A gross anatomy ontology for hymenoptera

Matthew J. Yoder, István Mikó, Katja C. Seltmann, Matthew A. Bertone, Andrew R. Deans

Research output: Contribution to journalArticle

Abstract

Hymenoptera is an extraordinarily diverse lineage, both in terms of species numbers and morphotypes, that includes sawflies, bees, wasps, and ants. These organisms serve critical roles as herbivores, predators, parasitoids, and pollinators, with several species functioning as models for agricultural, behavioral, and genomic research. The collective anatomical knowledge of these insects, however, has been described or referred to by labels derived from numerous, partially overlapping lexicons. The resulting corpus of information-millions of statements about hymenopteran phenotypes- remains inaccessible due to language discrepancies. The Hymenoptera Anatomy Ontology (HAO) was developed to surmount this challenge and to aid future communication related to hymenopteran anatomy. The HAO was built using newly developed interfaces within mx, a Web-based, open source software package, that enables collaborators to simultaneously contribute to an ontology. Over twenty people contributed to the development of this ontology by adding terms, genus differentia, references, images, relationships, and annotations. The database interface returns an Open Biomedical Ontology (OBO) formatted version of the ontology and includes mechanisms for extracting candidate data and for publishing a searchable ontology to the Web. The application tools are subject-agnostic and may be used by others initiating and developing ontologies. The present core HAO data constitute 2,111 concepts, 6,977 terms (labels for concepts), 3,152 relations, 4,361 sensus (links between terms, concepts, and references) and over 6,000 text and graphical annotations. The HAO is rooted with the Common Anatomy Reference Ontology (CARO), in order to facilitate interoperability with and future alignment to other anatomy ontologies, and is available through the OBO Foundry ontology repository and BioPortal. The HAO provides a foundation through which connections between genomic, evolutionary developmental biology, phylogenetic, taxonomic, and morphological research can be actualized. Inherent mechanisms for feedback and content delivery demonstrate the effectiveness of remote, collaborative ontology development and facilitate future refinement of the HAO.

Original languageEnglish (US)
Article numbere15991
JournalPloS one
Volume5
Issue number12
DOIs
StatePublished - Dec 1 2010
Externally publishedYes

Fingerprint

Hymenoptera
Ontology
Anatomy
Biological Ontologies
genomics
sawflies
pollinating insects
Behavioral Research
Developmental Biology
Wasps
Herbivory
animal communication
Ants
parasitoids
Bees
Apoidea
Formicidae
herbivores
Interfaces (computer)
Labels

ASJC Scopus subject areas

  • Biochemistry, Genetics and Molecular Biology(all)
  • Agricultural and Biological Sciences(all)
  • General

Cite this

Yoder, M. J., Mikó, I., Seltmann, K. C., Bertone, M. A., & Deans, A. R. (2010). A gross anatomy ontology for hymenoptera. PloS one, 5(12), [e15991]. https://doi.org/10.1371/journal.pone.0015991

A gross anatomy ontology for hymenoptera. / Yoder, Matthew J.; Mikó, István; Seltmann, Katja C.; Bertone, Matthew A.; Deans, Andrew R.

In: PloS one, Vol. 5, No. 12, e15991, 01.12.2010.

Research output: Contribution to journalArticle

Yoder, MJ, Mikó, I, Seltmann, KC, Bertone, MA & Deans, AR 2010, 'A gross anatomy ontology for hymenoptera', PloS one, vol. 5, no. 12, e15991. https://doi.org/10.1371/journal.pone.0015991
Yoder MJ, Mikó I, Seltmann KC, Bertone MA, Deans AR. A gross anatomy ontology for hymenoptera. PloS one. 2010 Dec 1;5(12). e15991. https://doi.org/10.1371/journal.pone.0015991
Yoder, Matthew J. ; Mikó, István ; Seltmann, Katja C. ; Bertone, Matthew A. ; Deans, Andrew R. / A gross anatomy ontology for hymenoptera. In: PloS one. 2010 ; Vol. 5, No. 12.
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