Writing

Author Information:

Name format in publications: Adam T. Clark

Google Scholar: <link>

ORCID: 0000-0002-8843-3278 <link>

Peer-Reviewed Publications:

In-Press:

Stefanie Maier, Alexandra Kratz, Jens Weber, Maria Prass, Fobang Liu, Adam T. Clark, Raeid Abed, Hang Su, Yafang Cheng, Thilo Eickhorst, Sabine Fiedler, Ulrich Pöschl, and Bettina Weber. "Water-driven microbial nitrogen transformation in biological soil crusts causing atmospheric nitrous acid and nitric oxide emissions." ISME Journal, 2021.

DOI: 10.1038/s41396-021-01127-1


2021:

Adam T. Clark, Jean-François Arnoldi, Yuval Zelnik, György Barabas, Dorothee Hodapp, Canan Karakoç, Sara König, Viktoriia Radchuk, Ian Donohue, Andreas Huth, Claire Jacquet, Claire de Mazancourt, Andrea Mentges, Dorian Nothaaß, Lauren Shoemaker, Franziska Taubert, Thorsten Wiegand, Shaopeng Wang, Jonathan Chase, Michel Loreau, and Stanley Harpole. "General statistical scaling laws for stability in ecological systems." Ecology Letters 24:1474-1486, 2021. <link>

DOI: 10.1111/ele.13760

Faculty Opinions (F1000) Recommended by Donald DeAngelis and Bo Zhang. <link>


Kathryn Barry, Gabriella Pinter, Joseph Strini, Karrisa Yang, Istvan Lauko, Stefan Schnizter, Adam T. Clark, Jane Cowles, Akira Mori, Laura Williams, Peter Reich, and Alexandra Wright. "A graphical null model for scaling biodiversity-ecosystem functioning relationships." Journal of Ecology 109:1549-1560, 2021. <link>

DOI: 10.1111/1365-2745.13578


Michael Crawford, Kathryn Barry, Adam T. Clark, Caroline Farrior, Jessica Hines, Emma Ladouceur, Jeremy Lichstein, Isabelle Marechaux, Felix May, Björn Reineking, Lindsay Turnbull, Christian Wirth, and Nadja Rüger. "The function-dominance correlation drives the direction and strength of biodiversity-ecosystem functioning relationships". Ecology Letters 24:1762-1775, 2021. <link>

DOI: 10.1111/ele.13776


Peter Hofmann, Adam T. Clark, Petra Hoffmann, Antonis Chatzinotas, Stanley Harpole, and Susanne Dunker. "Beyond nitrogen : phosphorus Estimating the minimum niche dimensionality for resource competition between phytoplankton." Ecology Letters 24:761-771, 2021. <link>

DOI: 10.1111/ele.13695


Clare Kazanski, Jane Cowles, Salli Dymond, Adam T. Clark, Aaron David, Jacob Jungers, Amy Kendig, Charlotte Riggs, Jared Trost, and Xiaojing Wei. "Water availability modifies productivity response to biodiversity and nitrogen in long-term grassland experiments." Ecological Applications, 31:e02363, 2021. <link>

DOI: 10.1002/eap.2363


Mary O’Connor, Akira Mori, Andrew Gonzalez, Laura Dee, Michel Loreau, Meghan Avolio, Yann Hautier, Laura Williams, Jarrett Byrnes, William W.L. Cheung, Jane Cowles, Adam T. Clark, Andy Hector, Kimberly Komatsu, Tim Newbold, Charlotte Outhwaite, Peter Reich, Eric Seabloom, Alexandra Wright, and Forest Isbell. "Grand challenges in biodiversity-ecosystem functioning research in the era of science-policy platforms require explicit consideration of feedbacks." Proceedings of the Royal Society B. 288:20211785. 2021. <link>

DOI: 10.1098/rspb.2021.0783


Risto Virtanen, Adam T. Clark, Michael den Herder, and Heikki Roininen. "Dynamic effects of insect herbivory and climate on tundra shrub growth: roles of browsing and ramet age." Journal of Ecology 109:1250-1262, 2021. <blogpost> <link>

DOI: 10.1111/1365-2745.13551


2020:

Adam T. Clark, Lindsay A. Turnbull, Andrew Tredennick, Eric Allan, W. Stanley Harpole, Margaret M. Mayfield, Santiago Soliveres, Kathryn Barry, Nico Eisenhauer, Hans de Kroon, Benjamin Rosenbaum, Cameron Wagg, Alexandra Weigelt, Yanhao Feng, Christiane Roscher, and Bernhard Schmid. "Predicting species abundances in a grassland biodiversity experiment: Trade-offs between model complexity and generality." Journal of Ecology 108:774–787, 2020. <link> <pdf>

DOI: 10.1111/1365-2745.13316


Christopher Avery, William Bossert, Adam T. Clark, Glenn Ellison, and Sara Fisher Ellison. "Policy implications of models of the spread of coronavirus: Perspectives and opportunities for economists." Covid Economics 12:21-68, and NBER Working Paper. <link> <pdf> <NBER>

DOI: 10.3386/w27007


Christopher Avery, William Bossert, Adam T. Clark, Glenn Ellison, and Sara Fisher Ellison. "An economist’s guide to epidemiology models of infectious disease." Journal of Economic Perspectives, 34(4):79-104, 2020. <link>

DOI:10.1257/jep.34.4.79


Yuxin Chen, Yuanyuan Huang, Pascal A. Niklaus, Nadia Castro-Izaguirre, Adam T. Clark, Helge Bruelheide, Keping Ma, and Bernhard Schmid. "Directed species loss reduces community productivity in a subtropical forest biodiversity experiment". Nature Ecology and Evolution 4:550–559, 2020. <link>

DOI: 10.1038/s41559-020-1127-4


Peter Dietrich, Christiane Roscher, Adam T. Clark, Nico Eisenhauer, Bernhard Schmid, and Cameron Wagg. "Diverse plant mixtures sustain a greater arbuscular mycorrhizal fungi spore viability than monocultures after 12 years". Journal of Plant Ecology 13:478–488, 2020. <link>

DOI: 10.1093/jpe/rtaa037


Canan Karakoç, Adam T. Clark, and Antonis Chatzinotas. "Diversity and coexistence are influenced by time-dependent species interactions in a predator-prey system". Ecology Letters 23:983–993, 2020. <link> <pdf>

DOI: 10.1111/ele.13500


Clarence Lehman, Shelby Loberg, Adam T. Clark, and Daniel Schmitter. "Unifying the basic models of ecology to be more complete and easier to teach". BioScience 70:415–426, 2020. <link>

DOI: 10.1093/biosci/biaa013


Lina K. Mühlbauer, Maximilienne Schulze, W. Stanley Harpole, and Adam T. Clark. "gauseR: Simple methods for fitting Lotka-Volterra models describing Gause’s 'Struggle for Existence'." Ecology and Evolution 10:13275-13283, 2020. <link> <pdf>

DOI: 10.1002/ece3.6926


2019:

Adam T. Clark, Kathryn E. Barry, Christiane Roscher, Tina Buchmann, Michel Loreau, and W. Stanley Harpole. "How to estimate complementarity and selection effects from an incomplete sample of species". Methods in Ecology and Evolution 10:2141–2152, 2019. <link> <pdf> <sup>

DOI: 10.1111/2041-210X.13285


Adam T. Clark, Helmut Hillebrand, and W. Stanley Harpole. "Scale both confounds and informs characterization of species coexistence in empirical systems". American Naturalist 194:794–806, 2019. <link> <pdf> <sup>

DOI: 10.1086/705826


Adam T. Clark, Johannes M. H. Knops, and David Tilman. "Contingent factors explain average divergence in functional composition over 88 years of old field succession". Journal of Ecology 107:545–558, 2019. <link> <pdf> <sup>

DOI: 10.1111/1365‐2745.13070


Kathryn E. Barry, Hans de Kroon, Peter Dietrich, W. Stanley Harpole, Anna Roeder, Bernhard Schmid, Adam T. Clark, Margaret M. Mayfield, Cameron Wagg, and Christiane Roscher. "Linking local species coexistence to ecosystem functioning – a conceptual framework from ecological first principles in grassland ecosystems". Advances in Ecological Research 61:265–296, 2019. <link>

DOI: 10.1016/bs.aecr.2019.06.007


Jane Catford, Annabel Smith, Peter Wragg, Adam T. Clark, Margaret Kosmala, Jeannine Cavender-Bares, Peter Reich, and David Tilman. "Traits linked with species invasiveness and community invasibility vary with time, stage and indicator of invasion in a long-term grassland experiment". Ecology Letters 22:593–604, 2019. <link>

DOI: 10.1111/ele.13220


Forest Isbell, David Tilman, Peter Reich, and Adam T. Clark. "Deficits of biodiversity and productivity linger a century after agricultural abandonment". Nature Ecology and Evolution 3:1533–1538, 2019. <link>

DOI: 10.1038/s41559-019-1012-1


2018:

Adam T. Clark, Matteo Detto, Helene C. Muller-Landau, Stefan A. Schnitzer, S. Joseph Wright, Richard Condit, and Stephen P. Hubbell. "Functional traits of tropical trees and lianas explain spatial structure across multiple scales". Journal of Ecology 106:795–806, 2018. <pressrelease> <link> <pdf> <sup>

DOI: 10.1111/1365-2745.12804


Adam T. Clark, Clarence Lehman, and David Tilman. "Identifying Mechanisms that Structure Ecological Communities by Snapping Model Parameters to Empirically-Observed Tradeoffs". Ecology Letters 21:494–505, 2018. <link> <pdf> <sup>

DOI: 10.1111/ele.12910


Adam T. Clark and Claudia Neuhauser. "Harnessing Uncertainty to Approximate Mechanistic Models of Interspecific Interactions". Theoretical Population Biology 123:35–44, 2018. <link> <pdf> <sup>

DOI: 10.1016/j.tpb.2018.05.002


Lauren L. Sullivan*, Adam T. Clark*, David Tilman, and Allison K. Shaw (*authors contributed equally). "Mechanistically-derived dispersal kernels explain species-level patterns of recruitment and succession". Ecology 99:2415–2420, 2018. <bulletin> <pressrelease> <link> <pdf> <sup>

DOI: 10.1002/ecy.2498


Heather Tallis, PeterHawthorne, Stephen Polasky, Joseph Reid, Michael Beck, Kate Brauman, Jeffrey Bielicki, Seth Binder, Matthew Burgess, Emily Cassidy, Adam T. Clark, Joseph Fargione, Edward Game, James Gerber, Forest Isbell, Joseph Kiesecker, Robert McDonald, Marc Metian, Jennifer Molnar, Nathan Mueller, Christine O'Connell, Daniel Ovando, Max Troell, Timothy Boucher, and Brian McPeek. "An Attainable Global Vision for Conservation and Human Well-Being". Frontiers in Ecology and the Environment 16:563–570, 2018. <pressrelease> <link>

DOI: 10.1002/fee.1965


<2018:

Adam T. Clark. "Old Fields". In Oxford Bibliographies in Ecology. Ed. David Gibson. New York: Oxford University Press, 2017. <link> <pdf>

DOI: 10.1093/OBO/9780199830060-0188


Richard Barnes* and Adam T. Clark* (*authors contributed equally). "65 Million Years of Change in Temperature and Topography Explain Evolutionary History in Eastern North American Plethodontid Salamanders". American Naturalist 190:E1–12, 2017. <pressrelease> <link> <pdf> <sup>

(Awarded the 2018 MCED Award for Innovative Contributions to Ecological Modelling)

DOI: 10.1086/691796


Adam T. Clark, H. Ye, Forest Isbell, Ethan R. Deyle, Jane Cowles, David Tilman, and George Sugihara. "Spatial ’convergent cross mapping’ to detect causal relationships from short time-series". Ecology 96(5) 1174–1181, 2015. <link> <pdf> <sup>

DOI: 10.1890/14-1479.1


Jacob M. Jungers, Adam T. Clark, Kevin Betts, Margaret E. Mangan, Donald L. Wyse, and Craig C. Sheaffer. "Long-Term Biomass Yield and Species Composition in Native Perennial Bioenergy Cropping Systems". Agronomy Journal 107(5):1627–1640, 2015. <link> <pdf>

DOI: 10.2134/agronj15.0014


Adam T. Clark, Jessica J. Rykken, and Brian D. Farrell. "The effects of biogeography on ant diversity and activity on the Boston Harbor Islands, Massachusetts, USA". PLOS ONE 6(11), 2011. <link> <pdf>

DOI: 10.1371/journal.pone.0028045

Software Packages:

gauseR: Functions for fitting Lotka-Volterra models to time series data, and to Gause's experiments. GitHub R package. Adam Clark, Lina Mühlbauer, Maximilienne Schulze. <link>

EDMhelper: Wrapper functions for automating EDM analyses. GitHub R package. Canan Karakoç & Adam Clark. <link>

partitionBEFsp: Methods for Calculating the Loreau & Hector 2001 BEF Partition. CRAN R package. Adam Clark. <link>

rEDM: Applications of Empirical Dynamic Modeling from Time Series. CRAN R package. Hao Ye, Adam Clark, Ethan Deyle. <link>

nondirfit: Methods for Multivariate Type-II Regression. GitHub R project. Adam Clark. <link>

multispatialCCM: Multispatial Convergent Cross Mapping. CRAN R package. Adam Clark. <link>

tilmanstability: Code for calculating stability sensu Lehman and Tilman 2000 American Naturalist 156(5). GitHub R project. Adam Clark. <link>

Other Academic Writing:

Free eBook Textbook: Clarence Lehman, Shelby Loberg, and Adam T. Clark. (2019). Quantitative Ecology: A New Unified Approach. University of Minnesota Libraries Publishing. University of Minnesota Digital Conservancy, http://hdl.handle.net/11299/204551. <link> <pdf>

Exercises and practice questions for the ebook: <link>


Adam T. Clark. Constraints and tradeoffs: Toward a predictive, mechanism-based understanding of ecological communities. Ph.D. Thesis, 2017. <link> <pdf>

HDL: hdl.handle.net/11299/191380

DOI: 10.13140/RG.2.2.16076.87687


The Graduate School Cookbook: One way to approach PhD applications in ecology <link> <pdf> <github>

This document is a collection of thoughts on the graduate school application process that I've collected over the years from friends and colleagues. If you have any comments on items to add or change, please let me know, either through email, or through the Github page.


How to find a moose: intentions in phenomenological and mechanistic models. PLOS Ecology Blog, 2016. <link>


Adam T. Clark. Ant Communities of the Boston Harbor Islands National Recreation Area. Undergraduate Honors Thesis, 2011. <pdf>

DOI: 10.13140/RG.2.2.21110.04160