About Kaptive

Kaptive is a tool for bacterial surface polysaccharide locus typing and variant evaluation. It takes one or more pre-assembled genomes and for each finds the best matching locus from a reference database. References for Klebsiella pneumoniae species complex and Acinetobacter baumannii are available in Kaptive's web interface.

The reference databases are curated by Kelly Wyres (Monash University, Australia) and Johanna Kenyon (Queensland University of Technology, Australia). Please contact us if you have a novel locus that you would like to be included.

Citations

If you use Kaptive's web interface please cite the paper below along with the reference for the relevant locus database(s).

Wick RR, Heinz E, Holt KE and Wyres KL 2018.
Kaptive Web: user-friendly capsule and lipopolysaccharide serotype prediction for Klebsiella genomes. Journal of Clinical Microbiology: 56(6). e00197-18

K. pneumoniae species complex capsule (K) locus databases

Wyres KL, Wick RR, Gorrie C, Jenney A, Follador R, Thomson NR and Holt KE 2016.
Identification of Klebsiella capsule synthesis loci from whole genome data. Microbial Genomics doi: 10.1099/mgen.0.000102

K. pneumoniae species complex LPS (O) locus database

Wick RR, Heinz E, Holt KE and Wyres KL 2018.
Kaptive Web: user-friendly capsule and lipopolysaccharide serotype prediction for Klebsiella genomes. Journal of Clinical Microbiology: 56(6). e00197-18

A. baumannii capsule (K) and LPS (OC) locus databases

Wyres KL, Cahill SM, Holt KE, Hall RM and Kenyon JJ 2019.
Identification of Acinetobacter baumannii loci for capsular polysaccharide (KL) and lipooligosaccharide outer core (OCL) synthesis in genome assemblies using curated reference databases compatible with Kaptive. Preprinted in bioRxiv

A full list of citations for the individual A. baumannii K- and OC- locus reference sequences can be found here.

Current database version (as of 11th Dec 2019): Kaptive v0.7.0







Get Started

Kaptive team

Kaptive on GitHub

Kaptive is an open source project for the biomedical community, licensed under GNU General Public License version 3.

Kaptive is developed and maintained by Kelly Wyres, Ryan Wick and Kathryn Holt at the Holt Lab, Monash University.

The command line version of Kaptive can be deployed on your computer with Klebsiella or A. baumannii K-locus, O/OC-locus or other databases.

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