxygen, and dissolved organic carbon on stream nitrate uptake.}, journal = {Journal of the North American Benthological Society}, volume = {28}, number = {4}, year = {2009}, note = {Grad}, pages = {894-907}, keywords = {dissolved organic carbon, dissolved oxygen, inorganic nutrients, LTER-PIE, net nutrient uptake, nitrate, nitrate uptake, organic matter, priming effect, solute addition}, doi = {10.1899/08-183.1}, author = {Thouin, J.A. and Wollheim, W.M. and Vorosmarty, C.J. and Jacobs, J. and McDowell, W.H.} } @article {PIE191, title = {Large-scale manipulations reveal that top-down and bottom-up controls interact to alter habitat utilization by saltmarsh fauna}, journal = {Marine Ecology Progress Series}, volume = {377}, year = {2009}, note = {Grad}, pages = {33-41}, keywords = {disturbance, ecosystem experiments, epifauna, inorganic nitrogen, LTER-PIE, multi-stressors, parasites, population dynamics, salt marsh}, doi = {10.3354/meps07849}, author = {Johnson, D.S. and Fleeger, J.W. and Deegan, L.A.} } @article {PIE182, title = {The regional and global significance of reactive N removal in lakes and reservoirs}, journal = {Biogeochemistry}, volume = {93}, year = {2009}, note = {PI Synthesis}, pages = {147-158}, keywords = {denitrification, global limnology, inorganic nutrients, lakes, LTER-PIE, nitrogen, nitrogen removal, resevoirs}, doi = {10.1007/s10533-008-9272-x}, author = {Harrison, J. and Maranger, R. and Alexander, R.B. and Cornwell, J. and Giblin, A. and Jacinthe, P. and Mayorga, E. and Seitzinger, S. and Wollheim, W.M.} } @article {PIE210, title = {Salt marsh ecosystem biogeochemical responses to nutrient enrichment: A paired 15N tracer study.}, journal = {Ecology}, volume = {90}, number = {9}, year = {2009}, note = {PD Plum Data}, pages = {2535-2546}, keywords = {biogeochemistry, disturbance, eutrophication, inorganic nutrients, LTER-PIE, New England, nitrogen processing efficiency, organic matter, primary production, salt marsh, stable isotopes, USA}, doi = {10.1890/08-1051.1}, author = {Drake, D.C. and Peterson, B.J. and Galv{\'a}n, K.A. and Deegan, L.A. and Fleeger, J.W. and Hopkinson, C. and Johnson, J.M. and Koop-Jakobsen, K. and Lemay, L.E. and Miller, E.E. and Picard, C. and Warren, R.S.} } @article {PIE220, title = {Weak response of saltmarsh infauna to ecosystem-wide nutrient enrichment and fish predator reduction: A four-year study}, journal = {Journal of Experimental Marine Biology and Ecology}, volume = {373}, year = {2009}, note = {Grad}, pages = {35-44}, keywords = {disturbance, inorganic nutrients, LTER-PIE, population dynamics, primary production}, doi = {10.1016/j.jembe.2009.03.003}, author = {Johnson, D.S. and Fleeger, J.W.} } @article {PIE201, title = {Do spur-throated grasshoppers, Melanoplus spp. (Orthoptera: Acrididae), exert top-down control on smooth cordgrass Spartinaalterniflora in northern New England?}, journal = {Estuaries and Coasts}, volume = {31}, year = {2008}, note = {Grad}, pages = {912-919}, keywords = {Acridid grasshoppers, chewing insects, LTER-PIE, Melanopus sp., population dynamics, salt marsh, Spartina alterniflora, top-down control}, doi = {10.1007/s12237-008-9074-3}, author = {Johnson, D.S. and Jessen, B.J.} } @article {PIE190, title = {Stream denitrification across biomes and its response to anthropogenic nitrate loading}, journal = {Nature}, volume = {452}, year = {2008}, note = {PI Plum Data}, pages = {202-206}, keywords = {denitrification, disturbance, inorganic nutrients, LTER-PIE, nitrogen, nitrogen isotopes, stream network}, doi = {10.1038/nature06686}, author = {Mulholland, P. J. and Helton, A. M. and Poole, G.C. and Hall, Jr., R.O. and Hamilton, S. K. and Peterson, B. J. and Tank, J.L. and Ashkenas, L.R. and Cooper, L. W. and Dahm, C. N. and Dodds, W. K. and Findlay, S. E. G. and Gregory, S. V. and Grimm, N.B. and Johnson, S. L. and McDowell, W.H. and Meyer, J. L. and Valett, H. M. and Webster, J. R. and Arango, C. P. and Beaulieu, J. J. and Bernot, M. J. and Burgin, A. J. and Crenshaw, C. L. and Johnson, L.T. and Niederlehner, B. R. and OメBrien, J. M. and Potter, J. D. and Sheibley, R.W. and Sobota, D. J. and Thomas, S. M.} } @article {PIE199, title = {Top-down and bottom-up control of infauna varies across the saltmarsh landscape}, journal = {Journal of Experimental Marine Biology and Ecology}, volume = {357}, year = {2008}, note = {PI Plum Data}, pages = {20-34}, keywords = {disturbance, impact assessment, indirect effects, infauna, inorganic nutrients, LTER-PIE, population dynamics, primary production, saltmarsh gradient}, doi = {10.1016/j.jembe.2007.12.003}, author = {Fleeger, J.W. and Johnson, D.S. and Galv{\'a}n, K.A. and Deegan, L.A.} } @phdthesis {PIE233, title = {Trophic control of saltmarsh invertebrates}, volume = {Ph.D.}, year = {2008}, note = {Grad}, school = {Louisiana State University}, type = {phdthesis}, address = {Baton Rouge, LA}, keywords = {food web, invertebrates, LTER-PIE, population dynamics, salt marsh}, author = {Johnson, D.S.} } @article {PIE236, title = {Susceptibility of salt marshes to nutrient enrichment and predator removal}, journal = {Ecological Applications}, volume = {17}, number = {5}, year = {2007}, note = {PI Plum Data}, pages = {S-42-S63}, keywords = {bottom-up, disturbance, eutrophication, Fundulus heteroclitus, inorganic nutrients, LTER-PIE, multiple stressors, nutrient loading, organic matter, population dynamics, primary production, salt marsh, Spartina alterniflora, Spartina patens, species change, top-down control}, doi = {10.1890/06-0452.1}, author = {Deegan, L.A. and Bowen, J.L. and Drake, D.C. and Fleeger, J.W. and Friedrichs, C.T. and Galv{\'a}n, K.A. and Hobbie, J.E. and Hopkinson, C. and Johnson, D.S. and Johnson, J.M. and Lemay, L.E. and Miller, E.E. and Peterson, B.J. and Picard, C. and Sheldon, S. and Sutherland, M. and Vallino, J. and Warren, R.S.} } @article {PIE241, title = {Worm holes and their space-time continuum: Spatial and temporal variability of macroinfaunal annelids in a northern New England salt marsh}, journal = {Estuaries and Coasts}, volume = {30}, year = {2007}, note = {Grad}, pages = {226-237}, keywords = {infauna, LTER-PIE, population dynamics, salt marsh}, doi = {10.1007/BF02700166}, author = {Johnson, D.S. and Fleeger, J.W. and Galv{\'a}n, K.A. and Moser, E.B.} } @article {PIE157, title = {Changes in salt marsh vegetation, Phragmites australis, and nekton in response to increased tidal flushing in a New England salt marsh.}, journal = {Wetlands}, volume = {26}, year = {2006}, note = {PI Plum Data}, pages = {544-557}, keywords = {disturbance, LTER-PIE, Phragmites, population dynamics, salt marsh, tidal flushing}, doi = {10.1672/0277-5212(2006)26[544:CISMVP]2.0.CO;2}, author = {Buchsbaum, R. and Catena, E.H. and James-Pirri, M.J.} } @article {PIE152, title = {Integrating LIDAR, multispectral imagery and neural network modeling techniques for marsh classification.}, journal = {International Journal of Remote Sensing}, volume = {26}, year = {2005}, note = {PI Coastal}, pages = {5221-5234}, keywords = {disturbance, elevation, LiDAR, LTER-PIE, marsh classification, neural network modeling, population dynamics, primary production, sea level}, doi = {10.1080/01431160500219018}, author = {Morris, J. T. and Porter, D. and Neet, M. and Noble, P.A. and Schmidt, L. and Lapine, L.A. and Jensen, J.} } @article {PIE104, title = {Importance of metabolism in the development of salt marsh ponds.}, journal = {Biological Bulletin}, volume = {205}, year = {2003}, note = {REU}, pages = {248-249}, keywords = {LTER-PIE, metabolism, oxygen, salt marsh ponds}, doi = {10.2307/1543278}, author = {Johnston, M. E. and Cavatorta, J.R. and Hopkinson, C.S. and Valentine, V.} } @article {PIE93, title = {Patterns of sedimentation in a salt marsh-dominated estuary.}, journal = {Biological Bulletin}, volume = {205}, year = {2003}, note = {REU}, pages = {239-241}, keywords = {estuary, LTER-PIE, salt marsh, sedimentation}, doi = {10.2307/1543274}, author = {Cavatorta, J. and Johnston, M. and Hopkinson, C.S. and Valentine, V.} } @article {PIE69, title = {Occurrence and Ecological Implications of Pyrophosphate in Estuaries}, journal = {Limnology and Oceanography}, volume = {46}, year = {2001}, note = {PI Synthesis}, pages = {1570-1577}, keywords = {estuary, LTER-PIE, pyrophosphate, salt marsh}, doi = {10.4319/lo.2001.46.6.1570}, author = {Sundareshwar, P.V. and Morris, J.T. and Pellechia, P.J. and Cohen, H.J. and Porter, D.E. and Jones, B.C.} } @inbook {PIE30, title = {Interaction between physical processes and ecosystem structure: A comparative approach.}, booktitle = {Estuarine Science: A Synthetic Approach to Research and Practice}, year = {2000}, note = {PI Synthesis}, pages = {177-206}, publisher = {Island Press}, organization = {Island Press}, address = {Washington, DC}, keywords = {estuarine ecology, estuarine oceanography, LTER-PIE}, author = {Geyer, W. R. and Morris, J. and Prahl, F. and Jay, D}, editor = {J. Hobbie} } @article {PIE45, title = {Solute dynamics in storm flow of the Ipswich River Basin: Effects of land use.}, journal = {Biological Bulletin}, volume = {199}, number = {2}, year = {2000}, note = {REU}, pages = {219-221}, keywords = {Ipswich River, land use, LTER-PIE, solute chemistry, storm flow}, doi = {10.2307/1542908}, author = {Perring, A. and Williams, M. and Hopkinson Jr., C. and Rastetter, E. and Vallino, J.} }