# Kaptive

## About Kaptive

The Kaptive software from Lam et al provides assignment of locus types for surface polysaccharide loci for both the *Klebsiella pneumoniae* species complex and *Acinetobacter baumanii*.

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Visit the Kaptive Wiki for a complete description: <https://kaptive.readthedocs.io/en/latest/>

Alternatively a full tutorial is provided at: <http://bit.ly/kaptive-workshop>
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## Description

### Results

The assigned type and confidence are shown in the individual [Genome Reports](https://cgps.gitbook.io/pathogenwatch/how-to-use-pathogenwatch/genome-reports) and the [Typing table](https://cgps.gitbook.io/pathogenwatch/how-to-use-pathogenwatch/collection-view/the-metadata-tables/typing-results) in the [Collection view](https://cgps.gitbook.io/pathogenwatch/how-to-use-pathogenwatch/collection-view). Detailed CSV format files for Kaptive can be downloaded from the Genome List view.

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Kaptive is also run as part of Kleborate for the K. pneumoniae species complex. The results displayed on the website are taken directly from Kaptive, along with the complete output in the CSV. The Kleborate CSV download includes the output from it's own Kaptive search.
{% endhint %}

### Available Schemes

#### Acinetobacter baumanii

* **K typing:** [**Galac et al.** A diverse panel of clinical Acinetobacter baumannii for research and development. *Antimicrobial Agents and Chemotherapy* (2020)](https://journals.asm.org/doi/full/10.1128/AAC.00840-20)
* **OC typing:** [**Kenyon and Hall** Updated Analysis of the Surface Carbohydrate Gene Clusters in a Diverse Panel of Acinetobacter baumannii Isolates. *Antimicrobial Agents and Chemotherapy* (2021)](https://journals.asm.org/doi/10.1128/AAC.01807-21)

#### Klebsiella pneumoniae species complex

* **K typing:** [**Wyres&#x20;*****et al.*** Identification of Klebsiella capsule synthesis loci from whole genome data. Microbial Genomics (2016).](https://www.microbiologyresearch.org/content/journal/mgen/10.1099/mgen.0.000102)
* **O typing:** [**Wick&#x20;*****et al.*** Kaptive Web: user-friendly capsule and lipopolysaccharide serotype prediction for Klebsiella genomes. *Journal of Clinical Microbiology* (2018).](https://journals.asm.org/doi/10.1128/jcm.00197-18?permanently=true&)

## How to cite

* **Kaptive:** [***Lam et al.*** Kaptive 2.0: updated capsule and lipopolysaccharide locus typing for the Klebsiella pneumoniae species complex. *Microbial Genomics* (2022).](https://doi.org/10.1099/mgen.0.000800)