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NGMASTER:in silico multi-antigen sequence typing for Neisseria gonorrhoeae.


ABSTRACT: Whole-genome sequencing (WGS) provides the highest resolution analysis for comparison of bacterial isolates in public health microbiology. However, although increasingly being used routinely for some pathogens such as Listeria monocytogenes and Salmonella enterica, the use of WGS is still limited for other organisms, such as Neisseria gonorrhoeae. Multi-antigen sequence typing (NG-MAST) is the most widely performed typing method for epidemiological surveillance of gonorrhoea. Here, we present NGMASTER, a command-line software tool for performing in silico NG-MAST on assembled genome data. NGMASTER rapidly and accurately determined the NG-MAST of 630 assembled genomes, facilitating comparisons between WGS and previously published gonorrhoea epidemiological studies. The source code and user documentation are available at https://github.com/MDU-PHL/ngmaster.

SUBMITTER: Kwong JC 

PROVIDER: S-EPMC5320595 | biostudies-literature | 2016 Aug

REPOSITORIES: biostudies-literature

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<i>NGMASTER:</i><i>in silico</i> multi-antigen sequence typing for <i>Neisseria gonorrhoeae</i>.

Kwong Jason C JC   Gonçalves da Silva Anders A   Dyet Kristin K   Williamson Deborah A DA   Stinear Timothy P TP   Howden Benjamin P BP   Seemann Torsten T  

Microbial genomics 20160825 8


Whole-genome sequencing (WGS) provides the highest resolution analysis for comparison of bacterial isolates in public health microbiology. However, although increasingly being used routinely for some pathogens such as <i>Listeria monocytogenes</i> and <i>Salmonella enterica</i>, the use of WGS is still limited for other organisms, such as <i>Neisseria gonorrhoeae</i>. Multi-antigen sequence typing (NG-MAST) is the most widely performed typing method for epidemiological surveillance of gonorrhoea  ...[more]

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