Abstract

Species occurrence data are foundational for research, conservation, and science communication, but the limited availability and accessibility of reliable data represents a major obstacle, particularly for insects, which face mounting pressures. We present BeeBDC, a new R package, and a global bee occurrence dataset to address this issue. We combined >18.3 million bee occurrence records from multiple public repositories (GBIF, SCAN, iDigBio, USGS, ALA) and smaller datasets, then standardised, flagged, deduplicated, and cleaned the data using the reproducible BeeBDC R-workflow. Specifically, we harmonised species names (following established global taxonomy), country names, and collection dates and, we added record-level flags for a series of potential quality issues. These data are provided in two formats, “cleaned” and “flagged-but-uncleaned”. The BeeBDC package with online documentation provides end users the ability to modify filtering parameters to address their research questions. By publishing reproducible R workflows and globally cleaned datasets, we can increase the accessibility and reliability of downstream analyses. This workflow can be implemented for other taxa to support research and conservation.

Details

Title
A globally synthesised and flagged bee occurrence dataset and cleaning workflow
Author
Dorey, James B. 1   VIAFID ORCID Logo  ; Fischer, Erica E. 2   VIAFID ORCID Logo  ; Chesshire, Paige R. 3 ; Nava-Bolaños, Angela 4   VIAFID ORCID Logo  ; O’Reilly, Robert L. 1   VIAFID ORCID Logo  ; Bossert, Silas 5 ; Collins, Shannon M. 6 ; Lichtenberg, Elinor M. 6   VIAFID ORCID Logo  ; Tucker, Erika M. 7   VIAFID ORCID Logo  ; Smith-Pardo, Allan 8 ; Falcon-Brindis, Armando 9 ; Guevara, Diego A. 10 ; Ribeiro, Bruno 11 ; de Pedro, Diego 12 ; Pickering, John 13 ; Hung, Keng-Lou James 14 ; Parys, Katherine A. 15   VIAFID ORCID Logo  ; McCabe, Lindsie M. 16 ; Rogan, Matthew S. 17 ; Minckley, Robert L. 18 ; Velazco, Santiago J. E. 19 ; Griswold, Terry 16 ; Zarrillo, Tracy A. 20   VIAFID ORCID Logo  ; Jetz, Walter 17   VIAFID ORCID Logo  ; Sica, Yanina V. 17 ; Orr, Michael C. 21 ; Guzman, Laura Melissa 22 ; Ascher, John S. 23 ; Hughes, Alice C. 24 ; Cobb, Neil S. 25 

 Flinders University, College of Science and Engineering, Bedford Park, Australia (GRID:grid.1014.4) (ISNI:0000 0004 0367 2697) 
 King’s College London, Strand, Centre for the History of Science, Technology, and Medicine, Department of History, London, United Kingdom (GRID:grid.13097.3c) (ISNI:0000 0001 2322 6764) 
 Northern Arizona University, Department of Biological Sciences, Flagstaff, USA (GRID:grid.261120.6) (ISNI:0000 0004 1936 8040) 
 Universidad Nacional Autónoma de México, Boulevard Juriquilla, Jurica La Mesa, Juriquilla, Unidad Multidisciplinaria de Docencia e Investigación, Facultad de Ciencias, Campus Juriquilla, Querétaro, México (GRID:grid.9486.3) (ISNI:0000 0001 2159 0001) 
 Washington State University, Department of Entomology, Pullman, USA (GRID:grid.30064.31) (ISNI:0000 0001 2157 6568); Smithsonian Institution, Department of Entomology, National Museum of Natural History, Washington, USA (GRID:grid.1214.6) (ISNI:0000 0000 8716 3312) 
 University of North Texas, Department of Biological Sciences and Advanced Environmental Research Institute, Denton, USA (GRID:grid.266869.5) (ISNI:0000 0001 1008 957X) 
 Biodiversity Outreach Network, Flagstaff, USA (GRID:grid.266869.5) 
 Animal Plant Health Inspection Service (APHIS); Plant Protection and Quarantine (PPQ); Science and Technology (S&T); Pest Identification Technology laboratory (PITL) United States Department of Agriculture (USDA), St. Suite, Sacramento, USA (GRID:grid.413759.d) (ISNI:0000 0001 0725 8379) 
 University of Kentucky, University Dr, Department of Entomology, Research and Education Center, Lexington, USA (GRID:grid.266539.d) (ISNI:0000 0004 1936 8438) 
10  Universidad Nacionalde Colombia, Departamento de Biología, Bogotá, Colombia (GRID:grid.10689.36) (ISNI:0000 0004 9129 0751) 
11  Universidade Federal de Goiás, Goiânia, Av, Programa de Pós-graduação em Ecologia e Evolução, Esperança, Brazil (GRID:grid.411195.9) (ISNI:0000 0001 2192 5801) 
12  Ensenada Center for Scientific Research and Higher Education, Carr. Tijuana-Ensenada, Zona Playitas, Ensenada, Mexico (GRID:grid.462226.6) (ISNI:0000 0000 9071 1447) 
13  Discover Life, Athens, USA (GRID:grid.462226.6) 
14  University of Oklahoma, Oklahoma Biological Survey, Norman, USA (GRID:grid.266900.b) (ISNI:0000 0004 0447 0018) 
15  USDA ARS Pollinator Health in Southern Crop Ecosystems Research Unit, Stoneville, USA (GRID:grid.508985.9) 
16  USDA-ARS Pollinating Insects-Research Unit, Logan, USA (GRID:grid.508980.c) 
17  Yale University, Center for Biodiversity and Global Change, New Haven, USA (GRID:grid.47100.32) (ISNI:0000 0004 1936 8710); Yale University, Department of Ecology & Evolutionary Biology, New Haven, USA (GRID:grid.47100.32) (ISNI:0000 0004 1936 8710) 
18  University of Rochester, Department of Biology, Rochester, USA (GRID:grid.16416.34) (ISNI:0000 0004 1936 9174) 
19  Universidad Nacional de Misiones, Instituto de Biología Subtropical, Consejo Nacional de Investigaciones Científicas y Técnicas, Puerto Iguazú, Argentina (GRID:grid.412223.4) (ISNI:0000 0001 2179 8144) 
20  The Connecticut Agricultural Experiment Station, New Haven, USA (GRID:grid.421470.4) (ISNI:0000 0000 8788 3977) 
21  Entomologie, Staatliches Museum für Naturkunde Stuttgart, Rosenstein, Stuttgart, Baden, Germany (GRID:grid.437830.b) (ISNI:0000 0001 2176 2141); Chinese Academy of Sciences, Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Beijing, China (GRID:grid.9227.e) (ISNI:0000000119573309) 
22  University of Southern California, Marine and Environmental Biology, Department of Biological Sciences, Los Angeles, USA (GRID:grid.42505.36) (ISNI:0000 0001 2156 6853) 
23  National University of Singapore, Science Dr, Department of Biological Sciences, Singapore, Singapore (GRID:grid.4280.e) (ISNI:0000 0001 2180 6431) 
24  University of Hong Kong, School of Biological Sciences, Lung Fu Shan, Hong Kong (GRID:grid.194645.b) (ISNI:0000 0001 2174 2757) 
25  Biodiversity Outreach Network, Flagstaff, USA (GRID:grid.194645.b) 
Pages
747
Publication year
2023
Publication date
2023
Publisher
Nature Publishing Group
e-ISSN
20524463
Source type
Scholarly Journal
Language of publication
English
ProQuest document ID
2885386659
Copyright
© The Author(s) 2023. This work is published under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.