Details:

Alternative Title:
Tuberculosis (Edinb)
Personal Author:
Ford, Chris ; Yusim, Karina ; Ioerger, Tom ; Feng, Shihai ; Chase, Michael ; ... More +
Ford, Chris ; Yusim, Karina ; Ioerger, Tom ; Feng, Shihai ; Chase, Michael ; Greene, Mary ; Korber, Bette ; Fortune, Sarah Less -
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.
Subject:
[+]
Article
Bacterial Typing Techniques
Databases, Nucleic Acid
Evolution
Genetic Variation
Genome, Bacterial
Heterogeneity
Humans
Mycobacterium Tuberculosis
Phylogeny
Polymorphism, Single Nucleotide
Sequence Analysis, DNA
Tuberculosis
Whole Genome Sequencing

Source:
Tuberculosis (Edinb). 2011; 92(3):194-201
Pubmed ID:
22218163
Pubmed Central ID:
PMC3323677
Document Type:
Journal Article
Funding:
1DP20D001378/DP/NCCDPHP CDC HHS/United States ; U19 AI076217/AI/NIAID NIH HHS/United States ; DP2 OD001378/OD/NIH HHS/United States ; DP2 OD001378-01S1/OD/NIH HHS/United States ; DP2 OD001378-01/OD/NIH HHS/United States ; ... More +
1DP20D001378/DP/NCCDPHP CDC HHS/United States ; U19 AI076217/AI/NIAID NIH HHS/United States ; DP2 OD001378/OD/NIH HHS/United States ; DP2 OD001378-01S1/OD/NIH HHS/United States ; DP2 OD001378-01/OD/NIH HHS/United States ; U19 AI076217-04/AI/NIAID NIH HHS/United States Less -
Collection(s):
CDC Public Access
Main Document Checksum:
[+]
urn:sha256:0898944c653c642b8f7610aee6a15f2f28907f0f70032253ca41b6452e945063
File Type:

Supporting Files

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