SITVITWEB – A publicly available international multimarker database for studying Mycobacterium tuberculosis genetic diversity and molecular epidemiology

Demay, Christophe; Liens, Benjamin; Burguière, Thomas; Hill, Véronique; Couvin, David; Millet, Julie; Mokrousov, Igor; Sola, Christophe; Zozio, Thierry; Rastogi, Nalin

doi:10.1016/j.meegid.2012.02.004

Cited by 395 publications

(467 citation statements)

References 43 publications

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“…1C). Variants of the SIT627 spoligotype pattern in the SITVIT2 database (Demay et al, 2012) are almost only isolated from Japanese patients as shown in Fig. S1B.…”

Section: Current Knowledge On Tuberculosis Evolution Ratementioning

confidence: 99%

Turkish and Japanese Mycobacterium tuberculosis sublineages share a remote common ancestor

Refrégier

Abadia

Matsumoto

et al. 2016

Infection, Genetics and Evolution

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“…1C). Variants of the SIT627 spoligotype pattern in the SITVIT2 database (Demay et al, 2012) are almost only isolated from Japanese patients as shown in Fig. S1B.…”

Section: Current Knowledge On Tuberculosis Evolution Ratementioning

confidence: 99%

Turkish and Japanese Mycobacterium tuberculosis sublineages share a remote common ancestor

Refrégier

Abadia

Matsumoto

et al. 2016

Infection, Genetics and Evolution

Self Cite

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“…Ninety-five culture isolates were unsuitable for DNA extraction and therefore they were not genotyped. Four hundred and eighty seven culturepositive isolates were genotyped, using an internationally standardised method for spoligotyping (Kamerbeck et al, 1997;Demay, 2012). Isolates were classified into strain families of the M. tuberculosis complex according to their spoligotype signature.…”

Section: Spoligotyping and Sequencingmentioning

confidence: 99%

Genetic profile of Mycobacterium tuberculosis and treatment outcomes in human pulmonary tuberculosis in Tanzania

Kazwala

et al. 2014

Tanzania J Hlth Res

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Information on the different spoligotype families of Mycobacterium tuberculosis in Tanzania is limited, and where available, restricted to small geographical areas. This article describes the genetic profile of M. tuberculosis across Tanzania and suggests how spoligotype families might affect drug resistance and treatment outcomes for smear positive pulmonary tuberculosis patients in Tanzania. We conducted the study from 2006 to 2008, and the isolates were obtained from samples collected under the routine drug resistance surveillance system. The isolates were from specimens collected from 2001 to 2007, and stored at the Central and Reference Tuberculosis Laboratory. A total of 487 isolates from 23 regions in the country were spoligotyped. We were able to retrieve clinical information for 446 isolates only. Out of the 487 isolates spoligotyped, 195(40.0%) belonged to the Central Asian (CAS) family, 84 (17.5%) to the Latin American Mediterranean (LAM) family, 49 (10.1%) to the East-African Indian (EAI) family, and 33 (6.8%) to the Beijing family. Other isolates included 1 (0.2%) for H37Rv, 10 (2.1%) for Haarlem, 4 (0.8%) for S family, 58 (11.9%) for T family and 52 (10.7%) for unclassified. No spoligotype patterns were consistent with M. bovis. Regarding treatment outcomes, the cure rate was 80% with no significant variation among the spoligotype families. The overall level of MDR TB was 2.5% (3/121), with no significant difference among the spoligotype families. All Beijing strains (11.8%, 30/254) originated from the Eastern and Southern zones of the country, of which 80% were from Dar es Salaam.Isolates from the CAS and T families were reported disproportionately from the Eastern-Southern zone, and EAI and LAM families from the Northern-Lake zones but the difference was not statistically significant. Five isolates were identified as non-tuberculous Mycobacteria. In conclusion, M. tuberculosis isolates from pulmonary tuberculosis cases in Tanzania were classified mostly within the CAS, LAM, and EAI and T families, while the Beijing family comprised about 7% isolates only. Consistently good treatment outcomes were recorded across these spoligotype families. The proportion of drug resistance strains was low. The findings also suggest variation of spoligotype families with varying geographical localities within the country, and identify this area for further research to confirm this finding. _________________________________________________________________________________

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“…Lineages 1 and 3 show a more restricted geographical distribution limited to East Africa, India, and the shores of the Indian Ocean. The strains of lineage 1 and lineage 3 include EAI and CAS spoligotype clusters, respectively, and the EAI spoligotype cluster is accepted as containing the "ancient" M. tuberculosis strains (20). In this study, no isolate belonging to the EAI family was found and only 0.9% (4/470) of all isolates belonged to the CAS family.…”

Section: Discussionmentioning

confidence: 60%

Genotype distribution of Mycobacterium tuberculosis in theAegean Region and associated demographic factors

Çavuşoğlu¹,

Yılmaz²,

Durusoy³

et al. 2017

Turk J Med Sci

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IntroductionAccording to World Health Organization data, although there is a decreasing trend in tuberculosis (TB) incidence, prevalence, and mortality worldwide, the number of new TB cases in 2014 was estimated as 9.6 million, including 5.4 million men, 3.2 million women, and 1 million children. In 2014, 1.5 million individuals died because of TB (1).The incidence of TB in Turkey has dropped from 52.2/100,000 in 1980 to 26/100,000 in 2005 and 18/100,000 in 2014 (1-3). In total, 15,679 new TB cases, consisting of 59% pulmonary, 37% extrapulmonary, and 4% simultaneous pulmonary and extrapulmonary TB cases, were reported in Turkey in 2011. Among these cases, 59% of patients were males and 41% were females, and the highest incidence rates for both sexes were over the age of 65 years (2).The Aegean Region is the second-ranking region in Turkey according to the Human Development Index and population density and it hosts 1/8 of Turkey's population. İzmir is the largest city of the region and Turkey's third largest city with its 4,113,000 inhabitants receiving internal migration both from inside and outside the region (4,5). TB incidence in İzmir is lower than overall in Turkey: 17.7/100,000 in 2011. In İzmir, a total of 700 cases were reported in 2011 and 61% of the cases were pulmonary, 33% extrapulmonary, and 6% both pulmonary and extrapulmonary. Among the patients, 64% were male and 36% were female (2).The aims of this study were to determine the genotypes of Mycobacterium tuberculosis strains isolated in Ege University Medical School's hospital in 2009-2014; to Background/aim: The Aegean Region is the second-ranking region in Turkey according to the Human Development Index and population density and it hosts 1/8 of Turkey's population. İzmir is the largest city of the region, receiving internal migration both from inside and outside the region. The tuberculosis incidence in İzmir is lower than overall in Turkey: 17.7/100,000 in 2011. Our aims were to determine genotypes of Mycobacterium tuberculosis isolates; to explore possible associations between genotypes with casedemographic data, clinical presentation, and antimicrobial susceptibility patterns; and to determine variations in genotype distribution of strains isolated in

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SITVITWEB – A publicly available international multimarker database for studying Mycobacterium tuberculosis genetic diversity and molecular epidemiology

Cited by 395 publications

References 43 publications

Turkish and Japanese Mycobacterium tuberculosis sublineages share a remote common ancestor

Turkish and Japanese Mycobacterium tuberculosis sublineages share a remote common ancestor

Genetic profile of Mycobacterium tuberculosis and treatment outcomes in human pulmonary tuberculosis in Tanzania

Genotype distribution of Mycobacterium tuberculosis in theAegean Region and associated demographic factors

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