Molecular epidemiology of Mycobacterium tuberculosis in Gansu province of China

( views:218, downloads:0 )
Author:
TIAN Li-li(Lanzhou Center for Tuberculosis Research & Institute of Pathogenic Biology, School of Basic Medical Sciences, Lanzhou University, Lanzhou, Gansu 730000, China)
ZHU Bing-dong(Lanzhou Center for Tuberculosis Research & Institute of Pathogenic Biology, School of Basic Medical Sciences, Lanzhou University, Lanzhou, Gansu 730000, China)
SI Hong-yan(Center for Disease Prevention and Control of Gansu Province,Lanzhou, Gansu 730000, China)
MU Tao-jun(Center for Disease Prevention and Control of Gansu Province,Lanzhou, Gansu 730000, China)
FAN Wen-bing(Lanzhou Center for Tuberculosis Research & Institute of Pathogenic Biology, School of Basic Medical Sciences, Lanzhou University, Lanzhou, Gansu 730000, China)
WANG Jing(Lanzhou Center for Tuberculosis Research & Institute of Pathogenic Biology, School of Basic Medical Sciences, Lanzhou University, Lanzhou, Gansu 730000, China)
JIANG Wei-min(Lanzhou Center for Tuberculosis Research & Institute of Pathogenic Biology, School of Basic Medical Sciences, Lanzhou University, Lanzhou, Gansu 730000, China)
LI Qing(Center for Disease Prevention and Control of Gansu Province,Lanzhou, Gansu 730000, China)
YANG Biao(Lanzhou Center for Tuberculosis Research & Institute of Pathogenic Biology, School of Basic Medical Sciences, Lanzhou University, Lanzhou, Gansu 730000, China)
ZHANG Ying(Lanzhou Center for Tuberculosis Research & Institute of Pathogenic Biology, School of Basic Medical Sciences, Lanzhou University, Lanzhou, Gansu 730000, China;Department of Molecular Microbiology and Immunology, Bloomberg School of Public Health, Johns Hopkins University, Baltimore MD, USA)
Journal Title:
Chinese Medical Journal
Issue:
Volume 125, Issue 19, 2012
DOI:
10.3760/cma.j.issn.0366-6999.2012.19.018
Key Word:
Mycobacterium tuberculosis; mycobacterial interspersed repetitive unit genotyping; Beijing family;epidemiology

Abstract: Background Mycobacterial interspersed repetitive units-variable number tandem repeat (MIRU-VNTR) and Beijing family typing based on detecting the deletion of RD105 sequence are two common genotyping methods used to study the molecular epidemiologic characteristics of Mycobacterium (M.) tuberculosis.We collected 218 strains of M.tuberculosis between 2004 and 2006 in the Linxia Hui Autonomous Prefecture of Gansu province in Northwest China.Methods MIRU-VNTR analysis and Beijing family typing based on detecting the deletion of RD105 sequence were used to type the 218 strains,and their typing power was evaluated to look for practical and efficient genotyping methods suitable for the region.Results The MIRU typing yielded 115 distinct genotypes,including 98 unique isolates and 17 different clusters containing 120 isolates (55.05%); the cluster rate was 47.25%.By detecting the deletion of RD105 sequence,188 of 218 (86.23%) isolates belonged to Beijing family.Combination of Beijing family typing and MIRU typing yielded 118 distinct patterns,including 101 unique isolates and 17 clusters containing 117 isolates (54.13%).The largest cluster contained 58 strains with MIRU genotype of 223325173533 which contained 50 strains belonging to Beijing family and 8 strains belonging to non-Beijing family.Conclusions The Beijing family strains occupied a large proportion and the Beijing family MIRU genotype 223325173533 is a dominant strain in Linxia of Gansu.Combining detecting the deletion of RD105 and MIRU typing together provides a simple,fast,and effective method which is low in cost and might be practical and suitable for M.tuberculosis genotyping in China.

  • 1.Bifani PJ,Mathema B,Kurepina NE,Kreiswirth BN.Global dissemination of the Mycobacterium tuberculosis W/Beijing family strains.Trends Microbiol 2002; 10:45-52.
  • 2.Van Embden JD,Cave MD,Crawford JT,Dale JW,Eisenach KD,Gicquel B,et al.Strain identification of Mycobacterium tuberculosis by DNA fingerprinting:recommendations for a standardized methodology.J Clin Microbiol 1993; 31:406-409.
  • 3.Cowan LS,Diem L,Monson T,Wand P,Temporado D,Oemig TV,et al.Evaluation of a two-step approach for large-scale, prospective genotyping of Mycobacterium tuberculosis isolates in the United States.J Clin Microbiol 2005; 43:688-695.
  • 4.Li WM,Wang SM,Li CY,Liu YH,Shen GM,Zhang XX,et al.Molecular epidemiology of Mycobacterium tuberculosis in China:a nationwide random survey in 2000.Int J Tuberc Lung Dis 2005; 9:1314-1319.
  • 5.Li WM,Wang SM,Pei XY,Liu ZQ,Zhong Q,Qian M,et al.DNA fingerprinting of Mycobacterium tuberculosis strains from Beijing,Guangdong and Ningxia.Chin J Epidemiol (Chin) 2003; 24:381-384.
  • 6.Supply P,Magdalena J,Himpens S,Locht C.Identification of novel intergenic repetitive units in a mycobacterial two-component system operon.Mol Microbiol 1997; 26:991-1003.
  • 7.Supply P,Mazars E,Lesjean S,Vincent V,Gicquel B,Locht C.Variable human minisatellite-like regions in the Mycobacterium tuberculosis genome.Mol Microbiol 2000;36:762-771.
  • 8.Glynn JR,Whiteley J,Bifani PJ,Kremer K,van Soolingen D.Worldwide occurrence of Beijing/W strains of Mycobacterium tuberculosis:a systematic review.Emerg Infect Dis 2002; 8:843-849.
  • 9.van Soolingen D,Qian L,de Haas PE,Douglas JT,Traore H,Portaels F,et al.Predominance of a single genotype of Mycobacterium tuberculosis in countries of East Asia.J Clin Microbiol 1995; 33:3234-3238.
  • 10.Qian L,Van Embden JD,Van Der Zande AG,Weltevreden EF,Duanmu H,Douglas JT.Retrospective analysis of the Beijing family of Mycobacterium tuberculosis in preserved lung tissues.J Clin Microbiol 1999; 37:471-474.
  • 11.Shen GM,Zha J,Xu L,Sun B,Gui XH,Wang YF,et al.Evaluation of the mycobacterial interspersed repetitive units typing as a practical approach in molecular epidemiology of Mycobacterium tuberculosis.Chin J Tuberc Respir Dis (Chin) 2005; 28:292-296.
  • 12.Tsolaki AG,Gagneux S,Pym AS.Genomic deletions classify the Beijing/W strains as a distinct genetic lineage of Mycobacterium tuberculosis.J Clin Microbiol 2005; 43:3185-3191.
  • 13.Kawara A,Schiro R,Cowan LS,Hyslop NE,Wiser MF,Harrison SR,et al.Evaluation of the epidemiologic utility of secondary typing methods for differentiation of Mycobacterium tuberculosis isolates.J Clin Microbiol 2003;41:2683-2685.
  • 14.Chen J,Tsolaki AG,Shen X,Jiang X,Mei J,Gao Q.Deletion-targeted multiplex PCR (DTM-PCR) for identification of Beijing/W genotypes of Mycobacterium tuberculosis.Tuberculosis 2007; 87:446-449.
  • 15.Mazars E,Lesjean S,Banuls AL,Gilbert M,Vincent V,Gicquel B,et al.High resolution minisatellite-based typing as a portable approach to global analysis of Mycobacterium tuberculosis molecular epidemiology.Proc Natl Acad Sci U S A 2001; 98:1901-1906.
  • 16.Hunter PR, Gaston MA.Numerical index of the discriminatory ability of typing systems:an application of Simpson's index of diversity.J Clin Microbiol 1988; 26:2465-2466.
  • 17.Small PM,Hopewell PC,Singh SP,Paz A,Parsonnet J,Ruston DC,et al.The epidemiology of tuberculosis in San Francisco:a population-based study using conventional and molecular methods.N Engl J Med 1994; 330:1703-1709.
  • 18.Si HY,Li M,Gan PS,Yang SM,Jing T,Zhang WH,et al.Evaluation of MIRU (mycobacterial interspersed repetitive units) genotyping of isoniazid or rifampicin-resistant tuberculosis strains from Dingxi and Gannan in Gansu province.Chin J Infect Dis (Chin) 2009; 28:76-81.
  • 19.Savine E,Warren RM,van der Spuy GD,Beyers N,van Helden PD,Locht C,et al.Stanbility of variable-number tandem repeats of mycobacterial interspersed repetitive units from 12 loci in serial isolates of Mycobacterium tuberculosis.J Clin Microbiol 2002; 40:4561-4566.
  • 20.Supply P,Lesjean S,Savine E,Kremer K,van Soolingen D,Locht C.Automated high-throughput genotyping for study of global epidemiology of Mycobacterium tuberculosis based on mycobacterial interspersed repetitive units.J Clin Microbiol 2001; 39:3563-3571.
  • 21.Wada T,Maeda S,Hasel A,Kobayashi K.Evaluation of variable numbers of tandem repeat as molecular epidemiological markers of Mycobacterium tuberculosis in Japan.J Med Microbiol 2007; 56:1052-1057.
  • 22.Millet J,Miyagi-Shiohira C,Yamane N,Sola C,Rastogi N.Assessment of mycobacterial interspersed repetitive unit-QUB markers to further discriminate the Beijing genotype in a population-based study of the genetic diversity of Mycobacterium tuberculosis clinical isolates from Okinawa,Ryukyu Islands,Japan.J Clin Microbiol 2007; 45:3606-3615.
  • 23.Ma X,Wang HY,Deng YF,Liu ZM,Xu Y,Pan X,et al.rpoB Gene mutations and molecular characterization of rifampin-resistant Mycobacterium tuberculosis isolates from Shandong province,China.J Clin Microbiol 2006; 44:3409-3412.
  • 24.Wang HY,Jiang CH,Zuo Y,Yu CB,Wang Y,Deng YF,et al.Application of mycobacterial interspersed repetitive units in typing Mycobacterium tuberculosis in Shandong.Chin J Tuberc Respir Dis (Chin) 2007; 30:355-358.
  • 25.Zahra H,Tanveer M,Kanji A,Hasan Q,Ghebremichael S,Hasanl R.Spoligotyping of Mycobacterium tuberculosis isolates from Pakistan reveals predominance of Central Asian Strain 1 and Beijing isolates.J Clin Microbiol 2006; 44:1763-1768.
  • 26.Chin PJ,Chiu CC,Jou R.Identification of Beijing lineage Mycobacterium tuberculosis with combined mycobacterial interspersed repetitive unit loci 26,31,and ETR-A.J Clin Microbiol 2007; 45:1022-1023.
  • 27.Yokoyama E,Kishida K,Uchimura M,Ichinohe S.Improved differentiation of Mycobacterium tuberculosis strains,including many Beijing genotype strains,using a new combination of variable number of tandem repeats loci.Infect Genet Evol 2007; 7:499-508.
  • 28.Rao KR,Ahmed N,Srinivas S,Sechi LA,Hasnain SE.Rapid identification of Mycobacterium tuberculosis Beijing genotypes on the basis of the mycobacterial interspersed repetitive unit locus 26 signature.J Clin Microbiol 2006; 44:274-277.
  • 29.Mokrousov I,Jiao WW,Valcheva V,Vyazovaya A,Otten T,Ly HM,et al.Rapid detection of the Mycobacterium tuberculosis Beijing genotype and its ancient and modern sublineages by IS6110-based inverse PCR.J Clin Microbiol 2006; 44:2851-2856.
  • 30.Sun YJ,Bellamy R,Lee AS,Ng ST,Ravindran S,Wong SY,et al.Use of mycobacterial interspersed repetitive unit-variable-number tandem repeat typing to examine genetic diversity of Mycobacterium tuberculosis in Singapore.J Clin Microbiol 2004; 42:1986-1993.
  • 31.Sola C,Filliol I,Legrand E,Lesjean S,Locht C,Supply P,et al.Genotyping of Mycobacterium tuberculosis complex using MIRUs:association with VNTR and spoligotyping for molecular epidemiology and evolutionary genetics.Infect Genet Evol 2003; 3:125-133.
WanfangData CO.,Ltd All Rights Reserved
About WanfangData | Contact US
Healthcare Department, Fuxing Road NO.15, Haidian District Beijing, 100038 P.R.China
Tel:+86-010-58882616 Fax:+86-010-58882615 Email:yiyao@wanfangdata.com.cn