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1. Unraveling Amazon tree community assembly using Maximum Information Entropy: a quantitative analysis of tropical forest ecology

Author

Edwin Pos, Luiz de Souza Coelho, Diogenes de Andrade Lima Filho, Rafael P. Salomão, Iêda Leão Amaral, Francisca Dionízia de Almeida Matos, Carolina V. Castilho, Oliver L. Phillips, Juan Ernesto Guevara, Marcelo de Jesus Veiga Carim, Dairon Cárdenas López, William E. Magnusson, Florian Wittmann, Mariana Victória Irume, Maria Pires Martins, Daniel Sabatier, José Renan da Silva Guimarães, Jean-François Molino, Olaf S. Bánki, Maria Teresa Fernandez Piedade, Nigel C. A. Pitman, Abel Monteagudo Mendoza, José Ferreira Ramos, Joseph E. Hawes, Everton José Almeida, Luciane Ferreira Barbosa, Larissa Cavalheiro, Márcia Cléia Vilela dos Santos, Bruno Garcia Luize, Evlyn Márcia Moraes de Leão Novo, Percy Núñez Vargas, Thiago Sanna Freire Silva, Eduardo Martins Venticinque, Angelo Gilberto Manzatto, Neidiane Farias Costa Reis, John Terborgh, Katia Regina Casula, Euridice N. Honorio Coronado, Juan Carlos Montero, Beatriz S. Marimon, Ben Hur Marimon-Junior, Ted R. Feldpausch, Alvaro Duque, Chris Baraloto, Nicolás Castaño Arboleda, Julien Engel, Pascal Petronelli, Charles Eugene Zartman, Timothy J. Killeen, Rodolfo Vasquez, Bonifacio Mostacedo, Rafael L. Assis, Jochen Schöngart, Hernán Castellanos, Marcelo Brilhante de Medeiros, Marcelo Fragomeni Simon, Ana Andrade, José Luís Camargo, Layon O. Demarchi, William F. Laurance, Susan G. W. Laurance, Emanuelle de Sousa Farias, Maria Aparecida Lopes, José Leonardo Lima Magalhães, Henrique Eduardo Mendonça Nascimento, Helder Lima de Queiroz, Gerardo A. C. Aymard, Roel Brienen, Juan David Cardenas Revilla, Flávia R. C. Costa, Adriano Quaresma, Ima Célia Guimarães Vieira, Bruno Barçante Ladvocat Cintra, Pablo R. Stevenson, Yuri Oliveira Feitosa, Joost F. Duivenvoorden, Hugo F. Mogollón, Leandro Valle Ferreira, James A. Comiskey, Freddie Draper, José Julio de Toledo, Gabriel Damasco, Nállarett Dávila, Roosevelt García-Villacorta, Aline Lopes, Alberto Vicentini, Janaína Costa Noronha, Flávia Rodrigues Barbosa, Rainiellen de Sá Carpanedo, Thaise Emilio, Carolina Levis, Domingos de Jesus Rodrigues, Juliana Schietti, Priscila Souza, Alfonso Alonso, Francisco Dallmeier, Vitor H. F. Gomes, Jon Lloyd, David Neill, Daniel Praia Portela de Aguiar, Alejandro Araujo-Murakami, Luzmila Arroyo, Fernanda Antunes Carvalho, Fernanda Coelho de Souza, Dário Dantas do Amaral, Kenneth J. Feeley, Rogerio Gribel, Marcelo Petratti Pansonato, Jos Barlow, Erika Berenguer, Joice Ferreira, Paul V. A. Fine, Marcelino Carneiro Guedes, Eliana M. Jimenez, Juan Carlos Licona, Maria Cristina Peñuela Mora, Carlos A. Peres, Boris Eduardo Villa Zegarra, Carlos Cerón, Terry W. Henkel, Paul Maas, Marcos Silveira, Juliana Stropp, Raquel Thomas-Caesar, Tim R. Baker, Doug Daly, Kyle G. Dexter, John Ethan Householder, Isau Huamantupa-Chuquimaco, Toby Pennington, Marcos Ríos Paredes, Alfredo Fuentes, José Luis Marcelo Pena, Miles R. Silman, J. Sebastián Tello, Jerome Chave, Fernando Cornejo Valverde, Anthony Di Fiore, Renato Richard Hilário, Juan Fernando Phillips, Gonzalo Rivas-Torres, Tinde R. van Andel, Patricio von Hildebrand, Edelcilio Marques Barbosa, Luiz Carlos de Matos Bonates, Hilda Paulette Dávila Doza, Émile Fonty, Ricardo Zárate Gómez, Therany Gonzales, George Pepe Gallardo Gonzales, Jean-Louis Guillaumet, Bruce Hoffman, André Braga Junqueira, Yadvinder Malhi, Ires Paula de Andrade Miranda, Linder Felipe Mozombite Pinto, Adriana Prieto, Agustín Rudas, Ademir R. Ruschel, Natalino Silva, César I. A. Vela, Vincent Antoine Vos, Egleé L. Zent, Stanford Zent, Bianca Weiss Albuquerque, Angela Cano, Diego F. Correa, Janaina Barbosa Pedrosa Costa, Bernardo Monteiro Flores, Milena Holmgren, Marcelo Trindade Nascimento, Alexandre A. Oliveira, Hirma Ramirez-Angulo, Maira Rocha, Veridiana Vizoni Scudeller, Rodrigo Sierra, Milton Tirado, Maria Natalia Umaña, Geertje van der Heijden, Emilio Vilanova Torre, Corine Vriesendorp, Ophelia Wang, Kenneth R. Young, Manuel Augusto Ahuite Reategui, Cláudia Baider, Henrik Balslev, Sasha Cárdenas, Luisa Fernanda Casas, William Farfan-Rios, Cid Ferreira, Reynaldo Linares-Palomino, Casimiro Mendoza, Italo Mesones, Armando Torres-Lezama, Ligia Estela Urrego Giraldo, Daniel Villarroel, Roderick Zagt, Miguel N. Alexiades, Karina Garcia-Cabrera, Lionel Hernandez, William Milliken, Walter Palacios Cuenca, Susamar Pansini, Daniela Pauletto, Freddy Ramirez Arevalo, Adeilza Felipe Sampaio, Elvis H. Valderrama Sandoval, Luis Valenzuela Gamarra, Gerhard Boenisch, Jens Kattge, Nathan Kraft, Aurora Levesley, Karina Melgaço, Georgia Pickavance, Lourens Poorter, and Hans ter Steege

Subjects
Medicine, Science
Abstract

Abstract In a time of rapid global change, the question of what determines patterns in species abundance distribution remains a priority for understanding the complex dynamics of ecosystems. The constrained maximization of information entropy provides a framework for the understanding of such complex systems dynamics by a quantitative analysis of important constraints via predictions using least biased probability distributions. We apply it to over two thousand hectares of Amazonian tree inventories across seven forest types and thirteen functional traits, representing major global axes of plant strategies. Results show that constraints formed by regional relative abundances of genera explain eight times more of local relative abundances than constraints based on directional selection for specific functional traits, although the latter does show clear signals of environmental dependency. These results provide a quantitative insight by inference from large-scale data using cross-disciplinary methods, furthering our understanding of ecological dynamics.

Published
2023
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2. The global spectrum of plant form and function: enhanced species-level trait dataset

Author

Sandra Díaz, Jens Kattge, Johannes H. C. Cornelissen, Ian J. Wright, Sandra Lavorel, Stéphane Dray, Björn Reu, Michael Kleyer, Christian Wirth, I. Colin Prentice, Eric Garnier, Gerhard Bönisch, Mark Westoby, Hendrik Poorter, Peter B. Reich, Angela T. Moles, John Dickie, Amy E. Zanne, Jérôme Chave, S. Joseph Wright, Serge N. Sheremetiev, Hervé Jactel, Christopher Baraloto, Bruno E. L. Cerabolini, Simon Pierce, Bill Shipley, Fernando Casanoves, Julia S. Joswig, Angela Günther, Valeria Falczuk, Nadja Rüger, Miguel D. Mahecha, Lucas D. Gorné, Bernard Amiaud, Owen K. Atkin, Michael Bahn, Dennis Baldocchi, Michael Beckmann, Benjamin Blonder, William Bond, Ben Bond-Lamberty, Kerry Brown, Sabina Burrascano, Chaeho Byun, Giandiego Campetella, Jeannine Cavender-Bares, F. Stuart Chapin, Brendan Choat, David Anthony Coomes, William K. Cornwell, Joseph Craine, Dylan Craven, Matteo Dainese, Alessandro Carioca de Araujo, Franciska T. de Vries, Tomas Ferreira Domingues, Brian J. Enquist, Jaime Fagúndez, Jingyun Fang, Fernando Fernández-Méndez, Maria T. Fernandez-Piedade, Henry Ford, Estelle Forey, Gregoire T. Freschet, Sophie Gachet, Rachael Gallagher, Walton Green, Greg R. Guerin, Alvaro G. Gutiérrez, Sandy P. Harrison, Wesley Neil Hattingh, Tianhua He, Thomas Hickler, Steven I. Higgins, Pedro Higuchi, Jugo Ilic, Robert B. Jackson, Adel Jalili, Steven Jansen, Fumito Koike, Christian König, Nathan Kraft, Koen Kramer, Holger Kreft, Ingolf Kühn, Hiroko Kurokawa, Eric G. Lamb, Daniel C. Laughlin, Michelle Leishman, Simon Lewis, Frédérique Louault, Ana C. M. Malhado, Peter Manning, Patrick Meir, Maurizio Mencuccini, Julie Messier, Regis Miller, Vanessa Minden, Jane Molofsky, Rebecca Montgomery, Gabriel Montserrat-Martí, Marco Moretti, Sandra Müller, Ülo Niinemets, Romà Ogaya, Kinga Öllerer, Vladimir Onipchenko, Yusuke Onoda, Wim A. Ozinga, Juli G. Pausas, Begoña Peco, Josep Penuelas, Valério D. Pillar, Clara Pladevall, Christine Römermann, Lawren Sack, Norma Salinas, Brody Sandel, Jordi Sardans, Brandon Schamp, Michael Scherer-Lorenzen, Ernst-Detlef Schulze, Fritz Schweingruber, Satomi Shiodera, Ênio Sosinski, Nadejda Soudzilovskaia, Marko J. Spasojevic, Emily Swaine, Nathan Swenson, Susanne Tautenhahn, Ken Thompson, Alexia Totte, Rocío Urrutia-Jalabert, Fernando Valladares, Peter van Bodegom, François Vasseur, Kris Verheyen, Denis Vile, Cyrille Violle, Betsy von Holle, Patrick Weigelt, Evan Weiher, Michael C. Wiemann, Mathew Williams, Justin Wright, and Gerhard Zotz

Subjects
Science
Abstract

Measurement(s) plant trait Technology Type(s) various Factor Type(s) none Sample Characteristic - Organism Tracheophyta Sample Characteristic - Environment natural environment Sample Characteristic - Location global

Published
2022
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3. The CALeDNA program: Citizen scientists and researchers inventory California's biodiversity

Author

Rachel S. Meyer, Miroslava Munguia Ramos, Meixi Lin, Teia M. Schweizer, Zachary Gold, Dannise Ruiz Ramos, Sabrina Shirazi, Gaurav Kandlikar, Wai-Yin Kwan, Emily E. Curd, Amanda Freise, Jordan Moberg Parker, Jason P. Sexton, Regina Wetzer, N. Dean Pentcheff, Adam R. Wall, Lenore Pipes, Ana Garcia-Vedrenne, Maura Palacios Mejia, Tiara Moore, Chloe Orland, Kimberly M. Ballare, Anna Worth, Eric Beraut, Emma L. Aronson, Rasmus Nielsen, Harris A. Lewin, Paul H. Barber, Jeff Wall, Nathan Kraft, Beth Shapiro, and Robert K. Wayne

Subjects
biodiversity, ecology, natural resources, earth and environmental sciences, soil, spatial variation, microbiome, environmental education, species diversity, community science, citizen science, Agriculture
Abstract

Climate change is leading to habitat shifts that threaten species persistence throughout California's unique ecosystems. Baseline biodiversity data would provide opportunities for habitats to be managed under short-term and long-term environmental change. Aiming to provide biodiversity data, the UC Conservation Genomics Consortium launched the California Environmental DNA (CALeDNA) program to be a citizen and community science biomonitoring initiative that uses environmental DNA (eDNA, DNA shed from organisms such as from fur, feces, spores, pollen or leaves). Now with results from 1,000 samples shared online, California biodiversity patterns are discoverable. Soil, sediment and water collected by researchers, undergraduates and the public reveal a new catalog of thousands of organisms that only slightly overlap with traditional survey bioinventories. The CALeDNA website lets users explore the taxonomic diversity in different ways, and researchers have created tools to help people new to eDNA to analyze community ecology patterns. Although eDNA results are not always precise, the program team is making progress to fit it into California's biodiversity management toolbox, such as for monitoring ecosystem recovery after invasive species removal or wildfire.

Published
2021
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4. Links to rare climates do not translate into distinct traits for island endemics

Author

Vanessa Cutts, Dagmar M. Hanz, Martha Paola Barajas‐Barbosa, Franziska Schrodt, Manuel J. Steinbauer, Carl Beierkuhnlein, Pierre Denelle, José María Fernández‐Palacios, Pierre Gaüzère, Matthias Grenié, Severin D. H. Irl, Nathan Kraft, Holger Kreft, Brian Maitner, François Munoz, Wilfried Thuiller, Cyrille Violle, Patrick Weigelt, Richard Field, and Adam C. Algar

Subjects
Ecology, Evolution, Behavior and Systematics
Abstract

Current models of island biogeography treat endemic and non-endemic species as if they were functionally equivalent, focussing primarily on species richness. Thus, the functional composition of island biotas in relation to island biogeographical variables remains largely unknown. Using plant trait data (plant height, leaf area and flower length) for 895 native species in the Canary Islands, we related functional trait distinctiveness and climate rarity for endemic and non-endemic species and island ages. Endemics showed a link to climatically rare conditions that is consistent with island geological change through time. However, functional trait distinctiveness did not differ between endemics and non-endemics and remained constant with island age. Thus, there is no obvious link between trait distinctiveness and occupancy of rare climates, at least for the traits measured here, suggesting that treating endemic and non-endemic species as functionally equivalent in island biogeography is not fundamentally wrong.

Published
2023
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5. The ecological causes of functional distinctiveness in communities

Author

François Munoz, Christopher Klausmeier, Pierre Gaüzère, Gaurav Kandlikar, Elena Litchman, Nicolas Mouquet, Annette Ostling, Wilfried Thuiller, Adam Algar, Arnaud Auber, Marc Cadotte, Leo Delalandre, Pierre Denelle, Brian Enquist, Claire Fortunel, Matthias Grenié, Nicolas Loiseau, Lucie Mahaut, Anthony Maire, David Mouillot, Cyrille Violle, and Nathan Kraft

Subjects
ecological interactions, fitness landscape, source-sink dynamics, coexistence, community assembly, functional traits
Abstract

Although how rare species persist in communities is a major ecological question, the critical phenotypic dimension of rarity is broadly overlooked. Recent work has shown that evaluating functional distinctiveness, the average trait distance of a species to other species in a community, offers essential insights into biodiversity dynamics, ecosystem functioning, and biological conservation. However, the ecological mechanisms underlying the persistence of functionally distinct species are poorly understood. Here we propose a heterogeneous fitness landscape framework, whereby functional dimensions encompass peaks representing trait combinations that yield positive intrinsic growth rates in a community. We identify four fundamental causes leading to the persistence of functionally distinct species in a community. First, environmental heterogeneity or alternative phenotypic designs can drive positive population growth of functionally distinct species. Second, sink populations with negative growth can deviate from local fitness peaks and be functionally distinct. Third, species found at the margin of the fitness landscape can persist but be functionally distinct. Fourth, biotic interactions (either positive or negative) can dynamically alter the fitness landscape. We offer examples of these four cases and some guidelines to distinguish among them. In addition to these deterministic processes, we also explore how stochastic dispersal limitation can yield functional distinctiveness.

Published
2022

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