> For the complete documentation index, see [llms.txt](https://cgps.gitbook.io/pathogenwatch/llms.txt). Markdown versions of documentation pages are available by appending `.md` to page URLs; this page is available as [Markdown](https://cgps.gitbook.io/pathogenwatch/news-and-release-notes/release-notes-2025.md).

# Release Notes 2025

## v23.5.0 <a href="#v23.5.0" id="v23.5.0"></a>

*20th September*

#### **Fixed**

* [MLST](https://cgps.gitbook.io/pathogenwatch/technical-descriptions/typing-methods/mlst) profiles that include loci with no match - as indicated in PubMLST by a "0" - were not being assigned their correct numerical ST codes. This affected a small number of schemes, including *Enterococcus faecium*, where one of the loci used in the scheme is not always present. The output has been fixed and all genomes updated to the latest version.

#### **Updated**

* All MLST schemes were updated to 1st September 2025 and new assignments applied.

## v23.4.4 <a href="#v23.4.4" id="v23.4.4"></a>

*18th July*

#### **Fixed**

* Excel does not detect Unicode characters by default, and so was not displaying Kleborate and Kaptive CSV downloads correctly (other spreadsheet software appears to work correctly). These files now include an invisible marker character at the start to trigger the correct behaviour in Excel (and Office 365).

#### **Updated**

* [Kleborate](https://cgps.gitbook.io/pathogenwatch/technical-descriptions/typing-methods/kleborate) has been updated to v3.2.4 for all [Klebsiella](https://pathogen.watch/genomes/all?genusId=570).

## v23.4.2 <a href="#v23.4.2" id="v23.4.2"></a>

*18th July*

#### **Fixed**

* The Kleborate CSV download now correctly includes the values of the `num_resistance_classes` and `num_resistance_genes` fields.

## v23.4.1 <a href="#v23.4.1" id="v23.4.1"></a>

*9th July*

#### **Updated**

* [Kleborate](https://cgps.gitbook.io/pathogenwatch/technical-descriptions/typing-methods/kleborate) has been updated to [version v3.2.3](https://github.com/klebgenomics/Kleborate/releases/tag/v3.2.3) and the ciprofloxacin columns added to the CSV download. All Klebsiella genomes have been updated to the latest version.
* [Kaptive](https://cgps.gitbook.io/pathogenwatch/technical-descriptions/typing-methods/kaptive) has been updated to [version v3.1.0](https://github.com/klebgenomics/Kaptive/releases/tag/v3.1.0) and all *K. pneumoniae* complex, *K. oxytoca* complex and *A. baumanii* updated.

## v23.4.0 <a href="#v23.4.0" id="v23.4.0"></a>

*10th June*

#### **Fixed**

* The website build system, so that releases are correctly numbered again.

#### **Updated**

* *N. gonorrhoeae* NG-STAR assignments are now based on the original source classifications at <https://ngstar.canada.ca/>, which in effect changes the penA allele nomenclature to the community standard. The allele database was updated on 15th May 2025 and assignments have been updated for all genomes.
* *S. pneumoniae* serotype assignments have been updated to [SeroBA v2.0.4](https://hub.docker.com/r/sangerbentleygroup/seroba/tags).

## v23.3.0-0 <a href="#v23.3.0-0" id="v23.3.0-0"></a>

*9th May*

#### **Updated**

* *Klebsiella pneumoniae* complex [cgMLST](https://cgps.gitbook.io/pathogenwatch/technical-descriptions/typing-methods/cgmlst) profiles were downloaded from the [Pasteur](https://bigsdb.pasteur.fr/klebsiella/) on the 24th April 2025 and the current genomes updated to the latest assignments.
* The Klebsiella [LIN code](https://cgps.gitbook.io/pathogenwatch/technical-descriptions/typing-methods/klebsiella-lin-codes) profiles were also updated at the same time and the current genomes have been updated. The [LIN code search engine](https://github.com/pathogenwatch-oss/klebsiella-lincodes) was also improved and decoupled from the cgMLST updates, which will allow more frequent updates of LIN codes in Pathogenwatch.

## v23.2.0 <a href="#v23.2.0" id="v23.2.0"></a>

*28th February*

#### **Updated**

* Kleborate was updated to v3.1.3 and all Klebsiella genomes updated.

## v23.1.5 <a href="#v23.1.5" id="v23.1.5"></a>

*9th January*

#### **Fixed**

* OmpK variants in *Klebsiella pneumoniae* are now correctly reported when present in the AMR genotype download from the Collection Viewer.


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