Clonality and micro-diversity of a nationwide spreading genotype of Mycobacterium tuberculosis in Japan

PloS One
T WadaTaro Yamamoto

Abstract

Mycobacterium tuberculosis transmission routes can be estimated from genotypic analysis of clinical isolates from patients. In Japan, still a middle-incidence country of TB, a unique genotype strain designated as 'M-strain' has been isolated nationwide recently. To ascertain the history of the wide spread of the strain, 10 clinical isolates from different areas were subjected to genome-wide analysis based on deep sequencers. Results show that all isolates possessed common mutations to those of referential strains. The greatest number of accumulated single nucleotide variants (SNVs) from the oldest coalescence was 13 nucleotides, indicating high clonality of these isolates. When an SNV common to the isolates was used as a surrogate marker of the clone, authentic clonal isolates with variation in a reliable subset of variable number of tandem repeat (VNTR) genotyping method can be selected successfully from clinical isolates populations of M. tuberculosis. When the authentic clones can also be assigned to sub-clonal groups by SNVs derived from the genomic comparison, they are classifiable into three sub-clonal groups with a bias of geographical origins. Feedback from genomic analysis of clinical isolates of M. tuberculosis to gen...Continue Reading

References

Apr 11, 1996·The New England Journal of Medicine·T A KenyonK G Castro
Aug 7, 1999·The Journal of Infectious Diseases·D van SoolingenJ D van Embden
Mar 13, 2003·Euro Surveillance : Bulletin Européen Sur Les Maladies Transmissibles = European Communicable Disease Bulletin·A VassiloyanakopoulosC Hadjichristodoulou
Oct 17, 2006·Clinical Microbiology Reviews·Barun MathemaBarry N Kreiswirth
Jun 21, 2008·Journal of Medical Microbiology·Yoshiro MuraseShinji Maeda
Oct 7, 2008·Nucleic Acids Research·T B K ReddyGary K Schoolnik
Dec 24, 2008·BMC Infectious Diseases·Horng-Yunn DouJang-Jih Lu
May 20, 2009·Bioinformatics·Heng Li, Richard Durbin
May 22, 2010·Tuberculosis·James E GalaganGary K Schoolnik
Jul 20, 2010·Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases·Olabisi O OjoMichael B Prentice
Feb 25, 2011·The New England Journal of Medicine·Jennifer L GardyPatrick Tang
May 15, 2012·Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases·Takayuki WadaShinji Maeda
Nov 20, 2012·The Lancet Infectious Diseases·Timothy M WalkerTim E A Peto
Feb 26, 2013·Clinical Microbiology and Infection : the Official Publication of the European Society of Clinical Microbiology and Infectious Diseases·T M WalkerT E A Peto
Feb 27, 2013·Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases·Noriko NakanishiTomotada Iwamoto
Mar 1, 2013·BMC Infectious Diseases·Josephine M BryantDick van Soolingen
Oct 18, 2013·Molecular Biology and Evolution·Koichiro TamuraSudhir Kumar
May 3, 2014·Journal of Clinical Microbiology·Thomas A KohlStefan Niemann

❮ Previous
Next ❯

Citations

Jul 30, 2015·Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases·Junji SetoTadayuki Ahiko
Feb 22, 2017·Emerging Infectious Diseases·Junji SetoTadayuki Ahiko

❮ Previous
Next ❯

Datasets Mentioned

BETA
AL123456.2
CCDC5079
CP001641.1

Methods Mentioned

BETA
genotyping
PCR

Software Mentioned

JATA
MEGA6

Related Concepts

Related Feeds

Aminoglycosides

Aminoglycoside is a medicinal and bacteriologic category of traditional Gram-negative antibacterial medications that inhibit protein synthesis and contain as a portion of the molecule an amino-modified glycoside. Discover the latest research on aminoglycoside here.

Aminoglycosides (ASM)

Aminoglycoside is a medicinal and bacteriologic category of traditional Gram-negative antibacterial medications that inhibit protein synthesis and contain as a portion of the molecule an amino-modified glycoside. Discover the latest research on aminoglycoside here.