Department of Biology

Aarhus University Seal / Aarhus Universitets segl

Henrik Balslev

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

Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaperJournal articleResearchpeer-review

Standard

Species Distribution Modelling : Contrasting presence-only models with plot abundance data. / Gomes, Vitor H. F.; Ijff, Stephanie D.; Raes, Niels; Amaral, Ieda Leao; Salomao, Rafael P.; Coelho, Luiz de Souza; de Almeida Matos, Francisca Dionizia; Castilho, Carolina V.; Lima Filho, Diogenes de Andrade; Cardenas Lopez, Dairon; Ernesto Guevara, Juan; Magnusson, William E.; Phillips, Oliver L.; Wittmann, Florian; Veiga Carim, Marcelo de Jesus; Martins, Maria Pires; Irume, Mariana Victoria; Sabatier, Daniel; Molino, Jean-Francois; Banki, Olaf S.; da Silva Guimaraes, Jose Renan; Pitman, Nigel C. A.; Fernandez Piedade, Maria Teresa; Mendoza, Abel Monteagudo; Luize, Bruno Garcia; Venticinque, Eduardo Martins; Moraes de Leao Novo, Evlyn Marcia; Vargas, Percy Nunez; Freire Silva, Thiago Sanna; Manzatto, Angelo Gilberto; Terborgh, John; Costa Reis, Neidiane Farias; Montero, Juan Carlos; Casula, Katia Regina; Marimon, Beatriz S.; Marimon, Ben-Hur; Honorio Coronado, Euridice N.; Feldpausch, Ted R.; Duque, Alvaro; Zartman, Charles Eugene; Arboleda, Nicolas Castano; Killeen, Timothy J.; Mostacedo, Bonifacio; Vasquez, Rodolfo; Schongart, Jochen; Assis, Rafael L.; Medeiros, Marcelo Brilhante; Simon, Marcelo Fragomeni; Andrade, Ana; Laurance, William F.; Camargo, Jose Luis; Demarchi, Layon O.; Laurance, Susan G. W.; Farias, Emanuelle de Sousa; Mendonca Nascimento, Henrique Eduardo; Cardenas Revilla, Juan David; Quaresma, Adriano; Costa, Flavia R. C.; Guimaraes Vieira, Ima Celia; Ladvocat Cintra, Bruno Barcante; Castellanos, Hernan; Brienen, Roel; Stevenson, Pablo R.; Feitosa, Yuri; Duivenvoorden, Joost F.; Aymard, Gerardo A.; Mogollon, Hugo F.; Targhetta, Natalia; Comiskey, James A.; Vicentini, Alberto; Lopes, Aline; Damasco, Gabriel; Davila, Nallarett; Garcia-Villacorta, Roosevelt; Levis, Carolina; Schietti, Juliana; Souza, Priscila; Emilio, Thaise; Alonso, Alfonso; Neill, David; Dallmeier, Francisco; Ferreira, Leandro Valle; Araujo-Murakami, Alejandro; Praia, Daniel; Do Amaral, Dario Dantas; Carvalho, Fernanda Antunes; de Souza, Fernanda Coelho; Feeley, Kenneth; Arroyo, Luzmila; Pansonato, Marcelo Petratti; Gribel, Rogerio; Villa, Boris; Licona, Juan Carlos; Fine, Paul V. A.; Ceron, Carlos; Baraloto, Chris; Jimenez, Eliana M.; Stropp, Juliana; Engel, Julien; Silveira, Marcos; Penuela Mora, Maria Cristina; Petronelli, Pascal; Maas, Paul; Thomas-Caesar, Raquel; Henkel, Terry W.; Daly, Doug; Paredes, Marcos Rios; Baker, Tim R.; Fuentes, Alfredo; Peres, Carlos A.; Chave, Jerome; Marcelo Pena, Jose Luis; Dexter, Kyle G.; Silman, Miles R.; Jorgensen, Peter Moller; Pennington, Toby; Di Fiore, Anthony; Valverde, Fernando Cornejo; Phillips, Juan Fernando; Rivas-Torres, Gonzalo; Von Hildebrand, Patricio; Van Andel, Tinde R.; Ruschel, Ademir R.; Prieto, Adriana; Rudas, Agustin; Hoffman, Bruce; Vela, Cesar I. A.; Barbosa, Edelcilio Marques; Zent, Eglee L.; Gallardo Gonzales, George Pepe; Davila Doza, Hilda Paulette; De Andrade Miranda, Ires Paula; Guillaumet, Jean-Louis; Mozombite Pinto, Linder Felipe; De Matos Bonates, Luiz Carlos; Silva, Natalino; Gomez, Ricardo Zarate; Zent, Stanford; Gonzales, Therany; Vos, Vincent A.; Malhi, Yadvinder; Oliveira, Alexandre A.; Cano, Angela; Albuquerque, Bianca Weiss; Vriesendorp, Corine; Correa, Diego Felipe; Torre, Emilio Vilanova; Van der Heijden, Geertje; Ramirez-Angulo, Hirma; Ramos, Jose Ferreira; Young, Kenneth R.; Rocha, Maira; Nascimento, Marcelo Trindade; Umana Medina, Maria Natalia; Tirado, Milton; Wang, Ophelia; Sierra, Rodrigo; Torres-Lezama, Armando; Mendoza, Casimiro; Ferreira, Cid; Baider, Claudia; Villarroel, Daniel; Balslev, Henrik; Mesones, Italo; Urrego Giraldo, Ligia Estela; Casas, Luisa Fernanda; Ahuite Reategui, Manuel Augusto; Linares-Palomino, Reynaldo; Zagt, Roderick; Cardenas, Sasha; Farfan-Rios, William; Sampaio, Adeilza Felipe; Pauletto, Daniela; Valderrama Sandoval, Elvis H.; Arevalo, Freddy Ramirez; Huamantupa-Chuquimaco, Isau; Garcia-Cabrera, Karina; Hernandez, Lionel; Gamarra, Luis Valenzuela; Alexiades, Miguel N.; Pansini, Susamar; Cuenca, Walter Palacios; Milliken, William; Ricardo, Joana; Lopez-Gonzalez, Gabriela; Pos, Edwin; ter Steege, Hans.

In: Scientific Reports, Vol. 8, 1003, 17.01.2018.

Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaperJournal articleResearchpeer-review

Harvard

Gomes, VHF, Ijff, SD, Raes, N, Amaral, IL, Salomao, RP, Coelho, LDS, de Almeida Matos, FD, Castilho, CV, Lima Filho, DDA, Cardenas Lopez, D, Ernesto Guevara, J, Magnusson, WE, Phillips, OL, Wittmann, F, Veiga Carim, MDJ, Martins, MP, Irume, MV, Sabatier, D, Molino, J-F, Banki, OS, da Silva Guimaraes, JR, Pitman, NCA, Fernandez Piedade, MT, Mendoza, AM, Luize, BG, Venticinque, EM, Moraes de Leao Novo, EM, Vargas, PN, Freire Silva, TS, Manzatto, AG, Terborgh, J, Costa Reis, NF, Montero, JC, Casula, KR, Marimon, BS, Marimon, B-H, Honorio Coronado, EN, Feldpausch, TR, Duque, A, Zartman, CE, Arboleda, NC, Killeen, TJ, Mostacedo, B, Vasquez, R, Schongart, J, Assis, RL, Medeiros, MB, Simon, MF, Andrade, A, Laurance, WF, Camargo, JL, Demarchi, LO, Laurance, SGW, Farias, EDS, Mendonca Nascimento, HE, Cardenas Revilla, JD, Quaresma, A, Costa, FRC, Guimaraes Vieira, IC, Ladvocat Cintra, BB, Castellanos, H, Brienen, R, Stevenson, PR, Feitosa, Y, Duivenvoorden, JF, Aymard, GA, Mogollon, HF, Targhetta, N, Comiskey, JA, Vicentini, A, Lopes, A, Damasco, G, Davila, N, Garcia-Villacorta, R, Levis, C, Schietti, J, Souza, P, Emilio, T, Alonso, A, Neill, D, Dallmeier, F, Ferreira, LV, Araujo-Murakami, A, Praia, D, Do Amaral, DD, Carvalho, FA, de Souza, FC, Feeley, K, Arroyo, L, Pansonato, MP, Gribel, R, Villa, B, Licona, JC, Fine, PVA, Ceron, C, Baraloto, C, Jimenez, EM, Stropp, J, Engel, J, Silveira, M, Penuela Mora, MC, Petronelli, P, Maas, P, Thomas-Caesar, R, Henkel, TW, Daly, D, Paredes, MR, Baker, TR, Fuentes, A, Peres, CA, Chave, J, Marcelo Pena, JL, Dexter, KG, Silman, MR, Jorgensen, PM, Pennington, T, Di Fiore, A, Valverde, FC, Phillips, JF, Rivas-Torres, G, Von Hildebrand, P, Van Andel, TR, Ruschel, AR, Prieto, A, Rudas, A, Hoffman, B, Vela, CIA, Barbosa, EM, Zent, EL, Gallardo Gonzales, GP, Davila Doza, HP, De Andrade Miranda, IP, Guillaumet, J-L, Mozombite Pinto, LF, De Matos Bonates, LC, Silva, N, Gomez, RZ, Zent, S, Gonzales, T, Vos, VA, Malhi, Y, Oliveira, AA, Cano, A, Albuquerque, BW, Vriesendorp, C, Correa, DF, Torre, EV, Van der Heijden, G, Ramirez-Angulo, H, Ramos, JF, Young, KR, Rocha, M, Nascimento, MT, Umana Medina, MN, Tirado, M, Wang, O, Sierra, R, Torres-Lezama, A, Mendoza, C, Ferreira, C, Baider, C, Villarroel, D, Balslev, H, Mesones, I, Urrego Giraldo, LE, Casas, LF, Ahuite Reategui, MA, Linares-Palomino, R, Zagt, R, Cardenas, S, Farfan-Rios, W, Sampaio, AF, Pauletto, D, Valderrama Sandoval, EH, Arevalo, FR, Huamantupa-Chuquimaco, I, Garcia-Cabrera, K, Hernandez, L, Gamarra, LV, Alexiades, MN, Pansini, S, Cuenca, WP, Milliken, W, Ricardo, J, Lopez-Gonzalez, G, Pos, E & ter Steege, H 2018, 'Species Distribution Modelling: Contrasting presence-only models with plot abundance data', Scientific Reports, vol. 8, 1003. https://doi.org/10.1038/s41598-017-18927-1

APA

Gomes, V. H. F., Ijff, S. D., Raes, N., Amaral, I. L., Salomao, R. P., Coelho, L. D. S., de Almeida Matos, F. D., Castilho, C. V., Lima Filho, D. D. A., Cardenas Lopez, D., Ernesto Guevara, J., Magnusson, W. E., Phillips, O. L., Wittmann, F., Veiga Carim, M. D. J., Martins, M. P., Irume, M. V., Sabatier, D., Molino, J-F., ... ter Steege, H. (2018). Species Distribution Modelling: Contrasting presence-only models with plot abundance data. Scientific Reports, 8, [1003]. https://doi.org/10.1038/s41598-017-18927-1

CBE

Gomes VHF, Ijff SD, Raes N, Amaral IL, Salomao RP, Coelho LDS, de Almeida Matos FD, Castilho CV, Lima Filho DDA, Cardenas Lopez D, Ernesto Guevara J, Magnusson WE, Phillips OL, Wittmann F, Veiga Carim MDJ, Martins MP, Irume MV, Sabatier D, Molino J-F, Banki OS, da Silva Guimaraes JR, Pitman NCA, Fernandez Piedade MT, Mendoza AM, Luize BG, Venticinque EM, Moraes de Leao Novo EM, Vargas PN, Freire Silva TS, Manzatto AG, Terborgh J, Costa Reis NF, Montero JC, Casula KR, Marimon BS, Marimon B-H, Honorio Coronado EN, Feldpausch TR, Duque A, Zartman CE, Arboleda NC, Killeen TJ, Mostacedo B, Vasquez R, Schongart J, Assis RL, Medeiros MB, Simon MF, Andrade A, Laurance WF, Camargo JL, Demarchi LO, Laurance SGW, Farias EDS, Mendonca Nascimento HE, Cardenas Revilla JD, Quaresma A, Costa FRC, Guimaraes Vieira IC, Ladvocat Cintra BB, Castellanos H, Brienen R, Stevenson PR, Feitosa Y, Duivenvoorden JF, Aymard GA, Mogollon HF, Targhetta N, Comiskey JA, Vicentini A, Lopes A, Damasco G, Davila N, Garcia-Villacorta R, Levis C, Schietti J, Souza P, Emilio T, Alonso A, Neill D, Dallmeier F, Ferreira LV, Araujo-Murakami A, Praia D, Do Amaral DD, Carvalho FA, de Souza FC, Feeley K, Arroyo L, Pansonato MP, Gribel R, Villa B, Licona JC, Fine PVA, Ceron C, Baraloto C, Jimenez EM, Stropp J, Engel J, Silveira M, Penuela Mora MC, Petronelli P, Maas P, Thomas-Caesar R, Henkel TW, Daly D, Paredes MR, Baker TR, Fuentes A, Peres CA, Chave J, Marcelo Pena JL, Dexter KG, Silman MR, Jorgensen PM, Pennington T, Di Fiore A, Valverde FC, Phillips JF, Rivas-Torres G, Von Hildebrand P, Van Andel TR, Ruschel AR, Prieto A, Rudas A, Hoffman B, Vela CIA, Barbosa EM, Zent EL, Gallardo Gonzales GP, Davila Doza HP, De Andrade Miranda IP, Guillaumet J-L, Mozombite Pinto LF, De Matos Bonates LC, Silva N, Gomez RZ, Zent S, Gonzales T, Vos VA, Malhi Y, Oliveira AA, Cano A, Albuquerque BW, Vriesendorp C, Correa DF, Torre EV, Van der Heijden G, Ramirez-Angulo H, Ramos JF, Young KR, Rocha M, Nascimento MT, Umana Medina MN, Tirado M, Wang O, Sierra R, Torres-Lezama A, Mendoza C, Ferreira C, Baider C, Villarroel D, Balslev H, Mesones I, Urrego Giraldo LE, Casas LF, Ahuite Reategui MA, Linares-Palomino R, Zagt R, Cardenas S, Farfan-Rios W, Sampaio AF, Pauletto D, Valderrama Sandoval EH, Arevalo FR, Huamantupa-Chuquimaco I, Garcia-Cabrera K, Hernandez L, Gamarra LV, Alexiades MN, Pansini S, Cuenca WP, Milliken W, Ricardo J, Lopez-Gonzalez G, Pos E, ter Steege H. 2018. Species Distribution Modelling: Contrasting presence-only models with plot abundance data. Scientific Reports. 8:Article 1003. https://doi.org/10.1038/s41598-017-18927-1

MLA

Vancouver

Gomes VHF, Ijff SD, Raes N, Amaral IL, Salomao RP, Coelho LDS et al. Species Distribution Modelling: Contrasting presence-only models with plot abundance data. Scientific Reports. 2018 Jan 17;8. 1003. https://doi.org/10.1038/s41598-017-18927-1

Author

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

Bibtex

@article{e12a06beeb8647ecae14317e81977b14,
title = "Species Distribution Modelling: Contrasting presence-only models with plot abundance data",
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.",
keywords = "ECOLOGICAL NICHE MODELS, GEOGRAPHIC DISTRIBUTIONS, ABSENCE DATA, BIAS, PERFORMANCE, PREDICTION, THRESHOLDS, DIVERSITY, PATTERN, MAXENT",
author = "Gomes, {Vitor H. F.} and Ijff, {Stephanie D.} and Niels Raes and Amaral, {Ieda Leao} and Salomao, {Rafael P.} and Coelho, {Luiz de Souza} and {de Almeida Matos}, {Francisca Dionizia} and Castilho, {Carolina V.} and {Lima Filho}, {Diogenes de Andrade} and {Cardenas Lopez}, Dairon and {Ernesto Guevara}, Juan and Magnusson, {William E.} and Phillips, {Oliver L.} and Florian Wittmann and {Veiga Carim}, {Marcelo de Jesus} and Martins, {Maria Pires} and Irume, {Mariana Victoria} and Daniel Sabatier and Jean-Francois Molino and Banki, {Olaf S.} and {da Silva Guimaraes}, {Jose Renan} and Pitman, {Nigel C. A.} and {Fernandez Piedade}, {Maria Teresa} and Mendoza, {Abel Monteagudo} and Luize, {Bruno Garcia} and Venticinque, {Eduardo Martins} and {Moraes de Leao Novo}, {Evlyn Marcia} and Vargas, {Percy Nunez} and {Freire Silva}, {Thiago Sanna} and Manzatto, {Angelo Gilberto} and John Terborgh and {Costa Reis}, {Neidiane Farias} and Montero, {Juan Carlos} and Casula, {Katia Regina} and Marimon, {Beatriz S.} and Ben-Hur Marimon and {Honorio Coronado}, {Euridice N.} and Feldpausch, {Ted R.} and Alvaro Duque and Zartman, {Charles Eugene} and Arboleda, {Nicolas Castano} and Killeen, {Timothy J.} and Bonifacio Mostacedo and Rodolfo Vasquez and Jochen Schongart and Assis, {Rafael L.} and Medeiros, {Marcelo Brilhante} and Simon, {Marcelo Fragomeni} and Ana Andrade and Laurance, {William F.} and Camargo, {Jose Luis} and Demarchi, {Layon O.} and Laurance, {Susan G. W.} and Farias, {Emanuelle de Sousa} and {Mendonca Nascimento}, {Henrique Eduardo} and {Cardenas Revilla}, {Juan David} and Adriano Quaresma and Costa, {Flavia R. C.} and {Guimaraes Vieira}, {Ima Celia} and {Ladvocat Cintra}, {Bruno Barcante} and Hernan Castellanos and Roel Brienen and Stevenson, {Pablo R.} and Yuri Feitosa and Duivenvoorden, {Joost F.} and Aymard, {Gerardo A.} and Mogollon, {Hugo F.} and Natalia Targhetta and Comiskey, {James A.} and Alberto Vicentini and Aline Lopes and Gabriel Damasco and Nallarett Davila and Roosevelt Garcia-Villacorta and Carolina Levis and Juliana Schietti and Priscila Souza and Thaise Emilio and Alfonso Alonso and David Neill and Francisco Dallmeier and Ferreira, {Leandro Valle} and Alejandro Araujo-Murakami and Daniel Praia and {Do Amaral}, {Dario Dantas} and Carvalho, {Fernanda Antunes} and {de Souza}, {Fernanda Coelho} and Kenneth Feeley and Luzmila Arroyo and Pansonato, {Marcelo Petratti} and Rogerio Gribel and Boris Villa and Licona, {Juan Carlos} and Fine, {Paul V. A.} and Carlos Ceron and Chris Baraloto and Jimenez, {Eliana M.} and Juliana Stropp and Julien Engel and Marcos Silveira and {Penuela Mora}, {Maria Cristina} and Pascal Petronelli and Paul Maas and Raquel Thomas-Caesar and Henkel, {Terry W.} and Doug Daly and Paredes, {Marcos Rios} and Baker, {Tim R.} and Alfredo Fuentes and Peres, {Carlos A.} and Jerome Chave and {Marcelo Pena}, {Jose Luis} and Dexter, {Kyle G.} and Silman, {Miles R.} and Jorgensen, {Peter Moller} and Toby Pennington and {Di Fiore}, Anthony and Valverde, {Fernando Cornejo} and Phillips, {Juan Fernando} and Gonzalo Rivas-Torres and {Von Hildebrand}, Patricio and {Van Andel}, {Tinde R.} and Ruschel, {Ademir R.} and Adriana Prieto and Agustin Rudas and Bruce Hoffman and Vela, {Cesar I. A.} and Barbosa, {Edelcilio Marques} and Zent, {Eglee L.} and {Gallardo Gonzales}, {George Pepe} and {Davila Doza}, {Hilda Paulette} and {De Andrade Miranda}, {Ires Paula} and Jean-Louis Guillaumet and {Mozombite Pinto}, {Linder Felipe} and {De Matos Bonates}, {Luiz Carlos} and Natalino Silva and Gomez, {Ricardo Zarate} and Stanford Zent and Therany Gonzales and Vos, {Vincent A.} and Yadvinder Malhi and Oliveira, {Alexandre A.} and Angela Cano and Albuquerque, {Bianca Weiss} and Corine Vriesendorp and Correa, {Diego Felipe} and Torre, {Emilio Vilanova} and {Van der Heijden}, Geertje and Hirma Ramirez-Angulo and Ramos, {Jose Ferreira} and Young, {Kenneth R.} and Maira Rocha and Nascimento, {Marcelo Trindade} and {Umana Medina}, {Maria Natalia} and Milton Tirado and Ophelia Wang and Rodrigo Sierra and Armando Torres-Lezama and Casimiro Mendoza and Cid Ferreira and Claudia Baider and Daniel Villarroel and Henrik Balslev and Italo Mesones and {Urrego Giraldo}, {Ligia Estela} and Casas, {Luisa Fernanda} and {Ahuite Reategui}, {Manuel Augusto} and Reynaldo Linares-Palomino and Roderick Zagt and Sasha Cardenas and William Farfan-Rios and Sampaio, {Adeilza Felipe} and Daniela Pauletto and {Valderrama Sandoval}, {Elvis H.} and Arevalo, {Freddy Ramirez} and Isau Huamantupa-Chuquimaco and Karina Garcia-Cabrera and Lionel Hernandez and Gamarra, {Luis Valenzuela} and Alexiades, {Miguel N.} and Susamar Pansini and Cuenca, {Walter Palacios} and William Milliken and Joana Ricardo and Gabriela Lopez-Gonzalez and Edwin Pos and {ter Steege}, Hans",
year = "2018",
month = jan,
day = "17",
doi = "10.1038/s41598-017-18927-1",
language = "English",
volume = "8",
journal = "Scientific Reports",
issn = "2045-2322",
publisher = "Nature Publishing Group",

}

RIS

TY - JOUR

T1 - Species Distribution Modelling

T2 - Contrasting presence-only models with plot abundance data

AU - Gomes, Vitor H. F.

AU - Ijff, Stephanie D.

AU - Raes, Niels

AU - Amaral, Ieda Leao

AU - Salomao, Rafael P.

AU - Coelho, Luiz de Souza

AU - de Almeida Matos, Francisca Dionizia

AU - Castilho, Carolina V.

AU - Lima Filho, Diogenes de Andrade

AU - Cardenas Lopez, Dairon

AU - Ernesto Guevara, Juan

AU - Magnusson, William E.

AU - Phillips, Oliver L.

AU - Wittmann, Florian

AU - Veiga Carim, Marcelo de Jesus

AU - Martins, Maria Pires

AU - Irume, Mariana Victoria

AU - Sabatier, Daniel

AU - Molino, Jean-Francois

AU - Banki, Olaf S.

AU - da Silva Guimaraes, Jose Renan

AU - Pitman, Nigel C. A.

AU - Fernandez Piedade, Maria Teresa

AU - Mendoza, Abel Monteagudo

AU - Luize, Bruno Garcia

AU - Venticinque, Eduardo Martins

AU - Moraes de Leao Novo, Evlyn Marcia

AU - Vargas, Percy Nunez

AU - Freire Silva, Thiago Sanna

AU - Manzatto, Angelo Gilberto

AU - Terborgh, John

AU - Costa Reis, Neidiane Farias

AU - Montero, Juan Carlos

AU - Casula, Katia Regina

AU - Marimon, Beatriz S.

AU - Marimon, Ben-Hur

AU - Honorio Coronado, Euridice N.

AU - Feldpausch, Ted R.

AU - Duque, Alvaro

AU - Zartman, Charles Eugene

AU - Arboleda, Nicolas Castano

AU - Killeen, Timothy J.

AU - Mostacedo, Bonifacio

AU - Vasquez, Rodolfo

AU - Schongart, Jochen

AU - Assis, Rafael L.

AU - Medeiros, Marcelo Brilhante

AU - Simon, Marcelo Fragomeni

AU - Andrade, Ana

AU - Laurance, William F.

AU - Camargo, Jose Luis

AU - Demarchi, Layon O.

AU - Laurance, Susan G. W.

AU - Farias, Emanuelle de Sousa

AU - Mendonca Nascimento, Henrique Eduardo

AU - Cardenas Revilla, Juan David

AU - Quaresma, Adriano

AU - Costa, Flavia R. C.

AU - Guimaraes Vieira, Ima Celia

AU - Ladvocat Cintra, Bruno Barcante

AU - Castellanos, Hernan

AU - Brienen, Roel

AU - Stevenson, Pablo R.

AU - Feitosa, Yuri

AU - Duivenvoorden, Joost F.

AU - Aymard, Gerardo A.

AU - Mogollon, Hugo F.

AU - Targhetta, Natalia

AU - Comiskey, James A.

AU - Vicentini, Alberto

AU - Lopes, Aline

AU - Damasco, Gabriel

AU - Davila, Nallarett

AU - Garcia-Villacorta, Roosevelt

AU - Levis, Carolina

AU - Schietti, Juliana

AU - Souza, Priscila

AU - Emilio, Thaise

AU - Alonso, Alfonso

AU - Neill, David

AU - Dallmeier, Francisco

AU - Ferreira, Leandro Valle

AU - Araujo-Murakami, Alejandro

AU - Praia, Daniel

AU - Do Amaral, Dario Dantas

AU - Carvalho, Fernanda Antunes

AU - de Souza, Fernanda Coelho

AU - Feeley, Kenneth

AU - Arroyo, Luzmila

AU - Pansonato, Marcelo Petratti

AU - Gribel, Rogerio

AU - Villa, Boris

AU - Licona, Juan Carlos

AU - Fine, Paul V. A.

AU - Ceron, Carlos

AU - Baraloto, Chris

AU - Jimenez, Eliana M.

AU - Stropp, Juliana

AU - Engel, Julien

AU - Silveira, Marcos

AU - Penuela Mora, Maria Cristina

AU - Petronelli, Pascal

AU - Maas, Paul

AU - Thomas-Caesar, Raquel

AU - Henkel, Terry W.

AU - Daly, Doug

AU - Paredes, Marcos Rios

AU - Baker, Tim R.

AU - Fuentes, Alfredo

AU - Peres, Carlos A.

AU - Chave, Jerome

AU - Marcelo Pena, Jose Luis

AU - Dexter, Kyle G.

AU - Silman, Miles R.

AU - Jorgensen, Peter Moller

AU - Pennington, Toby

AU - Di Fiore, Anthony

AU - Valverde, Fernando Cornejo

AU - Phillips, Juan Fernando

AU - Rivas-Torres, Gonzalo

AU - Von Hildebrand, Patricio

AU - Van Andel, Tinde R.

AU - Ruschel, Ademir R.

AU - Prieto, Adriana

AU - Rudas, Agustin

AU - Hoffman, Bruce

AU - Vela, Cesar I. A.

AU - Barbosa, Edelcilio Marques

AU - Zent, Eglee L.

AU - Gallardo Gonzales, George Pepe

AU - Davila Doza, Hilda Paulette

AU - De Andrade Miranda, Ires Paula

AU - Guillaumet, Jean-Louis

AU - Mozombite Pinto, Linder Felipe

AU - De Matos Bonates, Luiz Carlos

AU - Silva, Natalino

AU - Gomez, Ricardo Zarate

AU - Zent, Stanford

AU - Gonzales, Therany

AU - Vos, Vincent A.

AU - Malhi, Yadvinder

AU - Oliveira, Alexandre A.

AU - Cano, Angela

AU - Albuquerque, Bianca Weiss

AU - Vriesendorp, Corine

AU - Correa, Diego Felipe

AU - Torre, Emilio Vilanova

AU - Van der Heijden, Geertje

AU - Ramirez-Angulo, Hirma

AU - Ramos, Jose Ferreira

AU - Young, Kenneth R.

AU - Rocha, Maira

AU - Nascimento, Marcelo Trindade

AU - Umana Medina, Maria Natalia

AU - Tirado, Milton

AU - Wang, Ophelia

AU - Sierra, Rodrigo

AU - Torres-Lezama, Armando

AU - Mendoza, Casimiro

AU - Ferreira, Cid

AU - Baider, Claudia

AU - Villarroel, Daniel

AU - Balslev, Henrik

AU - Mesones, Italo

AU - Urrego Giraldo, Ligia Estela

AU - Casas, Luisa Fernanda

AU - Ahuite Reategui, Manuel Augusto

AU - Linares-Palomino, Reynaldo

AU - Zagt, Roderick

AU - Cardenas, Sasha

AU - Farfan-Rios, William

AU - Sampaio, Adeilza Felipe

AU - Pauletto, Daniela

AU - Valderrama Sandoval, Elvis H.

AU - Arevalo, Freddy Ramirez

AU - Huamantupa-Chuquimaco, Isau

AU - Garcia-Cabrera, Karina

AU - Hernandez, Lionel

AU - Gamarra, Luis Valenzuela

AU - Alexiades, Miguel N.

AU - Pansini, Susamar

AU - Cuenca, Walter Palacios

AU - Milliken, William

AU - Ricardo, Joana

AU - Lopez-Gonzalez, Gabriela

AU - Pos, Edwin

AU - ter Steege, Hans

PY - 2018/1/17

Y1 - 2018/1/17

N2 - 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.

AB - 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.

KW - ECOLOGICAL NICHE MODELS

KW - GEOGRAPHIC DISTRIBUTIONS

KW - ABSENCE DATA

KW - BIAS

KW - PERFORMANCE

KW - PREDICTION

KW - THRESHOLDS

KW - DIVERSITY

KW - PATTERN

KW - MAXENT

U2 - 10.1038/s41598-017-18927-1

DO - 10.1038/s41598-017-18927-1

M3 - Journal article

C2 - 29343741

VL - 8

JO - Scientific Reports

JF - Scientific Reports

SN - 2045-2322

M1 - 1003

ER -