Factors associated with genotype clustering of Mycobacterium tuberculosis isolates in an ethnically diverse region of southern California, United States

Infection, Genetics and Evolution

Volumn 12, Issue 8, 2012, Pages 1917-1925

  Rodwell, Timothy C ^a   Kapasi, Anokhi J ^b   Barnes, Richard F W ^a   Moser, Kathleen S ^c  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b The Degge Group Ltd   (United States)

^c UNIVERSITY OF CALIFORNIA COOPERATIVE EXTENSION   (United States)

Author keywords

Genotypes; MIRU; Molecular epidemiology; Social networks; Spoligotype; Tuberculosis

Indexed keywords

ADULT; ARTICLE; BACTERIAL STRAIN; BACTERIUM IDENTIFICATION; BACTERIUM ISOLATE; CLUSTER ANALYSIS; DEMOGRAPHY; DISEASE TRANSMISSION; FEMALE; GENE CLUSTER; GENOTYPE; HUMAN; MAJOR CLINICAL STUDY; MALE; MOLECULAR EPIDEMIOLOGY; MYCOBACTERIUM TUBERCULOSIS; NONHUMAN; PRIORITY JOURNAL; SOCIAL ASPECT; TUBERCULOSIS; UNITED STATES;

ADULT; ANALYSIS OF VARIANCE; CALIFORNIA; CLUSTER ANALYSIS; EMIGRANTS AND IMMIGRANTS; FEMALE; GENOTYPE; GENOTYPING TECHNIQUES; HUMANS; MALE; MIDDLE AGED; MOLECULAR EPIDEMIOLOGY; MYCOBACTERIUM TUBERCULOSIS; SOCIOECONOMIC FACTORS; STATISTICS, NONPARAMETRIC; TUBERCULOSIS;

MYCOBACTERIUM TUBERCULOSIS;

EID: 84867000884     PISSN: 15671348     EISSN: 15677257     Source Type: Journal    
DOI: 10.1016/j.meegid.2012.08.022     Document Type: Article

References (46)

1. Allix-Beguec C., Harmsen D., Weniger T., Supply P., Niemann S. Evaluation and strategy for use of MIRU-VNTRplus, a multifunctional database for online analysis of genotyping data and phylogenetic identification of Mycobacterium tuberculosis complex isolates. J. Clin. Microbiol. 2008, 46:2692-2699.
2. Behr M.A., Mostowy S. Molecular tools for typing and branding the tubercle bacillus. Curr. Mol. Med. 2007, 7:309-317.
3. Bezanahary H., Baclet M.C., Sola C., Gazaille V., Turlure P., Weinbreck P., Denis F., Martin C. Molecular strain typing contribution to epidemiology of tuberculosis in Limousin (1998 to 2006). Med. Mal. Infect. 2008, 38:309-317.
4. Bishai W.R., Graham N.M.H., Harrington S., Pope D.S., Hooper N., Astemborski J., Sheely L., Vlahov D., Glass G.E., Chaisson R.E. Molecular and geographic patterns of tuberculosis transmission after 15years of directly observed therapy. JAMA 1998, 280:1679-1684.
5. Brudey K., Driscoll J.R., Rigouts L., Prodinger W.M., Gori A., Al-Hajoj S.A., Allix C., Aristimuno L., Arora J., Baumanis V., Binder L., Cafrune P., Cataldi A., Cheong S., Diel R., Ellermeier C., Evans J.T., Fauville-Dufaux M., Ferdinand S., Garcia de Viedma D., Garzelli C., Gazzola L., Gomes H.M., Guttierez M.C., Hawkey P.M., van Helden P.D., Kadival G.V., Kreiswirth B.N., Kremer K., Kubin M., Kulkarni S.P., Liens B., Lillebaek T., Ly H.M., Martin C., Martin C., Mokrousov I., Narvskaia O., Ngeow Y.F., Naumann L., Niemann S., Parwati I., Rahim Z., Rasolofo-Razanamparany V., Rasolonavalona T., Rossetti M.L., Ruesch-Gerdes S., Sajduda A., Samper S., Shemyakin I.G., Singh U.B., Somoskovi A., Skuce R.A., van Soolingen D., Streicher E.M., Suffys P.N., Tortoli E., Tracevska T., Vincent V., Victor T.C., Warren R.M., Yap S.F., Zaman K., Portaels F., Rastogi N., Sola C. Mycobacterium tuberculosis complex genetic diversity: mining the fourth international spoligotyping database (SpoIDB4) for classification, population genetics and epidemiology. BMC Microbiol. 2006, 6:23. 10.1186/1471-2180-6-23.
6. Burman W.J., Reves R.R., Hawkes A.P., Rietmeijer C.A., Yang Z.H., ElHajj H., Bates J.H., Cave M.D. DNA fingerprinting with two probes decreases clustering of Mycobacterium tuberculosis. Am. J. Respir. Crit. Care Med. 1997, 155:1140-1146.
7. Case definitions for infectious conditions under public health surveillance. MMWR Recomm. Rep. 1997, 46:1-55. Centers for Disease Control and Prevention (CDC).
8. Centers for Disease Control and Prevention (CDC), 2004. Guide to the Application of Genotyping to Tuberculosis Preventiona and Control. Available at: (accessed 20.11.2010). http://www.cdc.gov.
9. Centers for Disease Control and Prevention (CDC) Trends in tuberculosis - United States, 2010. MMWR Morb. Mortal. Wkly. Rep. 2011, 60:333-337.
10. Cowan L.S., Mosher L., Diem L., Massey J.P., Crawford J.T. Variable-number tandem repeat typing of Mycobacterium tuberculosis isolates with low copy numbers of IS6110 by using mycobacterial interspersed repetitive units. J. Clin. Microbiol. 2002, 40:1592-1602.
11. Cowan L.S., Diem L., Brake M.C., Crawford J.T. Transfer of a Mycobacterium tuberculosis genotyping method, spoligotyping, from a reverse line-blot hybridization, membrane-based assay to the Luminex multianalyte profiling system. J. Clin. Microbiol. 2004, 42:474-477.
12. Dale J.W., Brittain D., Cataldi A.A., Cousins D., Crawford J.T., Driscoll J., Heersma H., Lillebaek T., Quitugua T., Rastogi N., Skuce R.A., Sola C., Van Soolingen D., Vincent V. Spacer oligonucleotide typing of bacteria of the Mycobacterium tuberculosis complex: recommendations for standardised nomenclature. Int. J. Tuberc. Lung Dis. 2001, 5:216-219.
13. David S. Strategical use of genotyping of Mycobacterium tuberculosis in tuberculosis control. Rev. Port. Pneumol. 2008, 14:509-516.
14. de Bruyn G., Adams G.J., Teeter L.D., Soini H., Musser J.M., Graviss E.A. The contribution of ethnicity to Mycobacterium tuberculosis strain clustering. Int. J. Tuberc. Lung Dis. 2001, 5:633-641.
15. Drobniewski F., Balabanova Y., Nikolayevsky V., Ruddy M., Kuznetzov S., Zakharova S., Melemyev A., Fedorin I. Drug-resistant, tuberculosis, clinical virulence, and the dominance of the Beijing strain family in Russia. JAMA 2005, 293:2726-2731.
16. Ellis B.A., Crawford J.T., Braden C.R., McNabb S.J.N., Moore M., Kammerer S. Molecular epidemiology of tuberculosis in a sentinel surveillance population. Emerg. Infect. Dis. 2002, 8:1197-1209. Natl Tuberculosis Genotyping.
17. Feng J.Y., Su W.J., Liu L.Y., Tsai C.C., Chang S.C. Radiological presentation of pulmonary tuberculosis infected by the W-Beijing Mycobacterium tuberculosis strain. Int. J. Tuberc. Lung Dis. 2009, 13:1387-1392.
18. Fica A., Cifuentes M., Ajenjo M.C., Jemenao M.I., Zambrano A., Febre N., Delpiano L., Diomedi A., Ramonda P., Com Consultivo I. Tuberculosis in healthcare workers. Rev. Chilena Infectol. 2008, 25:243-255.
19. Fok A., Numata Y., Schulzer M., FitzGerald M.J. Risk factors for clustering of tuberculosis cases: a systematic review of population-based molecular epidemiology studies. Int. J. Tuberc. Lung Dis. 2008, 12:480-492.
20. Garzelli C., Rindi L. Molecular epidemiological approaches to study the epidemiology of tuberculosis in low-incidence settings receiving immigrants. Infect. Genet. Evol. 2012, 12:610-618.
21. Geng E., Kreiswirth B., Driver C., Li J.H., Burzynski J., DellaLatta P., LaPaz A., Schluger N.W. Changes in the transmission of tuberculosis in New York City from 1990 to 1999. N. Engl. J. Med. 2002, 346:1453-1458.
22. Gibson A.L., Huard R.C., van Pittius N.C.G., Lazzarini L.C.O., Driscoll J., Kurepina N., Zozio T., Sola C., Spindola S.M., Kritski A.L., Fitzgerald D., Kremer K., Mardassi H., Chitale P., Brinkworth J., de Viedma D.G., Gicquel B., Pape J.W., van Soolingem D., Kreiswirth B.N., Warren R.M., van Helden P.D., Rastogi N., Suffys P.N., Silva J.L.E., Ho J.L. Application of sensitive and specific molecular methods to uncover global dissemination of the major RDRio sublineage of the Latin american-mediterranean Mycobacterium tuberculosis spoligotype family. J. Clin. Microbiol. 2008, 46:1259-1267.
23. Grange, J.M., Yates, M.D., de Kantor, I.N., 1996. Guidelines for Speciation within the Mycobacterium tuberculosis Complex. Available at: (WHO/EMC/ZOO/96.4). http://www.whqlibdoc.who.int.
24. International Community Foundation (ICF), 2010. Tuberculosis in the San Diego-Tijuana Border Region: Inspiring Philanthropy Beyond Borders. Available at: (accessed 25.01.2011). http://www.icfdn.org.
25. Kamerbeek J., Schouls L., Kolk A., vanAgterveld M., vanSoolingen D., Kuijper S., Bunschoten A., Molhuizen H., Shaw R., Goyal M., vanEmbden J. Simultaneous detection and strain differentiation of Mycobacterium tuberculosis for diagnosis and epidemiology. J. Clin. Microbiol. 1997, 35:907-914.
26. Kempf M.C., Dunlap N.E., Lok K.H., Benjamin W.H., Keenan N.B., Kimerling M.E. Long-term molecular analysis of tuberculosis strains in Alabama, a state characterized by a largely indigenous, low-risk population. J. Clin. Microbiol. 2005, 43:870-878.
27. Lange J.E., Lauer E.M., Voas R.B. A survey of the San Diego-Tijuana cross-border binging: methods and analysis. Eval. Rev. 1999, 23:378-398.
28. Luo T., Yang C., Gagneux S., Gicquel B., Mei J., Gao Q. Combination of single nucleotide polymorphism and variable-number tandem repeats for genotyping a homogenous population of Mycobacterium tuberculosis Beijing strains in China. J. Clin. Microbiol. 2012, 50:633-639.
29. Maes M., Kremer K., van Soolingen D., Takiff H., de Waard J.H. 24-locus MIRU-VNTR genotyping is a useful tool to study the molecular epidemiology of tuberculosis among Warao Amerindians in Venezuela. Tuberculosis 2008, 88:490-494.
30. Mathema B., Kurepina N., Fallows D., Kreiswirth B.N. Lessons from molecular epidemiology and comparative genomics. Semin. Respir. Crit. Care Med. 2008, 29:467-480.
31. Mazars E., Lesjean S., Banuls A.L., Gilbert M., Vincent V., Gicquel B., Tibayrenc M., Locht C., Supply P. High-resolution minisatellite-based typing as a portable approach to global analysis of Mycobacterium tuberculosis molecular epidemiology. Proc. Natl. Acad. Sci. USA 2001, 98:1901-1906.
32. Metcalfe J.Z., Kim E.Y., Lin S.Y., Cattamanchi A., Oh P., Flood J., Hopewell P.C., Kato-Maeda M. Determinants of multidrug-resistant tuberculosis clusters, California, USA, 2004-2007. Emerg. Infect. Dis. 2010, 16:1403-1409.
33. Parwati I., Alisjahbana B., Apriani L., Soetikno R.D., Ottenhoff T.H., van der Zanden A.G.M., van der Meer J., van Soolingen D., van Crevel R. Mycobacterium tuberculosis Beijing genotype is an independent risk factor for tuberculosis treatment failure in Indonesia. J. Infect. Dis. 2010, 201:553-557.
34. Rhee J.T., Tanaka M.M., Behr M.A., Agasino C.B., Paz E.A., Hopewell P.C., Small P.M. Use of multiple markers in population-based molecular epidemiologic studies of tuberculosis. Int. J. Tuberc. Lung Dis. 2000, 4:1111-1119.
35. Rodwell T.C., Moore M., Moser K.S., Brodine S.K., Strathdee S.A. Tuberculosis from Mycobacterium bovis in binational communities, United States. Emerg. Infect. Dis. 2008, 14:909-916.
36. Rodwell T.C., Barnes R.F.W., Moore M., Strathdee S.A., Raich A., Moser K.S., Garfein R.S. HIV-Tuberculosis coinfection in southern California: evaluating disparities in disease burden. Am. J. Public Health 2010, 100:S178-S185.
37. Rodwell T.C., Kapasi A.J., Moore M., Milian-Suazo F., Harrise B., Guerrerod L.P., Moser K.S., Strathdee S.A., Garfein R.S. Tracing the origins of Mycobacterium bovis tuberculosis in humans in the United States to cattle in Mexico using spoligotyping. Int. J. Infect. Dis. 2010, 14S:e129-e135.
38. Saitou N., Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 1987, 4:406-425.
39. San Diego Health and Human Service Agency (HHSA), 2011. Comparison of National, State and County Data for Tuberculosis, 2003-2010. Available at: (accessed 15.11.2011). http://www.sdcounty.ca.gov.
40. Small P.M., Hopewell P.C., Singh S.P., Paz A., Parsonnet J., Ruston D.C., Schecter G.F., Daley C.L., Schoolnik G.K. The epidemiology of tuberculosis in San Francisco. A population-based study using conventional and molecular methods. N. Engl. J. Med. 1994, 330:1703-1709.
41. Stokes M.E., Davis C.S., Koch G.G. Categorical Data Analysis Using the Sas System 2000, SAS Institute, Inc., Cary, North Carolina. second ed.
42. Streicher E.M., Victor T.C., van der Spuy G., Sola C., Rastogi N., van Helden P.D., Warren R.M. Spoligotype signatures in the Mycobacterium tuberculosis complex. J. Clin. Microbiol. 2007, 45:237-240.
43. Supply P., Allix C., Lesjean S., Cardoso-Oelemann M., Rusch-Gerdes S., Willery E., Savine E., de Haas P., van Deutekom H., Roring S., Bifani P., Kurepina N., Kreiswirth B., Sola C., Rastogi N., Vatin V., Gutierrez M.C., Fauville M., Niemann S., Skuce R., Kremer K., Locht C., van Soolingen D. Proposal for standardization of optimized mycobacterial interspersed repetitive unit-variable-number tandem repeat typing of Mycobacterium tuberculosis. J. Clin. Microbiol. 2006, 44:4498-4510.
44. United States Census Bureau, 2011. US Census Bureau: State and county quickfacts. Available at: http://www.quickfacts.census.gov.
45. Weniger T., Krawczyk J., Supply P., Niemann S., Harmsen D. MIRU-VNTRplus: a web tool for polyphasic genotyping of Mycobacterium tuberculosis complex bacteria. Nucleic Acids Res. 2010, 38:W326-W331.
46. Zar J.H. Biostatistical Analysis 1999, Prentice Hall Inc., Upper Saddle River. fourth ed.