Developing a vocabulary and ontology for modeling insect natural history data: example data, use cases, and competency questions.

biodiversity informatics data modeling insects natural history ontology

Journal

Biodiversity data journal
ISSN: 1314-2828
Titre abrégé: Biodivers Data J
Pays: Bulgaria
ID NLM: 101619899

Informations de publication

Date de publication:
2019
Historique:
received: 24 01 2019
accepted: 28 02 2019
entrez: 29 3 2019
pubmed: 29 3 2019
medline: 29 3 2019
Statut: epublish

Résumé

Insects are possibly the most taxonomically and ecologically diverse class of multicellular organisms on Earth. Consequently, they provide nearly unlimited opportunities to develop and test ecological and evolutionary hypotheses. Currently, however, large-scale studies of insect ecology, behavior, and trait evolution are impeded by the difficulty in obtaining and analyzing data derived from natural history observations of insects. These data are typically highly heterogeneous and widely scattered among many sources, which makes developing robust information systems to aggregate and disseminate them a significant challenge. As a step towards this goal, we report initial results of a new effort to develop a standardized vocabulary and ontology for insect natural history data. In particular, we describe a new database of representative insect natural history data derived from multiple sources (but focused on data from specimens in biological collections), an analysis of the abstract conceptual areas required for a comprehensive ontology of insect natural history data, and a database of use cases and competency questions to guide the development of data systems for insect natural history data. We also discuss data modeling and technology-related challenges that must be overcome to implement robust integration of insect natural history data.

Identifiants

pubmed: 30918448
doi: 10.3897/BDJ.7.e33303
pii: 33303
pmc: PMC6426826
doi:

Types de publication

Journal Article

Langues

eng

Pagination

e33303

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Auteurs

Brian J Stucky (BJ)

Florida Museum of Natural History, University of Florida, Gainesville, FL, United States of America Florida Museum of Natural History, University of Florida Gainesville, FL United States of America.

James P Balhoff (JP)

Renaissance Computing Institute, University of North Carolina, Chapel Hill, NC, United States of America Renaissance Computing Institute, University of North Carolina Chapel Hill, NC United States of America.

Narayani Barve (N)

Florida Museum of Natural History, University of Florida, Gainesville, FL, United States of America Florida Museum of Natural History, University of Florida Gainesville, FL United States of America.

Vijay Barve (V)

Florida Museum of Natural History, University of Florida, Gainesville, FL, United States of America Florida Museum of Natural History, University of Florida Gainesville, FL United States of America.

Laura Brenskelle (L)

Florida Museum of Natural History, University of Florida, Gainesville, FL, United States of America Florida Museum of Natural History, University of Florida Gainesville, FL United States of America.

Matthew H Brush (MH)

Oregon Health and Science University, Portland, OR, United States of America Oregon Health and Science University Portland, OR United States of America.

Gregory A Dahlem (GA)

Department of Biological Sciences, Northern Kentucky University, Highland Heights, KY, United States of America Department of Biological Sciences, Northern Kentucky University Highland Heights, KY United States of America.

James D J Gilbert (JDJ)

Department of Biological and Marine Sciences, University of Hull, Hull, United Kingdom Department of Biological and Marine Sciences, University of Hull Hull United Kingdom.

Akito Y Kawahara (AY)

Florida Museum of Natural History, University of Florida, Gainesville, FL, United States of America Florida Museum of Natural History, University of Florida Gainesville, FL United States of America.
Entomology and Nematology Department, University of Florida, Gainesville, FL, United States of America Entomology and Nematology Department, University of Florida Gainesville, FL United States of America.

Oliver Keller (O)

Entomology and Nematology Department, University of Florida, Gainesville, FL, United States of America Entomology and Nematology Department, University of Florida Gainesville, FL United States of America.

Andrea Lucky (A)

Entomology and Nematology Department, University of Florida, Gainesville, FL, United States of America Entomology and Nematology Department, University of Florida Gainesville, FL United States of America.

Peter J Mayhew (PJ)

Department of Biology, University of York, York, United Kingdom Department of Biology, University of York York United Kingdom.

David Plotkin (D)

Florida Museum of Natural History, University of Florida, Gainesville, FL, United States of America Florida Museum of Natural History, University of Florida Gainesville, FL United States of America.

Katja C Seltmann (KC)

Florida Museum of Natural History, University of Florida, Gainesville, FL, United States of America Florida Museum of Natural History, University of Florida Gainesville, FL United States of America.
Renaissance Computing Institute, University of North Carolina, Chapel Hill, NC, United States of America Renaissance Computing Institute, University of North Carolina Chapel Hill, NC United States of America.
Oregon Health and Science University, Portland, OR, United States of America Oregon Health and Science University Portland, OR United States of America.
Department of Biological Sciences, Northern Kentucky University, Highland Heights, KY, United States of America Department of Biological Sciences, Northern Kentucky University Highland Heights, KY United States of America.
Department of Biological and Marine Sciences, University of Hull, Hull, United Kingdom Department of Biological and Marine Sciences, University of Hull Hull United Kingdom.
Entomology and Nematology Department, University of Florida, Gainesville, FL, United States of America Entomology and Nematology Department, University of Florida Gainesville, FL United States of America.
Department of Biology, University of York, York, United Kingdom Department of Biology, University of York York United Kingdom.
Florida Department of Agriculture and Consumer Services, Gainesville, FL, United States of America Florida Department of Agriculture and Consumer Services Gainesville, FL United States of America.
Bio5 and CyVerse, University of Arizona, Tucson, AZ, United States of America Bio5 and CyVerse, University of Arizona Tucson, AZ United States of America.
Species File Group, Illinois Natural History Survey, University of Illinois, Champaign, IL, United States of America Species File Group, Illinois Natural History Survey, University of Illinois Champaign, IL United States of America.

Elijah Talamas (E)

Florida Department of Agriculture and Consumer Services, Gainesville, FL, United States of America Florida Department of Agriculture and Consumer Services Gainesville, FL United States of America.

Gaurav Vaidya (G)

Florida Museum of Natural History, University of Florida, Gainesville, FL, United States of America Florida Museum of Natural History, University of Florida Gainesville, FL United States of America.

Ramona Walls (R)

Bio5 and CyVerse, University of Arizona, Tucson, AZ, United States of America Bio5 and CyVerse, University of Arizona Tucson, AZ United States of America.

Matt Yoder (M)

Species File Group, Illinois Natural History Survey, University of Illinois, Champaign, IL, United States of America Species File Group, Illinois Natural History Survey, University of Illinois Champaign, IL United States of America.

Guanyang Zhang (G)

Florida Museum of Natural History, University of Florida, Gainesville, FL, United States of America Florida Museum of Natural History, University of Florida Gainesville, FL United States of America.

Rob Guralnick (R)

Florida Museum of Natural History, University of Florida, Gainesville, FL, United States of America Florida Museum of Natural History, University of Florida Gainesville, FL United States of America.

Classifications MeSH