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CARD 2017: expansion and model-centric curation of the comprehensive antibiotic resistance database

Baofeng Jia1, Amogelang R Raphenya1, Brian Alcock1

  • 1M.G. DeGroote Institute for Infectious Disease Research, Department of Biochemistry and Biomedical Sciences, DeGroote School of Medicine, McMaster University, Hamilton, Ontario L8S 4K1, Canada.

Nucleic Acids Research
|October 30, 2016
PubMed

Insights

The Comprehensive Antibiotic Resistance Database (CARD) provides curated data on antimicrobial resistance (AMR) genes and mutations. It supports genome analysis tools for predicting AMR, aiding in the detection of resistance threats.

Area of Science:

  • Microbiology
  • Genomics
  • Bioinformatics

Background:

  • Antimicrobial resistance (AMR) poses a significant global health threat.
  • Understanding the molecular basis of AMR is crucial for developing new diagnostics and therapeutics.
  • Existing resources for AMR data require comprehensive, structured, and up-to-date information.

Purpose of the Study:

  • To present the Comprehensive Antibiotic Resistance Database (CARD) as a high-quality, manually curated resource for AMR data.
  • To highlight the ontological structure and model-centric design of CARD, facilitating data sharing and analysis.
  • To detail recent improvements and new features of CARD, including enhanced genome analysis tools and AMR detection models.

Main Methods:

  • Manual curation of scientific literature to gather data on AMR genes, proteins, and mutations.
  • Development and utilization of the Antibiotic Resistance Ontology (ARO) for structured data organization.
  • Integration of AMR detection models and tools like the Resistance Gene Identifier (RGI) for genome sequence analysis.
  • Monthly updates incorporating literature curation, text mining, and genome analysis.

Main Results:

  • CARD provides a comprehensive, ontologically structured resource on the molecular basis of AMR.
  • The Antibiotic Resistance Ontology (ARO) enables advanced data sharing and organization.
  • Novel genome analysis tools, including the Resistance Gene Identifier (RGI), are powered by CARD data.
  • Recent updates include expanded reference sequences, mutations, AMR detection models, and improved RGI capabilities for emergent threats.

Conclusions:

  • CARD is a valuable, continuously updated resource for researchers studying antimicrobial resistance.
  • The database and its associated tools facilitate the prediction and detection of AMR, including emergent threats.
  • CARD's structured approach and advanced tools support the development of novel strategies to combat AMR.

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