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Kaptive specifications

Information


Unique identifier OMICS_27932
Name Kaptive
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

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Documentation


Maintainers


  • person_outline Ryan Wick
  • person_outline Kathryn Holt
  • person_outline Eva Heinz
  • person_outline Kelly Wyres

Information


Unique identifier OMICS_27932
Name Kaptive
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages Python
Computer skills Advanced
Stability Stable
Maintained Yes

Download


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Versioning


No version available

Documentation


Maintainers


  • person_outline Ryan Wick
  • person_outline Kathryn Holt
  • person_outline Eva Heinz
  • person_outline Kelly Wyres

Publications for Kaptive

Kaptive citations

 (7)
library_books

Comparative Genomic Analysis of a Clinical Isolate of Klebsiella quasipneumoniae subsp. similipneumoniae, a KPC 2 and OKP B 6 Beta Lactamases Producer Harboring Two Drug Resistance Plasmids from Southeast Brazil

2018
Front Microbiol
PMCID: 5820359
PMID: 29503635
DOI: 10.3389/fmicb.2018.00220

[…] train A60136 (p60136), and E. coli (IncQ pRSF1010) by BLASTn. The genomic context of the highly similar genes to pKQPS142b were obtained using the Gview program (Petkau et al., ), with manual editing.Kaptive tool (Wyres et al., ) was used for classification of capsular loci (cps cluster) and wzi and wzc allele typing was performed by querying the predicted nucleotides sequences of both genes again […]

library_books

Evaluating Different Virulence Traits of Klebsiella pneumoniae Using Dictyostelium discoideum and Zebrafish Larvae as Host Models

2018
PMCID: 5811510
PMID: 29479519
DOI: 10.3389/fcimb.2018.00030

[…] is and multiple alignment using the platforms Artemis, ProgressiveMauve, and NCBI BLAST, as described previously (Marcoleta et al., ). The identification of capsule synthesis loci was performed using Kaptive (Wyres et al., ) and Kleborate (Lam et al., in review). The identification of genes related to yersiniabactin, colibactin, salmochelin and other siderophore production systems was done used th […]

library_books

Genome analysis of clinical multilocus sequence Type 11 Klebsiella pneumoniae from China

2018
Microb Genom
PMCID: 5857376
PMID: 29424684
DOI: 10.1099/mgen.0.000149

[…] ared with seven other closed genomes, ATCC BAA-2146, NJST258_1, NJST258_2, NTUH-K2044, MGH78578, CG43 and KCTC2242, using the blast Ring Image Generator (BRIG) []. Capsular typing was performed using Kaptive []. Comparison of the cps locus was conducted by using EasyFig []. Plasmid homology search was performed for the plasmid pKPGD4 harbored by strain GD4 using blastn on NCBI's nucleotide collect […]

library_books

Exploring the Genome and Phenotype of Multi Drug Resistant Klebsiella pneumoniae of Clinical Origin

2017
Front Microbiol
PMCID: 5660112
PMID: 29109700
DOI: 10.3389/fmicb.2017.01913

[…] Cock et al., ). Multilocus sequence typing (MLST) was performed in silico using the K. pneumoniae database available from Pasteur Institute (http://www.pasteur.fr/mlst). K-loci were identified using Kaptive (Wyres et al., ).Raw sequencing data has been deposited in the SRA under the BioProject PRJNA396729, Table indicates the SRA number for each isolate.Amino acid substitutions in the quinolone […]

library_books

Abundance and co occurrence of extracellular capsules increase environmental breadth: Implications for the emergence of pathogens

2017
PLoS Pathog
PMCID: 5542703
PMID: 28742161
DOI: 10.1371/journal.ppat.1006525

[…] chaeal genomes and is thus complementary to software designed to analyze very specific capsule systems, e.g., the recently released Blast-based tool to identify capsular serotypes in Klebsiella spp. (Kaptive, []). The models in CapsuleFinder can be modified to either increase specificity (obtain systems closer to the experimental models) or sensitivity (to detect more distantly related systems). T […]

library_books

Population Genomic Analysis of 1,777 Extended Spectrum Beta Lactamase Producing Klebsiella pneumoniae Isolates, Houston, Texas: Unexpected Abundance of Clonal Group 307

2017
MBio
PMCID: 5433097
PMID: 28512093
DOI: 10.1128/mBio.00489-17

[…] have been identified (, ). Recently, Holt et al. () proposed a new nomenclature for capsule locus genotyping (KL type) that encompasses the diversity of the known locus and described a software tool (Kaptive) for capsule locus genotyping. Using Kaptive, we identified 72 unique KL capsule locus types and potential novel variants (see ). The two most common KL capsule locus types among CG258 strains […]

Citations

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Kaptive institution(s)
Department of Biochemistry and Molecular Biology, Bio21 Molecular Science and Biotechnology Institute, University of Melbourne, VIC, Australia; Wellcome Trust Sanger Institute, Hinxton, UK
Kaptive funding source(s)
Supported by the eResearch group at the University of Melbourne.

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