title: NGMASTER:in silicomulti-antigen sequence typing forNeisseria 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 asListeria monocytogenesandSalmonella enterica, the use of WGS is still limited for other organisms, such asNeisseria gonorrhoeae. Multi-antigen sequence typing (NG-MAST) is the most widely performed typing method for epidemiological surveillance of gonorrhoea. Here, we presentNGMASTER,a command-line software tool for performingin silicoNG-MAST on assembled genome data.NGMASTERrapidly 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.
authors.affiliation: 2​Department of Microbiology & Immunology, University of Melbourne, at the Peter Doherty Institute for Infection & Immunity, Melbourne, Australia.|1​Doherty Applied Microbial Genomics, Department of Microbiology & Immunology, University of Melbourne, at the Peter Doherty Institute for Infection & Immunity, Melbourne, Australia.|3​Microbiological Diagnostic Unit Public Health Laboratory, University of Melbourne, at the Peter Doherty Institute for Infection & Immunity, Melbourne, Australia.
authors.forename: Jason C
authors.initials: JC
authors.lastname: Kwong
authors.affiliation: 1​Doherty Applied Microbial Genomics, Department of Microbiology & Immunology, University of Melbourne, at the Peter Doherty Institute for Infection & Immunity, Melbourne, Australia.|3​Microbiological Diagnostic Unit Public Health Laboratory, University of Melbourne, at the Peter Doherty Institute for Infection & Immunity, Melbourne, Australia.
authors.forename: Anders
authors.initials: A
authors.lastname: Gonçalves da Silva
authors.affiliation: 4​Institute of Environmental Science and Research, Wellington, New Zealand.
authors.forename: Kristin
authors.initials: K
authors.lastname: Dyet
authors.affiliation: 3​Microbiological Diagnostic Unit Public Health Laboratory, University of Melbourne, at the Peter Doherty Institute for Infection & Immunity, Melbourne, Australia.
authors.forename: Deborah A
authors.initials: DA
authors.lastname: Williamson
authors.affiliation: 1​Doherty Applied Microbial Genomics, Department of Microbiology & Immunology, University of Melbourne, at the Peter Doherty Institute for Infection & Immunity, Melbourne, Australia.|2​Department of Microbiology & Immunology, University of Melbourne, at the Peter Doherty Institute for Infection & Immunity, Melbourne, Australia.
authors.forename: Timothy P
authors.initials: TP
authors.lastname: Stinear
authors.affiliation: 1​Doherty Applied Microbial Genomics, Department of Microbiology & Immunology, University of Melbourne, at the Peter Doherty Institute for Infection & Immunity, Melbourne, Australia.|2​Department of Microbiology & Immunology, University of Melbourne, at the Peter Doherty Institute for Infection & Immunity, Melbourne, Australia.|3​Microbiological Diagnostic Unit Public Health Laboratory, University of Melbourne, at the Peter Doherty Institute for Infection & Immunity, Melbourne, Australia.
authors.forename: Benjamin P
authors.initials: BP
authors.lastname: Howden
authors.affiliation: 1​Doherty Applied Microbial Genomics, Department of Microbiology & Immunology, University of Melbourne, at the Peter Doherty Institute for Infection & Immunity, Melbourne, Australia.|5​Victorian Life Sciences Computation Initiative, University of Melbourne, Carlton, Australia.
authors.forename: Torsten
authors.initials: T
authors.lastname: Seemann
mesh_terms: D015373:Bacterial Typing Techniques / Q000379:methods*; D016680:Genome, Bacterial / Q000235:genetics*; D009344:Neisseria gonorrhoeae / Q000235:genetics*; D017422:Sequence Analysis, DNA; D012984:Software
keywords: In silico typing; Multi-antigen sequence typing; NG-MAST; Neisseria gonorrhoeae; Whole-genome sequencing