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Updated: Jun 30, 2026

Phage Phenomics: Physiological Approaches to Characterize Novel Viral Proteins
09:40

Phage Phenomics: Physiological Approaches to Characterize Novel Viral Proteins

Published on: June 11, 2015

Programmatic access to ICTV virus taxonomy through a public ontology API.

Philippe Lieutaud1, James McLaughlin2, R Curtis Hendrickson3

  • 1European Viral Outbreak Response Alliance (EVORA); Unité des Virus Émergents (UVE), UMR 190, Aix Marseille Université, IRD 190, INSERM U1207, France.

Biorxiv : the Preprint Server for Biology
|June 29, 2026
PubMed
Summary

The International Committee on Taxonomy of Viruses (ICTV) now offers public API access to its virus taxonomy data. This enables seamless integration and data management for virology research and public health initiatives.

Keywords:
APIFAIR principlesICTVInteroperabilityOntologyVirus taxonomy

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Area of Science:

  • Virology
  • Bioinformatics
  • Taxonomy

Background:

  • The International Committee on Taxonomy of Viruses (ICTV) maintains the universal virus taxonomy, crucial for virology and public health.
  • Limited programmatic access to ICTV taxonomy hinders data integration, versioning, and interoperability across bioinformatics resources.

Purpose of the Study:

  • To develop a public and sustainable solution for programmatic access to ICTV virus taxonomy data.
  • To enhance data interoperability and support FAIR-aligned data management in virology.

Main Methods:

  • Transformed successive ICTV Master Species List (MSL) releases into a structured ontology.
  • Deployed the ontology as a unified representation via the Ontology Lookup Service (OLS).
  • Developed ICTV-NCBI mappings and helper libraries for integration into downstream systems.

Main Results:

  • Enabled public programmatic retrieval of current and historical viral taxon names, relationships, metadata, and persistent identifiers.
  • Established stable API endpoints for accessing ICTV taxonomy data.
  • Demonstrated a general strategy for transforming biological datasets into semantically enriched graph resources via public APIs.

Conclusions:

  • The developed framework provides unprecedented programmatic access to ICTV taxonomy, enhancing interoperability and reducing manual curation.
  • This work offers a reusable model for exposing biological datasets through scalable public APIs, benefiting virology and pandemic preparedness.