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Species Distribution Modelling: Contrasting presence-only models with plot abundance data

  • Vitor H.F. Gomes
  • , Stéphanie D. Ijff
  • , Niels Raes
  • , Iêda Leão Amaral
  • , Rafael P. Salomão
  • , Luiz De Souza Coelho
  • , Francisca Dionízia De Almeida Matos
  • , Carolina V. Castilho
  • , Diogenes De Andrade Lima Filho
  • , Dairon Cárdenas López
  • , Juan Ernesto Guevara
  • , William E. Magnusson
  • , Oliver L. Phillips
  • , Florian Wittmann
  • , Marcelo De Jesus Veiga Carim
  • , Maria Pires Martins
  • , Mariana Victória Irume
  • , Daniel Sabatier
  • , Jean François Molino
  • , Olaf S. Bánki
  • José Renan Da Silva Guimarães, Nigel C.A. Pitman, Maria Teresa Fernandez Piedade, Abel Monteagudo Mendoza, Bruno Garcia Luize, Eduardo Martins Venticinque, Evlyn Márcia Moraes De Leão Novo, Percy Núñez Vargas, Thiago Sanna Freire Silva, Angelo Gilberto Manzatto, John Terborgh, Neidiane Farias Costa Reis, Juan Carlos Montero, Katia Regina Casula, Beatriz S. Marimon, Ben Hur Marimon, Euridice N.Honorio Coronado, Ted R. Feldpausch, Alvaro Duque, Charles Eugene Zartman, Nicolás Castaño Arboleda, Timothy J. Killeen, Bonifacio Mostacedo, Rodolfo Vasquez, Jochen Schöngart, Rafael L. Assis, Marcelo Brilhante Medeiros, Marcelo Fragomeni Simon, Ana Andrade, William F. Laurance, José Luís Camargo, Layon O. Demarchi, Susan G.W. Laurance, Emanuelle De Sousa Farias, Henrique Eduardo Mendonça Nascimento, Juan David Cardenas Revilla, Adriano Quaresma, Flavia R.C. Costa, Ima Célia Guimarães Vieira, Bruno Barçante Ladvocat Cintra, Hernán Castellanos, Roel Brienen, Pablo R. Stevenson, Yuri Feitosa, Joost F. Duivenvoorden, Gerardo A.C. Aymard, Hugo F. Mogollón, Natalia Targhetta, James A. Comiskey, Alberto Vicentini, Aline Lopes, Gabriel Damasco, Nállarett Dávila, Roosevelt García-Villacorta, Carolina Levis, Juliana Schietti, Priscila Souza, Thaise Emilio, Alfonso Alonso, David Neill, Francisco Dallmeier, Leandro Valle Ferreira, Alejandro Araujo-Murakami, Daniel Praia, Dário Dantas Do Amaral, Fernanda Antunes Carvalho, Fernanda Coelho De Souza, Kenneth Feeley, Luzmila Arroyo, Marcelo Petratti Pansonato, Rogerio Gribel, Boris Villa, Juan Carlos Licona, Paul V.A. Fine, Carlos Cerón, Chris Baraloto, Eliana M. Jimenez, Juliana Stropp, Julien Engel, Marcos Silveira, Maria Cristina Peñuela Mora, Pascal Petronelli, Paul Maas, Raquel Thomas-Caesar, Terry W. Henkel, Doug Daly, Marcos Ríos Paredes, Tim R. Baker, Alfredo Fuentes, Carlos A. Peres, Jerome Chave, Jose Luis Marcelo Pena, Kyle G. Dexter, Miles R. Silman, Peter Møller Jørgensen, Toby Pennington, Anthony Di Fiore, Fernando Cornejo Valverde, Juan Fernando Phillips, Gonzalo Rivas-Torres, Patricio Von Hildebrand, Tinde R. Van Andel, Ademir R. Ruschel, Adriana Prieto, Agustín Rudas, Bruce Hoffman, César I.A. Vela, Edelcilio Marques Barbosa, Egleé L. Zent, George Pepe Gallardo Gonzales, Hilda Paulette Dávila Doza, Ires Paula De Andrade Miranda, Jean Louis Guillaumet, Linder Felipe Mozombite Pinto, Luiz Carlos De Matos Bonates, Natalino Silva, Ricardo Zárate Gómez, Stanford Zent, Therany Gonzales, Vincent A. Vos, Yadvinder Malhi, Alexandre A. Oliveira, Angela Cano, Bianca Weiss Albuquerque, Corine Vriesendorp, Diego Felipe Correa, Emilio Vilanova Torre, Geertje Van Der Heijden, Hirma Ramirez-Angulo, José Ferreira Ramos, Kenneth R. Young, Maira Rocha, Marcelo Trindade Nascimento, Maria Natalia Umaña Medina, Milton Tirado, Ophelia Wang, Rodrigo Sierra, Armando Torres-Lezama, Casimiro Mendoza, Cid Ferreira, Cláudia Baider, Daniel Villarroel, Henrik Balslev, Italo Mesones, Ligia Estela Urrego Giraldo, Luisa Fernanda Casas, Manuel Augusto Ahuite Reategui, Reynaldo Linares-Palomino, Roderick Zagt, Sasha Cárdenas, William Farfan-Rios, Adeilza Felipe Sampaio, Daniela Pauletto, Elvis H.Valderrama Sandoval, Freddy Ramirez Arevalo, Isau Huamantupa-Chuquimaco, Karina Garcia-Cabrera, Lionel Hernandez, Luis Valenzuela Gamarra, Miguel N. Alexiades, Susamar Pansini, Walter Palacios Cuenca, William Milliken, Joana Ricardo, Gabriela Lopez-Gonzalez, Edwin Pos, Hans Ter Steege*
*Corresponding author for this work
  • Museu Paraense Emílio Goeldi
  • Universidade Federal do Pará
  • Naturalis Biodiversity Center
  • Deltares
  • Petrópolis
  • Empresa Brasileira de Pesquisa Agropecuária - Embrapa
  • Calle 20 No 5-44
  • University of California at Berkeley
  • Universidad San Francisco de Quito
  • University of Leeds
  • Karlsruhe Institute of Technology
  • Max Planck Institute for Chemistry
  • Instituto de Pesquisas Científicas e Tecnológicas do Amapá - IEPA
  • CNRS)
  • Field Museum of Natural History
  • Oxapampa
  • Universidade Estadual Paulista Júlio de Mesquita Filho
  • Universidade Federal do Rio Grande do Norte
  • Instituto Nacional de Pesquisas Espaciais
  • Universidad Nacional San Antonio Abad del Cusco
  • Universidade Federal de Rondônia
  • Duke University
  • Instituto Boliviano de Investigacion Forestal Bolivia
  • Universidade do Estado de Mato Grosso
  • Instituto de Investigaciones de la Amazonía Peruana
  • University of Exeter
  • Universidad Nacional de Colombia Medellin
  • Agteca-Amazonica
  • Universidad Autónoma Gabriel Rene Moreno
  • Av. W5 Norte
  • James Cook University Queensland
  • Fiocruz Amazônia
  • Fundação Oswaldo Cruz
  • Universidad Nacional Experimental de Guayana
  • Universidad de los Andes Colombia
  • University of Amsterdam
  • Programa de Ciencias Del Agro y El Mar
  • Endangered Species Coalition
  • Inventory and Monitoring Program National Park Service
  • Smithsonian Conservation Biology Institute
  • Universidade Estadual de Campinas
  • EaStCHEM School of Chemistry, University of Edinburgh
  • Royal Botanical Garden of Edinburgh
  • Wageningen University & Research
  • Royal Botanic Gardens, Kew
  • Universidad Estatal Amazónica
  • University of Miami
  • Fairchild Tropical Botanic Garden
  • Universidade de São Paulo
  • Instituto de Pesquisas Jardim Botânico do Rio de Janeiro
  • Universidad Central del Ecuador
  • Florida International University
  • Universidad Nacional de Colombia sede Amazonia
  • Federal University of Alagoas
  • Universidade Federal do Acre
  • Universidad Regional Amazónica Ikiam
  • Campus agronomique
  • Iwokrama International Centre for Rainforest Conservation and Development
  • Humboldt State University
  • New York Botanical Garden
  • Servicios de Biodiversidad EIRL
  • Herbario Nacional de Bolivia
  • Missouri Botanical Garden
  • University of East Anglia
  • CNRS and Université Paul Sabatier
  • Universidad Nacional Agraria La Molina
  • Wake Forest University
  • University of Texas at Austin
  • Andes to Amazon Biodiversity Program
  • Fundación Puerto Rastrojo
  • University of Florida
  • Fundación Estación de Biología
  • Empresa Brasileira de Pesquisa Agropecuária
  • Universidad Nacional de Colombia
  • Amazon Conservation Team
  • Instituto Venezolano de Investigaciones Científicas (I.V.I.C.)
  • UPMC
  • Universidade Federal Rural da Amazônia
  • ACEER Foundation
  • Universidad Autónoma Del Beni José Ballivián
  • Centro de Investigación y Promoción del Campesinado
  • Oxford University Centre for the Environment
  • University of QueenslandBrisbane
  • Universidad de Los Andes
  • University of Washington
  • University of Nottingham
  • Universidade Estadual do Norte Fluminense
  • University of Maryland
  • GeoIS
  • Northern Arizona University
  • FOMABO
  • Universidad Mayor de San Simon (UMSS)
  • Ministry of Agro-Industry and Food Security
  • Aarhus University
  • PLUSPRETOL
  • Smithsonian Institution
  • Tropenbos International
  • Universidade Federal do Oeste do Pará
  • University of Missouri-St. Louis, Department of Biology
  • Universidad Nacional de la Amazonía Peruana
  • University of Kent
  • Universidad Técnica del Norte
  • Utrecht University
  • Vrije Universiteit Amsterdam

Research output: Contribution to journalArticlepeer-review

169 Scopus citations

Abstract

Species distribution models (SDMs) are widely used in ecology and conservation. Presence-only SDMs such as MaxEnt frequently use natural history collections (NHCs) as occurrence data, given their huge numbers and accessibility. NHCs are often spatially biased which may generate inaccuracies in SDMs. Here, we test how the distribution of NHCs and MaxEnt predictions relates to a spatial abundance model, based on a large plot dataset for Amazonian tree species, using inverse distance weighting (IDW). We also propose a new pipeline to deal with inconsistencies in NHCs and to limit the area of occupancy of the species. We found a significant but weak positive relationship between the distribution of NHCs and IDW for 66% of the species. The relationship between SDMs and IDW was also significant but weakly positive for 95% of the species, and sensitivity for both analyses was high. Furthermore, the pipeline removed half of the NHCs records. Presence-only SDM applications should consider this limitation, especially for large biodiversity assessments projects, when they are automatically generated without subsequent checking. Our pipeline provides a conservative estimate of a species' area of occupancy, within an area slightly larger than its extent of occurrence, compatible to e.g. IUCN red list assessments.

Original languageEnglish
Article number1003
JournalScientific Reports
Volume8
Issue number1
DOIs
StatePublished - 1 Dec 2018

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