Species distribution modelling: contrasting presence-only models with plot abundance data

Gomes, Vitor H.F. and IJff, Stéphanie D. and Raes, Niels and Amaral, Iêda Leão and Salomão, Rafael P. and de Souza Coelho, Luiz and de Almeida Matos, Francisca Dionízia and Castilho, Carolina V. and de Andrade Lima Filho, Diogenes and López, Dairon Cárdenas and Guevara, Juan Ernesto and Magnusson, William E. and Phillips, Oliver L. and Wittmann, Florian and de Jesus Veiga Carim, Marcelo and Martins, Maria Pires and Irume, Mariana Victória and Sabatier, Daniel and Molino, Jean-François and Bánki, Olaf S. and da Silva Guimarães, José Renan and Pitman, Nigel C.A. and Piedade, Maria Teresa Fernandez and Mendoza, Abel Monteagudo and Luize, Bruno Garcia and Venticinque, Eduardo Martins and de Leão Novo, Evlyn Márcia Moraes and Vargas, Percy Núñez and Silva, Thiago Sanna Freire and Manzatto, Angelo Gilberto and Terborgh, John and Reis, Neidiane Farias Costa and Montero, Juan Carlos and Casula, Katia Regina and Marimon, Beatriz S. and Marimon, Ben-Hur and Coronado, Euridice N. Honorio and Feldpausch, Ted R. and Duque, Alvaro and Zartman, Charles Eugene and Arboleda, Nicolás Castaño and Killeen, Timothy J. and Mostacedo, Bonifacio and Vasquez, Rodolfo and Schöngart, Jochen and Assis, Rafael L. and Medeiros, Marcelo Brilhante and Simon, Marcelo Fragomeni and Andrade, Ana and Laurance, William F. and Camargo, José Luís and Demarchi, Layon O. and Laurance, Susan G.W. and de Sousa Farias, Emanuelle and Nascimento, Henrique Eduardo Mendonça and Revilla, Juan David Cardenas and Quaresma, Adriano and Costa, Flávia R.C. and Vieira, Ima Célia Guimarães and Cintra, Bruno Barçante Ladvocat and Castellanos, Hernán and Brienen, Roel and Stevenson, Pablo R. and Feitosa, Yuri and Duivenvoorden, Joost F. and Aymard C., Gerardo A. and Mogollón, Hugo F. and Targhetta, Natalia and Comiskey, James A. and Vicentini, Alberto and Lopes, Aline and Damasco, Gabriel and Dávila, Nállarett and García-Villacorta, Roosevelt and Levis, Carolina and Schietti, Juliana and Souza, Priscila and Emilio, Thaise and Alonso, Alfonso and Neill, David and Dallmeier, Francisco and Ferreira, Leandro Valle and Araujo-Murakami, Alejandro and Praia, Daniel and do Amaral, Dário Dantas and Carvalho, Fernanda Antunes and de Souza, Fernanda Coelho and Feeley, Kenneth and Arroyo, Luzmila and Pansonato, Marcelo Petratti and Gribel, Rogerio and Villa, Boris and Licona, Juan Carlos and Fine, Paul V.A. and Cerón, Carlos and Baraloto, Chris and Jimenez, Eliana M. and Stropp, Juliana and Engel, Julien and Silveira, Marcos and Mora, Maria Cristina Peñuela and Petronelli, Pascal and Maas, Paul and Thomas-Caesar, Raquel and Henkel, Terry W. and Daly, Doug and Paredes, Marcos Ríos and Baker, Tim R. and Fuentes, Alfredo and Peres, Carlos A. and Chave, Jerome and Pena, Jose Luis Marcelo and Dexter, Kyle G. and Silman, Miles R. and Jørgensen, Peter Møller and Pennington, Toby and Di Fiore, Anthony and Valverde, Fernando Cornejo and Phillips, Juan Fernando and Rivas-Torres, Gonzalo and von Hildebrand, Patricio and van Andel, Tinde R. and Ruschel, Ademir R. and Prieto, Adriana and Rudas, Agustín and Hoffman, Bruce and Vela, César I. A. and Barbosa, Edelcilio Marques and Zent, Egleé L. and Gonzales, George Pepe Gallardo and Doza, Hilda Paulette Dávila and de Andrade Miranda, Ires Paula and Guillaumet, Jean-Louis and Pinto, Linder Felipe Mozombite and de Matos Bonates, Luiz Carlos and Silva, Natalino and Gómez, Ricardo Zárate and Zent, Stanford and Gonzales, Therany and Vos, Vincent A. and Malhi, Yadvinder and Oliveira, Alexandre A. and Cano, Angela and Albuquerque, Bianca Weiss and Vriesendorp, Corine and Correa, Diego Felipe and Torre, Emilio Vilanova and van der Heijden, Geertje and Ramirez-Angulo, Hirma and Ramos, José Ferreira and Young, Kenneth R. and Rocha, Maira and Nascimento, Marcelo Trindade and Medina, Maria Natalia Umaña and Tirado, Milton and Wang, Ophelia and Sierra, Rodrigo and Torres-Lezama, Armando and Mendoza, Casimiro and Ferreira, Cid and Baider, Cláudia and Villarroel, Daniel and Balslev, Henrik and Mesones, Italo and Giraldo, Ligia Estela Urrego and Casas, Luisa Fernanda and Reategui, Manuel Augusto Ahuite and Linares-Palomino, Reynaldo and Zagt, Roderick and Cárdenas, Sasha and Farfan-Rios, William and Sampaio, Adeilza Felipe and Pauletto, Daniela and Sandoval, Elvis H. Valderrama and Arevalo, Freddy Ramirez and Huamantupa-Chuquimaco, Isau and Garcia-Cabrera, Karina and Hernandez, Lionel and Gamarra, Luis Valenzuela and Alexiades, Miguel N. and Pansini, Susamar and Cuenca, Walter Palacios and Milliken, William and Ricardo, Joana and Lopez-Gonzalez, Gabriela and Pos, Edwin and ter Steege, Hans (2018) Species distribution modelling: contrasting presence-only models with plot abundance data. Scientific Reports, 8 (1). 1003/1-1003/12. ISSN 2045-2322

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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.

Item Type: Article
Keywords: biodiversity; ecological modelling
Schools/Departments: University of Nottingham, UK > Faculty of Social Sciences > School of Geography
Identification Number: 10.1038/s41598-017-18927-1
Depositing User: Eprints, Support
Date Deposited: 26 Feb 2018 09:23
Last Modified: 26 Feb 2018 10:49
URI: http://eprints.nottingham.ac.uk/id/eprint/49995

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