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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.
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1 Coordenação de Botânica, Museu Paraense Emílio Goeldi, Belém, PA, Brazil; Programa de Pós-Graduação em Ciência Ambientais, Universidade Federal do Pará, Belém, PA, Brazil
2 Biodiversity Dynamics, Naturalis Biodiversity Center, Leiden, The Netherlands; Marine and Coastal Management, Deltares, Delft, The Netherlands
3 Biodiversity Dynamics, Naturalis Biodiversity Center, Leiden, The Netherlands
4 Coordenação de Biodiversidade, Instituto Nacional de Pesquisas da Amazônia – INPA, Manaus, AM, Brazil
5 Programa de Pós-Graduação em Ciência Ambientais, Universidade Federal do Pará, Belém, PA, Brazil
6 EMBRAPA – Centro de Pesquisa Agroflorestal de Roraima, Boa Vista, RR, Brazil
7 Herbario Amazónico Colombiano, Instituto SINCHI, Bogotá, DC, Colombia
8 Department of Integrative Biology University of California, Berkeley, CA, USA; Universidad San Francisco de Quito, Colegio de Ciencias Biológicas, Diego de Robles y Vía Interoceánica, Quito, Pichincha, Ecuador
9 Coordenação de Pesquisas em Ecologia, Instituto Nacional de Pesquisas da Amazônia – INPA, Manaus, AM, Brazil
10 School of Geography, University of Leeds, Woodhouse Lane, Leeds, UK
11 Department of Wetland Ecology, Institute of Geography and Geoecology, Karlsruhe Institute of Technology – KIT, Rastatt, Germany; Biogeochemistry, Max Planck Institute for Chemistry, Mainz, Germany
12 Departamento de Botânica, Instituto de Pesquisas Científicas e Tecnológicas do Amapá – IEPA, Amapá, Brazil
13 AMAP, IRD, Cirad, CNRS, INRA, Université de Montpellier, TA A-51/PS2, Bd. de la Lironde, Montpellier, France
14 Science and Education, The Field Museum, Chicago, IL, USA
15 Coordenação de Dinâmica Ambiental, Instituto Nacional de Pesquisas da Amazônia – INPA, Manaus, AM, Brazil
16 Jardín Botánico de Missouri, Oxapampa, Pasco, Peru
17 Departamento de Ecologia, Universidade Estadual Paulista – UNESP, Instituto de Biociências – IB, Rio Claro, SP, Brazil
18 Centro de Biociências, Departamento de Ecologia, Universidade Federal do Rio Grande do Norte, Natal, RN, Brazil
19 Divisao de Sensoriamento Remoto – DSR, Instituto Nacional de Pesquisas Espaciais – INPE, São José dos Campos, SP, Brazil
20 Herbario Vargas, Universidad Nacional de San Antonio Abad del Cusco, Avenida de la Cultura, Cusco, Cuzco, Peru
21 Departamento de Geografia, Universidade Estadual Paulista – UNESP, Instituto de Geociências e Ciências Extas – IGCE, Bela Vista, Rio Claro, SP, Brazil
22 Departamento de Biologia, Universidade Federal de Rondônia, Porto Velho, RO, Brazil
23 Center for Tropical Conservation, Duke University, Nicholas School of the Environment, Durham, NC, USA
24 Programa de Pós-Graduação em Biodiversidade e Biotecnologia - PPG-Bionorte, Universidade Federal de Rondônia, Porto Velho, RO, Brazil
25 Instituto Boliviano de Investigacion Forestal, Santa Cruz, Bolivia; Coordenação de Biodiversidade, Instituto Nacional de Pesquisas da Amazônia – INPA, Manaus, AM, Brazil
26 Programa de Pós-Graduação em Ecologia e Conservação, Universidade do Estado de Mato Grosso, Nova Xavantina, MT, Brazil
27 Instituto de Investigaciones de la Amazonía Peruana – IIAP, Iquitos, Loreto, Peru; School of Geography, University of Leeds, Woodhouse Lane, Leeds, UK
28 Geography College of Life and Environmental Sciences, University of Exeter, Exeter, UK
29 Departamento de Ciencias Forestales, Universidad Nacional de Colombia, Medellín, Antioquia, Colombia
30 Agteca-Amazonica, Santa Cruz, Bolivia
31 Facultad de Ciencias Agrícolas Universidad Autónoma Gabriel René Moreno Santa Cruz, Santa Cruz, Bolivia
32 Prédio da Botânica e Ecologia Embrapa Recursos Genéticos e Biotecnologia Parque Estação Biológica, Brasilia, DF, Brazil
33 Projeto Dinâmica Biológica de Fragmentos Florestais, Instituto Nacional de Pesquisas da Amazônia - INPA, Manaus, AM, Brazil
34 Centre for Tropical Environmental and Sustainability Science and College of Science and Engineering James Cook University, Cairns, Queensland, Australia
35 Laboratório de Ecologia de Doenças Transmissíveis da Amazônia (EDTA), Instituto Leônidas e Maria Deane, Fiocruz, Manaus, AM, Brazil; Programa de Pós-graduação em Biodiversidade e Saúde Instituto Oswaldo Cruz - IOC/FIOCRUZ Pav. Arthur Neiva – Térreo Av. Brasil 4365 – Manguinhos, Rio de Janeiro, RJ, Brazil
36 Coordenação de Botânica, Museu Paraense Emílio Goeldi, Belém, PA, Brazil
37 Coordenação de Dinâmica Ambiental, Instituto Nacional de Pesquisas da Amazônia – INPA, Manaus, AM, Brazil; School of Geography, University of Leeds, Woodhouse Lane, Leeds, UK
38 Centro de Investigaciones Ecológicas de Guayana Universidad Nacional Experimental de Guayana, Calle Chile, urbaniz Chilemex, Puerto Ordaz, Bolivar, Venezuela
39 Laboratorio de Ecología de Bosques Tropicales y Primatología Universidad de los Andes Carrera 1 # 18a- 10, Bogotá, DC, Colombia
40 Programa de Pós-Graduação em Biologia (Botânica) Instituto Nacional de Pesquisas da Amazônia - INPA, Manaus, AM, Brazil
41 Institute of Biodiversity and Ecosystem Dynamics University of Amsterdam, Amsterdam, The Netherlands
42 Programa de Ciencias del Agro y el Mar Herbario Universitario (PORT) UNELLEZ-Guanare, Guanare, Portuguesa, Venezuela
43 Endangered Species Coalition, Silver Spring, MD, USA
44 MAUA Working Group Instituto Nacional de Pesquisas da Amazônia - INPA Av. André Araújo 2936, Petrópolis, Manaus, AM, Brazil
45 Inventory and Monitoring Program National Park Service 120 Chatham Lane, Fredericksburg, VA, USA; Center for Conservation Education and Sustainability Smithsonian Conservation Biology Institute, Washington, DC, USA
46 Department of Integrative Biology University of California, Berkeley, CA, USA
47 Biologia Vegetal, Universidade Estadual de Campinas, Campinas, SP, Brazil
48 Institute of Molecular Plant Sciences University of Edinburgh, Edinburgh, UK; Royal Botanic Garden Edinburgh 20a Inverleith Row, Edinburgh, Scotland, UK
49 Programa de Pós-Graduação em Ecologia, Instituto Nacional de Pesquisas da Amazônia - INPA, Manaus, AM, Brazil; Forest Ecology and Forest Management Group Wageningen University Wageningen University & Research, Droevendaalsesteeg 3, Wageningen, The Netherlands
50 Natural Capital and Plant Health Royal Botanic Gardens, Kew, Richmond, Surrey, UK; Coordenação de Pesquisas em Ecologia, Instituto Nacional de Pesquisas da Amazônia – INPA, Manaus, AM, Brazil
51 Center for Conservation Education and Sustainability Smithsonian Conservation Biology Institute, Washington, DC, USA
52 Ecosistemas Biodiversidad y Conservación de Especies Universidad Estatal Amazónica, Km. 2 1/2 vía a Tena (Paso Lateral), Puyo, Pastaza, Ecuador
53 Museo de Historia Natural Noel Kempff Mercado Universidad Autónoma Gabriel Rene Moreno, Santa Cruz, Bolivia
54 Coordenação de Pesquisas em Ecologia, Instituto Nacional de Pesquisas da Amazônia – INPA, Manaus, AM, Brazil; Centro de Biociências, Departamento de Botânica e Zoologia, Universidade Federal do Rio Grande do Norte, Campus Universitário, Lagoa Nova, Natal, RN, Brazil
55 Coordenação de Pesquisas em Ecologia, Instituto Nacional de Pesquisas da Amazônia – INPA, Manaus, AM, Brazil; School of Geography, University of Leeds, Woodhouse Lane, Leeds, UK
56 Department of Biology University of Miami Coral, Gables, FL, USA; Fairchild Tropical Botanic Garden Coral, Gables, FL, USA
57 Coordenação de Biodiversidade, Instituto Nacional de Pesquisas da Amazônia – INPA, Manaus, AM, Brazil; Instituto de Biociências - Dept. Ecologia, Universidade de Sao Paulo - USP, Rua do Matão, Trav. 14, no. 321, Cidade Universitária, São Paulo, SP, Brazil
58 Diretoria de Pesquisas Científicas, Instituto de Pesquisas Jardim Botânico do Rio de Janeiro, Rio de Janeiro, RJ, Brazil
59 Instituto Boliviano de Investigacion Forestal, Santa Cruz, Bolivia
60 Escuela de Biología Herbario Alfredo Paredes Universidad Central, Quito, Pichincha, Ecuador
61 International Center for Tropical Botany (ICTB) Department of Biological Sciences Florida International University, Miami, FL, USA
62 Grupo de Ecología de Ecosistemas Terrestres Tropicales, Universidad Nacional de Colombia Sede Amazonía, Leticia, Amazonas, Colombia
63 Institute of Biological and Health Sciences, Federal University of Alagoas, Maceio, AL, Brazil
64 AMAP, IRD, Cirad, CNRS, INRA, Université de Montpellier, TA A-51/PS2, Bd. de la Lironde, Montpellier, France; International Center for Tropical Botany (ICTB) Department of Biological Sciences Florida International University, Miami, FL, USA
65 Museu Universitário/Centro de Ciências Biológicas e da Natureza/Laboratório de Botânica e Ecologia Vegetal, Universidade Federal do Acre, Rio Branco, AC, Brazil
66 Universidad Regional Amazónica IKIAM, Tena, Napo, Ecuador
67 Cirad UMR Ecofog AgrosParisTech CNRS INRA Univ Guyane, Campus agronomique, Kourou Cedex, France
68 Iwokrama International Programme for Rainforest Conservation, Georgetown, Guyana
69 Department of Biological Sciences, Humboldt State University, Arcata, CA, USA
70 New York Botanical Garden 2900 Southern Blvd, Bronx, New York, NY, USA
71 Servicios de Biodiversidad EIRL, Jr. Independencia 405, Iquitos, Loreto, Peru
72 Herbario Nacional de Bolivia, Universitario UMSA, La Paz, Bolivia; Missouri Botanical Garden, St. Louis, MO, USA
73 School of Environmental Sciences, University of East Anglia, Norwich, UK
74 Laboratoire Evolution et Diversité Biologique CNRS and Université Paul Sabatier UMR 5174 EDB, Toulouse, France
75 Department of Forestry Management, Universidad Nacional Agraria La Molina, La Molina, Lima, Peru
76 School of Geosciences University of Edinburgh, Edinburgh, UK; Royal Botanic Garden Edinburgh 20a Inverleith Row, Edinburgh, Scotland, UK
77 Biology Department and Center for Energy, Environment and Sustainability, Wake Forest University, Winston Salem, NC, USA
78 Missouri Botanical Garden, St. Louis, MO, USA
79 Royal Botanic Garden Edinburgh 20a Inverleith Row, Edinburgh, Scotland, UK
80 Department of Anthropology University of Texas at Austin, Austin, TX, USA
81 Andes to Amazon Biodiversity Program, Madre de Dios, Madre de Dios, Peru
82 Fundación Puerto Rastrojo, Bogotá, DC, Colombia
83 Colegio de Ciencias Biológicas y Ambientales-COCIBA & Galapagos Institute for the Arts and Sciences-GAIAS, Universidad San Francisco de Quito-USFQ, Quito, Pichincha, Ecuador; Department of Wildlife Ecology and Conservation University of Florida, Gainesville, FL, USA
84 Fundación Estación de Biología, Bogotá, DC, Colombia
85 Embrapa Amazônia Oriental, Trav. Dr. Enéas Pinheiro s/nº, Belém, PA, Brazil
86 Instituto de Ciencias Naturales, Universidad Nacional de Colombia, Apartado, Bogotá, DC, Colombia
87 Amazon Conservation Team, Paramaribo, Suriname
88 Facultad de Ciencias Forestales y Medio Ambiente, Universidad Nacional de San Antonio Abad del Cusco, Puerto Maldonado, Madre de Dios, Peru
89 Laboratory of Human Ecology, Instituto Venezolano de Investigaciones Científicas - IVIC, Caracas, Venezuela
90 Departement EV, Muséum national d’histoire naturelle de Paris, Paris, France
91 Instituto de Ciência Agrárias, Universidade Federal Rural da Amazônia, Belém, PA, Brazil
92 PROTERRA, Instituto de Investigaciones de la Amazonía Peruana (IIAP), Iquitos, Loreto, Peru
93 ACEER Foundation, Jirón Cusco N° 370, Puerto Maldonado, Madre de Dios, Peru
94 Universidad Autónoma del Beni José Ballivián, Campus Universitario Final Av. Ejercito, Riberalta, Beni, Bolivia; Regional Norte Amazónico, Centro de Investigación y Promoción del Campesinado, C/Nicanor Gonzalo Salvatierra N° 362, Riberalta, Beni, Bolivia
95 Environmental Change Institute, Oxford University Centre for the Environment, Dyson Perrins Building, Oxford, England, UK
96 Instituto de Biociências - Dept. Ecologia, Universidade de Sao Paulo - USP, Rua do Matão, Trav. 14, no. 321, Cidade Universitária, São Paulo, SP, Brazil
97 Laboratorio de Ecología de Bosques Tropicales y Primatología Universidad de los Andes Carrera 1 # 18a- 10, Bogotá, DC, Colombia; School of Agriculture and Food Sciences - ARC Centre of Excellence for Environmental Decisions CEED, The University of Queensland, St. Lucia, Australia
98 Instituto de Investigaciones para el Desarrollo Forestal (INDEFOR), Universidad de los Andes, Conjunto Forestal, Mérida, Venezuela; School of Environmental and Forest Sciences, University of Washington, Seattle, WA, USA
99 University of Nottingham, University Park, Nottingham, UK
100 Instituto de Investigaciones para el Desarrollo Forestal (INDEFOR), Universidad de los Andes, Conjunto Forestal, Mérida, Venezuela
101 Geography and the Environment, University of Texas at Austin, Austin, TX, USA
102 Laboratório de Ciências Ambientais, Universidade Estadual do Norte Fluminense, Av. Alberto Lamego 2000, Campos dos Goyatacazes, RJ, Brazil
103 Laboratorio de Ecología de Bosques Tropicales y Primatología Universidad de los Andes Carrera 1 # 18a- 10, Bogotá, DC, Colombia; Department of Biology, University of Maryland, College Park, MD, USA
104 GeoIS, El Día 369 y El Telégrafo, 3° Piso, Quito, Pichincha, Ecuador
105 Environmental Science and Policy, Northern Arizona University, Flagstaff, AZ, USA
106 FOMABO, Manejo Forestal en las Tierras Tropicales de Bolivia, Sacta, Cochabamba, Bolivia; Escuela de Ciencias Forestales (ESFOR), Universidad Mayor de San Simon (UMSS), Sacta, Cochabamba, Bolivia
107 Agricultural Services, Ministry of Agro-Industry and Food Security, Agricultural Services, Ministry of Agro-Industry and Food Security, The Mauritius Herbarium, Reduit, Mauritius
108 Department of Bioscience, Aarhus University, Building 1540 Ny Munkegade, Aarhus C, Aarhus, Denmark
109 Ciencias Biológicas, Universidad de Los Andes, Bogotá, DC, Colombia
110 Medio Ambiente, PLUSPRETOL, Iquitos, Loreto, Peru
111 Center for Conservation Education and Sustainability, Smithsonian’s National Zoo & Conservation Biology Institute, National Zoological Park, Washington, DC, USA
112 Tropenbos International, Wageningen, The Netherlands
113 Instituto de Biodiversidade e Floresta, Universidade Federal do Oeste do Pará, Rua Vera Paz, Campus Tapajós, Santarém, PA, Brazil
114 Department of Biology, University of Missouri, St. Louis, MO, USA; Facultad de Biologia, Universidad Nacional de la Amazonia Peruana, Iquitos, Loreto, Peru
115 Facultad de Biologia, Universidad Nacional de la Amazonia Peruana, Iquitos, Loreto, Peru
116 School of Anthropology and Conservation, University of Kent, Marlowe Building, Canterbury, Kent, UK
117 Herbario Nacional del Ecuador, Universidad Técnica del Norte, Quito, Pichincha, Ecuador
118 Natural Capital and Plant Health Royal Botanic Gardens, Kew, Richmond, Surrey, UK
119 Biodiversity Dynamics, Naturalis Biodiversity Center, Leiden, The Netherlands; Ecology & Biodiversity Group, Utrecht University, Padualaan 8, Utrecht, The Netherlands
120 Biodiversity Dynamics, Naturalis Biodiversity Center, Leiden, The Netherlands; Systems Ecology, Free University, Amsterdam, Netherlands