Mycobacterium tuberculosis – Heterogeneity Revealed Through Whole Genome Sequencing

Ford, Chris; Yusim, Karina; Ioerger, Tom; Feng, Shihai; Chase, Michael; Greene, Mary; Korber, Bette; Fortune, Sarah

doi:10.1016/j.tube.2011.11.003

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Mycobacterium tuberculosis – Heterogeneity Revealed Through Whole Genome Sequencing

Published Date:

Jan 03 2012

Publisher's site:

http://dx.doi.org/10.1016/j.tube.2011.11.003 New Site Icon

Source:

Tuberculosis (Edinb). 2011; 92(3):194-201.

[PDF - 845.79 KB]

Details:

Personal Authors:

Ford, Chris ; Yusim, Karina ; Ioerger, Tom ; Feng, Shihai ; Chase, Michael ; ... More ▼

Keywords:

[+]

Pubmed ID:

22218163

Pubmed Central ID:

PMC3323677

Description:

The emergence of whole genome sequencing (WGS) technologies as primary research tools has allowed for the detection of genetic diversity in Mycobacterium tuberculosis (Mtb) with unprecedented resolution. WGS has been used to address a broad range of topics, including the dynamics of evolution, transmission and treatment. Here, we have analyzed 55 publically available genomes to reconstruct the phylogeny of Mtb, and we have addressed complications that arise during the analysis of publically available WGS data. Additionally, we have reviewed the application of WGS to the study of Mtb and discuss those areas still to be addressed, moving from global (phylogeography), to local (transmission chains and circulating strain diversity), to the single patient (clonal heterogeneity) and to the bacterium itself (evolutionary studies). Finally, we discuss the current WGS approaches, their strengths and limitations.

Document Type:

Journal Article

Collection(s):

CDC Public Access

Funding:

1DP20D001378/DP/NCCDPHP CDC HHS/United States
DP2 OD001378/OD/NIH HHS/United States
DP2 OD001378-01/OD/NIH HHS/United States
DP2 OD001378-01S1/OD/NIH HHS/United States
U19 AI076217/AI/NIAID NIH HHS/United States
U19 AI076217/AI/NIAID NIH HHS/United States
U19 AI076217-04/AI/NIAID NIH HHS/United States

Supporting Files:

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nihms-345909.nxml	application/octet-stream

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