Development of Kaptive databases for Vibrio parahaemolyticus O-and K-antigen genotyping
Vibrio parahaemolyticus is an important food-borne human pathogen and presents immunogenic surface polysaccharides, which can be used to distinguish problematic and disease-causing lineages. V. parahaemolyticus is divided in 16 O-serotypes (O-antigen) and 71 K-serotypes (K-antigen). Agglutination tests are still the gold standard for serotyping, but many V. parahaemolyticus isolates are not typable by agglutination. An alternative for agglutination tests is genotyping using whole-genome sequencing data, by which K-and O-genotypes have been curated and identified previously for other clinically relevant organisms with the software tool Kaptive. In this study, V. parahaemolyticus isolates were serotyped and sequenced, and all known and several novel O-and K-loci were identified. We developed Kaptive databases for all O-and K-loci after manual curation of the loci. In our study, we could genotype the O-and K-loci of 98 and 93% of the genomes, respectively, with a Kaptive confidence score higher than ‘none’. The newly developed Kaptive databases with the identified V. parahaemolyticus O-and K-loci can be used to identify the O-and K-genotypes of V. parahaemolyticus isolates from genome sequences.
| Main Authors: | , , , |
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| Format: | Article/Letter to editor biblioteca |
| Language: | English |
| Subjects: | K-locus, O-locus, Vibrio parahaemolyticus, genotyping, serotyping, whole-genome sequencing, |
| Online Access: | https://research.wur.nl/en/publications/development-of-kaptive-databases-for-vibrio-parahaemolyticus-o-an |
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| Summary: | Vibrio parahaemolyticus is an important food-borne human pathogen and presents immunogenic surface polysaccharides, which can be used to distinguish problematic and disease-causing lineages. V. parahaemolyticus is divided in 16 O-serotypes (O-antigen) and 71 K-serotypes (K-antigen). Agglutination tests are still the gold standard for serotyping, but many V. parahaemolyticus isolates are not typable by agglutination. An alternative for agglutination tests is genotyping using whole-genome sequencing data, by which K-and O-genotypes have been curated and identified previously for other clinically relevant organisms with the software tool Kaptive. In this study, V. parahaemolyticus isolates were serotyped and sequenced, and all known and several novel O-and K-loci were identified. We developed Kaptive databases for all O-and K-loci after manual curation of the loci. In our study, we could genotype the O-and K-loci of 98 and 93% of the genomes, respectively, with a Kaptive confidence score higher than ‘none’. The newly developed Kaptive databases with the identified V. parahaemolyticus O-and K-loci can be used to identify the O-and K-genotypes of V. parahaemolyticus isolates from genome sequences. |
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