CARD 2017: Expansion and Model-centric Curation of the Comprehensive Antibiotic Resistance Database

Overview

Journal Nucleic Acids Res

Publisher Oxford University Press

Specialty Biochemistry

Date 2016 Oct 30

PMID 27789705

Citations 1175

Authors

Baofeng Jia

Amogelang R Raphenya

Brian Alcock

Nicholas Waglechner

Peiyao Guo

Kara K Tsang

Briony A Lago

Biren M Dave

Sheldon Pereira

Arjun N Sharma

Sachin Doshi

Melanie Courtot

Raymond Lo

Laura E Williams

Jonathan G Frye

Tariq Elsayegh

Daim Sardar

Erin L Westman

Andrew C Pawlowski

Timothy A Johnson

Fiona S L Brinkman

Gerard D Wright

Andrew G McArthur

Affiliations

Soon will be listed here.

Abstract

The Comprehensive Antibiotic Resistance Database (CARD; http://arpcard.mcmaster.ca) is a manually curated resource containing high quality reference data on the molecular basis of antimicrobial resistance (AMR), with an emphasis on the genes, proteins and mutations involved in AMR. CARD is ontologically structured, model centric, and spans the breadth of AMR drug classes and resistance mechanisms, including intrinsic, mutation-driven and acquired resistance. It is built upon the Antibiotic Resistance Ontology (ARO), a custom built, interconnected and hierarchical controlled vocabulary allowing advanced data sharing and organization. Its design allows the development of novel genome analysis tools, such as the Resistance Gene Identifier (RGI) for resistome prediction from raw genome sequence. Recent improvements include extensive curation of additional reference sequences and mutations, development of a unique Model Ontology and accompanying AMR detection models to power sequence analysis, new visualization tools, and expansion of the RGI for detection of emergent AMR threats. CARD curation is updated monthly based on an interplay of manual literature curation, computational text mining, and genome analysis.

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