The quiet and controversial: Ural family of Mycobacterium tuberculosis

Infection, Genetics and Evolution

Volumn 12, Issue 4, 2012, Pages 619-629

  Mokrousov, Igor ^a  

^a ST PETERSBURG PASTEUR INSTITUTE   (Russian Federation)

Author keywords

Evolution; Human history; Mycobacterium tuberculosis; Phylogeography; Ural genotype; VNTR

Indexed keywords

ARTICLE; BACTERIAL GENETICS; BACTERIAL STRAIN; BACTERIAL TRANSMISSION; BACTERIAL VIRULENCE; GENE LOCUS; GENE SEQUENCE; GENOTYPE; GEOGRAPHIC DISTRIBUTION; HUMAN; MYCOBACTERIUM TUBERCULOSIS; NONHUMAN; PHENOTYPE; POPULATION MIGRATION; POPULATION STRUCTURE; PREVALENCE; PRIORITY JOURNAL; SINGLE NUCLEOTIDE POLYMORPHISM; URAL STRAIN;

EVOLUTION, MOLECULAR; GENOTYPE; HUMANS; MYCOBACTERIUM TUBERCULOSIS; PHENOTYPE; PHYLOGENY; PHYLOGEOGRAPHY;

MYCOBACTERIUM TUBERCULOSIS;

EID: 84859909047     PISSN: 15671348     EISSN: 15677257     Source Type: Journal    
DOI: 10.1016/j.meegid.2011.09.026     Document Type: Article

References (72)

1. Abadia E., Zhang J., dos Vultos T., Ritacco V., Kremer K., Aktas E., Matsumoto T., Refregier G., van Soolingen D., Gicquel B., Sola C. Resolving lineage assignation on Mycobacterium tuberculosis clinical isolates classified by spoligotyping with a new high-throughput 3R SNPs based method. Infect. Genet. Evol. 2010, 10:1066-1074.
2. Afanas'ev M.V., Ikryannikova L.N., Il'ina E.N., Kuz'min A.V., Larionova E.E., Smirnova T.G., Chernousova L.N., Govorun V.M. Molecular typing of Mycobacterium tuberculosis circulated in Moscow, Russian Federation. Eur. J. Clin. Microbiol. Infect. Dis. 2011, 30:181-191.
3. Aktaş E., Zozio T., Cömert F.B., Külah C., Aydin O., Rastogi N., Sola C. A first insight into the genetic diversity and population structure of Mycobacterium tuberculosis in Zonguldak, Turkey. Clin. Microbiol. Infect. 2008, 14:55-59.
4. Al-Hajoj S.A., Zozio T., Al-Rabiah F., Mohammad V., Al-Nasser M., Sola C., Rastogi N. First insight into the population structure of Mycobacterium tuberculosis in Saudi Arabia. J. Clin. Microbiol. 2007, 45:2467-2473.
5. Allix-Béguec 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.
6. Andreevskaia S.N., Chernousova L.N., Smirnova T.G., Larionova E.E., Kuz'min A.V. Impact of M. tuberculosis genotype on survival in mice with experimental tuberculosis. Probl. Tuberk. Bolezn. Legk. 2007, 7:45-50. In Russian.
7. Barreiro L.B., Neyrolles O., Babb C.L., Tailleux L., Quach H., McElreavey K., Helden P.D., Hoal E.G., Gicquel B., Quintana-Murci L. Promoter variation in the DC-SIGN-encoding gene CD209 is associated with tuberculosis. PLoS Med. 2006, 3:e20.
8. Bicmen C., Esen N., Graviss E.A., Williams-Bouyer N., Ramaswamy S.V., Yulug N. Molecular characterization of Mycobacterium tuberculosis isolates from Izmir, Turkey. New Microbiol. 2007, 30:229-240.
9. 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., Gutierrez 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 M.Z., Rasolofo-Razanamparany V., Rasolonavalona T., Rossetti M.L., Rusch-Gerdes S., Sajduda A., Samper S., Shemyakin I., Singh U.B., Somoskovi A., Skuce R., van Soolingen D., Streicher E.M., Suffys P.N., Tortoli E., Tracevska T., Vincent V., Victor T.C., Warren R., Yap S.F., Zaman K., Portaels F., Rastogi N., Sola C. Mycobacterium tuberculosis complex genetic diversity: mining the fourth international spoligotyping database (SpolDB4) for classification, population genetics and epidemiology. BMC Microbiol. 2006, 6:23.
10. Cavalli-Sforza L.L., Menozzi P., Piazza A. The History and Geography of Human Genes 1996, Princeton Univ Press, Princeton.
11. Cox H.S., Kubica T., Doshetov D., Kebede Y., Rüsch-Gerdess S., Niemann S. The Beijing genotype and drug resistant tuberculosis in the Aral Sea region of Central Asia. Respir. Res. 2005, 8(6):134.
12. Dong H., Liu Z., Lv B., Zhang Y., Liu J., Zhao X., Liu J., Wan K. Spoligotypes of Mycobacterium tuberculosis from different Provinces of China. J. Clin. Microbiol. 2010, 48:4102-4106.
13. Doroudchi M., Kremer K., Basiri E.A., Kadivar M.R., Van Soolingen D., Ghaderi A.A. IS6110-RFLP and spoligotyping of Mycobacterium tuberculosis isolates in Iran. Scand. J. Infect. Dis. 2000, 32:663-668.
14. Dou H.Y., Tseng F.C., Lin C.W., Chang J.R., Sun J.R., Tsai W.S., Lee S.Y., Su I.J., Lu J.J. Molecular epidemiology and evolutionary genetics of Mycobacterium tuberculosis in Taipei. BMC Infect. Dis. 2008, 8:170.
15. Douglas J.T., Qian L., Montoya J.C., Musser J.M., Van Embden J.D., Van Soolingen D., Kremer K. Characterization of the Manila family of Mycobacterium tuberculosis. J. Clin. Microbiol. 2003, 41:2723-2726.
16. Durmaz R., Zozio T., Gunal S., Allix C., Fauville-Dufaux M., Rastogi N. Population-based molecular epidemiological study of tuberculosis in Malatya, Turkey. J. Clin. Microbiol. 2007, 45:4027-4035.
17. Farnia P., Masjedi M.R., Mirsaeidi M., Mohammadi F., Jallaledin-Ghanavi, Vincent V., Bahadori M., Velayati A.A. Prevalence of Haarlem I and Beijing types of Mycobacterium tuberculosis strains in Iranian and Afghan MDR-TB patients. J. Infect. 2006, 53:331-336.
18. Ferdinand S., Valétudie G., Sola C., Rastogi N. Data mining of Mycobacterium tuberculosis complex genotyping results using mycobacterial interspersed repetitive units validates the clonal structure of spoligotyping-defined families. Res. Microbiol. 2004, 155:647-654.
19. Gagneux S., DeRiemer K., Van T., Kato-Maeda M., de Jong B.C., Narayanan S., Nicol M., Niemann S., Kremer K., Gutierrez M.C., Hilty M., Hopewell P.C., Small P.M. Variable host-pathogen compatibility in Mycobacterium tuberculosis. Proc. Natl. Acad. Sci. USA 2006, 103:2869-2873.
20. Grimont P.A., Grimont F., Efstratiou A., De Zoysa A., Mazurova I., Ruckly C., Lejay-Collin M., Martin-Delautre S., Regnault B. International nomenclature for Corynebacterium diphtheriae ribotypes. Res. Microbiol. 2004, 155:162-166. European Laboratory Working Group on Diphtheria.
21. Helal Z.H., Ashour M.S., Eissa S.A., Abd-Elatef G., Zozio T., Babapoor S., Rastogi N., Khan M.I. Unexpectedly high proportion of ancestral Manu genotype Mycobacterium tuberculosis strains cultured from tuberculosis patients in Egypt. J. Clin. Microbiol. 2009, 47:2794-2801.
22. Ignatova A., Dubiley S., Stepanshina V., Shemyakin I. Predominance of multi-drug-resistant LAM and Beijing family strains among Mycobacterium tuberculosis isolates recovered from prison inmates in Tula Region, Russia. J. Med. Microbiol. 2006, 55:1413-1418.
23. Iwamoto T., Yoshida S., Suzuki K., Tomita M., Fujiyama R., Tanaka N., Kawakami Y., Ito M. Hypervariable loci that enhance the discriminatory ability of newly proposed 15-loci and 24-loci variable-number tandem repeat typing method on Mycobacterium tuberculosis strains predominated by the Beijing family. FEMS Microbiol. Lett. 2007, 272:282-283.
24. Jiao W.W., Mokrousov I., Sun G.Z., Li M., Liu J.W., Narvskaya O., Shen A.D. Molecular characteristics of rifampin and isoniazid resistant Mycobacterium tuberculosis strains from Beijing, China. Chin. Med. J. (Engl.) 2007, 120:814-819.
25. Kovalev S.Y., Kamaev E.Y., Kravchenko M.A., Kurepina N.E., Skorniakov S.N. Genetic analysis of Mycobacterium tuberculosis strains isolated in Ural region, Russian Federation, by MIRU-VNTR genotyping. Int. J. Tuberc. Lung Dis. 2005, 9:746-752.
26. Kremer K., Glynn J.R., Lillebaek T., Niemann S., Kurepina N.E., Kreiswirth B.N., Bifani P.J., van Soolingen D. Definition of the Beijing/W lineage of Mycobacterium tuberculosis on the basis of genetic markers. J. Clin. Microbiol. 2004, 42:4040-4049.
27. Kremer K., van Soolingen D., Frothingham R., Haas W.H., Hermans P.W., Martin C., Palittapongarnpim P., Plikaytis B.B., Riley L.W., Yakrus M.A., Musser J.M., van Embden J.D.A. Comparison of methods based on different molecular epidemiological markers for typing of Mycobacterium tuberculosis complex strains: interlaboratory study of discriminatory power and reproducibility. J. Clin. Microbiol. 1999, 37:2607-2618.
28. Krüüner A., Hoffner S.E., Sillastu H., Danilovits M., Levina K., Svenson S.B., Ghebremichael S., Koivula T., Källenius G. Spread of drug-resistant pulmonary tuberculosis in Estonia. J. Clin. Microbiol. 2001, 39:3339-3345.
29. Markelov Y., Narvskaya O. Circulation of multidrug-resistant tuberculosis pathogen strains in the Republic of Karelia. Tuberk Bolezn Legk 2010, 2:54-56. In Russian.
30. Mathuria J.P., Sharma P., Prakash P., Samaria J.K., Katoch V.M., Anupurba S. Role of spoligotyping and IS6110-RFLP in assessing genetic diversity of Mycobacterium tuberculosis in India. Infect. Genet. Evol. 2008, 8:346-351.
31. Merza M.A., Farnia P., Salih A.M., Masjedi M.R., Velayati A.A. The most predominant spoligopatterns of Mycobacterium tuberculosis isolates among Iranian, Afghan-Immigrant, Pakistani and Turkish tuberculosis patients: a comparative analysis. Chemotherapy 2010, 56:248-257.
32. Minahan J. One Europe, many nations: a historical dictionary of European national groups 2000, Greenwood Press, Westport, Connecticut, USA, p. 518.
33. Mokrousov I., Jiao W.W., Valcheva V., Vyazovaya A., Otten T., Ly H.M., Lan N.N., Limeschenko E., Markova N., Vyshnevskiy B., Shen A.D., Narvskaya O. Rapid detection of the Mycobacterium tuberculosis Beijing genotype and its ancient and modern sub-lineages by IS6110-based inverse PCR. J. Clin. Microbiol. 2006, 44:2851-2856.
34. Mokrousov I. Genetic geography of Mycobacterium tuberculosis Beijing genotype: a multifacet mirror of human history?. Infect. Genet. Evol. 2008, 8:777-785.
35. Mokrousov I., Otten T., Zozio T., Turkin E., Nazemtseva V., Sheremet A., Vishnevsky B., Narvskaya O., Rastogi N. At Baltic crossroads: a molecular snapshot of Mycobacterium tuberculosis population diversity in Kaliningrad, Russia. FEMS Immunol. Med. Microbiol. 2009, 55:13-22.
36. Mokrousov I., Valcheva V., Sovhozova N., Aldashev A., Rastogi N., Isakova J. Penitentiary population of Mycobacterium tuberculosis in Kyrgyzstan: exceptionally high prevalence of the Beijing genotype and its Russia-specific subtype. Infect. Genet. Evol. 2009, 9:1400-1405.
37. Mokrousov I., Narvskaya O., Otten T., Vyazovaya A., Limeschenko E., Steklova L., Vyshnevskyi B. Phylogenetic reconstruction within Mycobacterium tuberculosis Beijing genotype in northwestern Russia. Res. Microbiol. 2002, 153:629-637.
38. Mokrousov I., Ly H.M., Otten T., Lan N.N., Vyshnevskyi B., Hoffner S., Narvskaya O. Origin and primary dispersal of the Mycobacterium tuberculosis Beijing genotype: clues from human phylogeography. Genome Res. 2005, 15:1357-1364.
39. Namouchi A., Karboul A., Mhenni B., Khabouchi N., Haltiti R., Ben Hassine R., Louzir B., Chabbou A., Mardassi H. Genetic profiling of Mycobacterium tuberculosis in Tunisia: predominance and evidence for the establishment of a few genotypes. J. Med. Microbiol. 2008, 57:864-872.
40. Narayanan S., Gagneux S., Hari L., Tsolaki A.G., Rajasekhar S., Narayanan P.R., Small P.M., Holmes S., Deriemer K. Genomic interrogation of ancestral Mycobacterium tuberculosis from south India. Infect. Genet. Evol. 2008, 8:474-483.
41. Narvskaya O.V., Mokrousov I.V., Limeshchenko E.V., Steklova N., Otten T.F., Vishnevskii B.I. Characterization of Mycobacterium tuberculosis strains prevalent in North-West of Russia by spoligotyping. Probl. Tuberk. 2002, 4:44-48. In Russian.
42. Narvskaya O., Mokrousov I., Otten T., Vishnevsky B. Molecular markers: application for studies of Mycobacterium tuberculosis population in Russia. Trends in DNA fingerprinting research 2005, 111-125. Nova Science Publishers, NY, USA. M.M. Read (Ed.).
43. Niemann S., Diel R., Khechinashvili G., Gegia M., Mdivani N., Tang Y.W. Mycobacterium tuberculosis Beijing lineage favors the spread of multidrug-resistant tuberculosis in the Republic of Georgia. J. Clin. Microbiol. 2010, 48:3544-3550.
44. Nikolayevskyy V.V., Brown T.J., Bazhora Y.I., Asmolov A.A., Balabanova Y.M., Drobniewski F.A. Molecular epidemiology and prevalence of mutations conferring rifampicin and isoniazid resistance in Mycobacterium tuberculosis strains from the southern Ukraine. Clin. Microbiol. Infect. 2007, 13:129-138.
45. Ogarkov O.B., Medvedeva T.V., Nekipelov O.M., Antipina S.L., Menshikov M.L. Study of DC-SIGN gene polymorphism in patients infected with Mycobacterium tuberculosis strains of different genotypes in the Irkutsk Region. Probl. Tuberk. Bolezn. Legk. 2007, 11:37-42. In Russian.
46. Ogarkov O.B., Medvedeva T.V., Zozio T., Pogorelov V.I., Nekipelov O.M., Gutnikova M.Y., Kuptsevich N.Y., Ushakov I.V., Sola C. Molecular typing of the tuberculosis strains in Irkutsk region (East Siberia) in 2000-2005. Mol. Med. 2008, 2:33-38. In Russian.
47. Ogarkov, O., Mokrousov, I., Sinkov, V., Zhdanova, S., Antipina, S., Savilov, E., 2011. 'Lethal' combination of Mycobacterium tuberculosis Beijing genotype and human CD209 -336G allele in Russian male population. Infect. Genet. Evol. doi: 10.1016/j.meegid.2011.10.005.
48. Otlu B., Durmaz R., Gunal S., Sola C., Zozio T., Rastogi N. Beijing/W and major spoligotype families of Mycobacterium tuberculosis strains isolated from tuberculosis patients in Eastern Turkey. New Microbiol. 2009, 32:255-263.
49. Pardini M., Niemann S., Varaine F., Iona E., Meacci F., Orrù G., Yesilkaya H., Jarosz T., Andrew P., Barer M., Checchi F., Rinder H., Orefici G., Rüsch-Gerdes S., Fattorini L., Oggioni M.R., Bonnet M. Characteristics of drug-resistant tuberculosis in Abkhazia (Georgia), a high-prevalence area in Eastern Europe. Tuberculosis (Edinb) 2009, 89:317-324.
50. Phyu S., Stavrum R., Lwin T., Svendsen Ø.S., Ti T., Grewal H.M. Predominance of Mycobacterium tuberculosis EAI and Beijing lineages in Yangon, Myanmar. J. Clin. Microbiol. 2009, 47:335-344.
51. Rad M.E., Bifani P., Martin C., Kremer K., Samper S., Rauzier J., Kreiswirth B., Blazquez J., Jouan M., van Soolingen D., Gicquel B. Mutations in putative mutator genes of Mycobacterium tuberculosis strains of the W-Beijing family. Emerg. Infect. Dis. 2003, 9:838-845.
52. Rahim Z., Zaman K., van der Zanden A.G., Möllers M.J., van Soolingen D., Raqib R., Zaman K., Begum V., Rigouts L., Portaels F., Rastogi N., Sola C. Assessment of population structure and major circulating phylogeographical clades of Mycobacterium tuberculosis complex in Bangladesh suggests a high prevalence of a specific subclade of ancient M. Tuberculosis genotypes. J. Clin. Microbiol. 2007, 45:3791-3794.
53. Regueiro M., Cadenas A.M., Gayden T., Underhill P.A., Herrera R.J. Iran: tricontinental nexus for Y-chromosome driven migration. Hum. Hered. 2006, 61:132-143.
54. Reyes J.F., Francis A.R., Tanaka M.M. Models of deletion for visualizing bacterial variation: an application to tuberculosis spoligotypes. BMC Bioinf. 2008, 9:496.
55. Rohani M., Farnia P.M., Nasab N., Moniri R., Torfeh M., Amiri M.M. Beijing genotype and other predominant Mycobacterium tuberculosis spoligotypes observed in Mashhad city, Iran. Ind. J. Med. Microbiol. 2009, 27:306-310.
56. Sharma P., Chauhan D.S., Upadhyay P., Faujdar J., Lavania M., Sachan S., Katoch K., Katoch V.M. Molecular typing of Mycobacterium tuberculosis isolates from a rural area of Kanpur by spoligotyping and mycobacterial interspersed repetitive units (MIRUs) typing. Infect. Genet. Evol. 2008, 8:621-626.
57. Singh U.B., Arora J., Suresh N., Pant H., Rana T., Sola C., Rastogi N., Pande J.N. Genetic biodiversity of Mycobacterium tuberculosis isolates from patients with pulmonary tuberculosis in India. Infect. Genet. Evol. 2007, 7:441-448.
58. Skiba Y.A., 2010. Molecular genetic typing of Mycobacterium tuberculosis circulating on the territory of the Republic of Kazakhstan. PhD thesis. Aithozhin Institute of Molecular Biology and Biochemistry, Almaty, Kazakhstan, In Russian.
59. Tang C., Reyes J.F., Luciani F., Francis A.R., Tanaka M.M. SpolTools: online utilities for analyzing spoligotypes of the Mycobacterium tuberculosis complex. Bioinformatics 2008, 24:2414-2415.
60. Tanveer M., Hasan Z., Siddiqui A.R., Ali A., Kanji A., Ghebremicheal S., Hasan R. Genotyping and drug resistance patterns of M. Tuberculosis strains in Pakistan. BMC Infect. Dis. 2008, 8:171.
61. Terreros M.C., Rowold D.J., Mirabal S., Herrera R.J. Mitochondrial DNA and Y-chromosomal stratification in Iran: relationship between Iran and the Arabian Peninsula. J. Hum. Genet. 2011, 56:235-246.
62. Toungoussova O.S., Mariandyshev A., Bjune G., Sandven P., Caugant D.A. Molecular epidemiology and drug resistance of Mycobacterium tuberculosis isolates in the Archangel prison in Russia: predominance of the W-Beijing clone family. Clin. Infect. Dis. 2003, 37:665-672.
63. Tracevska T., Jansone I., Baumanis V., Marga O., Lillebaek T. Prevalence of Beijing genotype in Latvian multidrug-resistant Mycobacterium tuberculosis isolates. Int. J. Tuberc. Lung Dis. 2003, 7:1097-1103.
64. Umpeleva, T.V., Kravchenko, M.A., Eremeeva, N.I., Kamaev, E.Y., 2010. Genotyping of M. tuberculosis isolates recovered from residents of Yekaterinburg city. In: Proceedings of VII All-Russian conference 'Molecular Diagnosctics-2010. Vol. 1 ()'. pp. 188-190. In Russian. http://www.md2010.org/works.php.
65. Valcheva V., Mokrousov I., Narvskaya O., Rastogi N., Markova N. Utility of new 24-locus variable-number tandem-repeat typing for discriminating Mycobacterium tuberculosis clinical isolates collected in Bulgaria. J. Clin. Microbiol. 2008, 46:3005-3011.
66. Valcheva V., Mokrousov I., Panaiotov S., Bachiiska E., Zozio T., Sola C., Markova N., Rastogi N. Bulgarian specificity and controversial phylogeography of Mycobacterium tuberculosis spoligotype ST125_BGR. FEMS Immunol. Clin. Microbiol. 2010, 59:90-99.
67. Vasilenko N., Vyazovaya A., Mokrousov I., Limeschenko E., Semenov V., Narvskaya O. Spacer oligonucleotide typing of drug-resistant Mycobacterium tuberculosis circulating on the territory of Belarus. Immunopat Allergol Infektol 2006, 4:70-74. In Russian.
68. Vyazovaya, A., Zhuravlev, V., Mokrousov, I., Otten, T., Vishnevskiy, B., Narvskaya, O., 2011. Molecular characterization of Mycobacterium tuberculosis strains in Pskov oblast. Zh. Mikrobiol. Epidemiol. Immunobiol. In press. In Russian.
69. Yokoyama E., Hachisu Y., Hashimoto R., Kishida K. Concordance of variable-number tandem repeat (VNTR) and large sequence polymorphism (LSP) analyses of Mycobacterium tuberculosis strains. Infect. Genet. Evol. 2010, 10:913-918.
70. Yorsangsukkamol J., Chaiprasert A., Prammananan T., Palittapongarnpim P., Limsoontarakul S., Prayoonwiwat N. Molecular analysis of Mycobacterium tuberculosis from tuberculous meningitis patients in Thailand. Tuberculosis (Edinb) 2009, 89:304-309.
71. Zhakipbaeva, B.T., 2009. Systemic approach to analysis of epidemic process of tuberculosis and the ways of epidemiological surveillance optimization on modern stage. Dissertation for degree of Doctor of Medical Sciences. Asfendiyarov Kazakh National Medical University, Almaty, Kazakhstan. In Russian.
72. Zozio T., Allix C., Gunal S., Saribas Z., Alp A., Durmaz R., Fauville-Dufaux M., Rastogi N., Sola C. Genotyping of Mycobacterium tuberculosis clinical isolates in two cities of Turkey: description of a new family of genotypes that is phylogeographically specific for Asia Minor. BMC Microbiol. 2005, 5:44.