A bioinformatics pipeline for high-throughput microbial multilocus sequence typing (MLST) analyses

Steven Platt, Bruno Pichon, Robert George, J. Green

Research output: Contribution to journalArticlepeer-review

14 Citations (Scopus)

Abstract

Multilocus sequence typing (MLST) analysis for semi-routine applications is hindered by the downstream, manually intensive steps of processing the raw sequence data files. This report describes the development of an MLST pipeline that automates DNA sequence editing and analysis in order to significantly reduce the time required for processing data. Validation using a pneumococcal dataset revealed complete agreement between the results generated by manual and automated workflows. The MLST pipeline was developed for both double-strand and single-strand sequencing.

Original languageEnglish
Pages (from-to)1144-1146
Number of pages3
JournalClinical Microbiology and Infection
Volume12
Issue number11
DOIs
Publication statusPublished - Nov 2006

Keywords

  • Analysis
  • DNA sequence editing
  • Datafiles
  • Multilocus sequence typing
  • Sequencing
  • Typing

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