Whole-genome-based Mycobacterium tuberculosis surveillance: a standardized, portable, and expandable approach.

ABSTRACT: Whole-genome sequencing (WGS) allows for effective tracing of Mycobacterium tuberculosis complex (MTBC) (tuberculosis pathogens) transmission. However, it is difficult to standardize and, therefore, is not yet employed for interlaboratory prospective surveillance. To allow its widespread application, solutions for data standardization and storage in an easily expandable database are urgently needed. To address this question, we developed a core genome multilocus sequence typing (cgMLST) scheme for clinical MTBC isolates using the Ridom SeqSphere(+) software, which transfers the genome-wide single nucleotide polymorphism (SNP) diversity into an allele numbering system that is standardized, portable, and not computationally intensive. To test its performance, we performed WGS analysis of 26

SUBMITTER: Kohl TA 

PROVIDER: S-EPMC4097744 | biostudies-literature | 2014 Jul

REPOSITORIES: biostudies-literature