Journal article
Pan-genome analysis provides much higher strain typing resolution than multi-locus sequence typing
Microbiology (Society for General Microbiology), v 156(Pt 4), pp 1060-1068
Apr 2010
PMID: 20019077
Featured in Collection : UN Sustainable Development Goals @ Drexel
Abstract
The most widely used DNA-based method for bacterial strain typing, multi-locus sequence typing (MLST), lacks sufficient resolution to distinguish among many bacterial strains within a species. Here, we show that strain typing based on the presence or absence of distributed genes is able to resolve all completely sequenced genomes of six bacterial species. This was accomplished by the development of a clustering method, neighbour grouping, which is completely consistent with the lower-resolution MLST method, but provides far greater resolving power. Because the presence/absence of distributed genes can be determined by low-cost microarray analyses, it offers a practical, high-resolution alternative to MLST that could provide valuable diagnostic and prognostic information for pathogenic bacterial species.
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Details
- Title
- Pan-genome analysis provides much higher strain typing resolution than multi-locus sequence typing
- Creators
- Barry G Hall - Bellingham Research Institute, 218 Chuckanut Point Rd, Bellingham, WA 98229, USAGarth D Ehrlich - Center for Genomic Sciences, Allegheny-Singer Research Institute, 320 East North Ave, Pittsburgh, PA 15212, USAFen Z Hu - Center for Genomic Sciences, Allegheny-Singer Research Institute, 320 East North Ave, Pittsburgh, PA 15212, USA
- Publication Details
- Microbiology (Society for General Microbiology), v 156(Pt 4), pp 1060-1068
- Publisher
- England
- Grant note
- DC 05659 / NIDCD NIH HHS DC 02148 / NIDCD NIH HHS R01 DC004173 / NIDCD NIH HHS R01 DC005659 / NIDCD NIH HHS R01 DC002148 / NIDCD NIH HHS DC 04173 / NIDCD NIH HHS
- Resource Type
- Journal article
- Language
- English
- Academic Unit
- Microbiology and Immunology
- Web of Science ID
- WOS:000277699500011
- Scopus ID
- 2-s2.0-77950671568
- Other Identifier
- 991014878256104721
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- Web of Science research areas
- Microbiology