Practical approach to detection and surveillance of emerging highly resistant Mycobacterium tuberculosis Beijing 1071-32-cluster
Abstract Ancient sublineage of the Mycobacterium tuberculosis Beijing genotype is endemic and prevalent in East Asia and rare in other world regions. While these strains are mainly drug susceptible, we recently identified a novel clonal group Beijing 1071-32 within this sublineage emerging in Siberi...
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Nature Portfolio
2021
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oai:doaj.org-article:094c659a70fb4f98a78b23dc78ccaef52021-11-08T10:56:12ZPractical approach to detection and surveillance of emerging highly resistant Mycobacterium tuberculosis Beijing 1071-32-cluster10.1038/s41598-021-00890-72045-2322https://doaj.org/article/094c659a70fb4f98a78b23dc78ccaef52021-11-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-00890-7https://doaj.org/toc/2045-2322Abstract Ancient sublineage of the Mycobacterium tuberculosis Beijing genotype is endemic and prevalent in East Asia and rare in other world regions. While these strains are mainly drug susceptible, we recently identified a novel clonal group Beijing 1071-32 within this sublineage emerging in Siberia, Russia and present in other Russian regions. This cluster included only multi/extensive drug resistant (MDR/XDR) isolates. Based on the phylogenetic analysis of the available WGS data, we identified three synonymous SNPs in the genes Rv0144, Rv0373c, and Rv0334 that were specific for the Beijing 1071-32-cluster and developed a real-time PCR assay for their detection. Analysis of the 2375 genetically diverse M. tuberculosis isolates collected between 1996 and 2020 in different locations (European and Asian parts of Russia, former Soviet Union countries, Albania, Greece, China, Vietnam, Japan and Brazil), confirmed 100% specificity and sensitivity of this real-time PCR assay. Moreover, the epidemiological importance of this strain and the newly developed screening assay is further stressed by the fact that all identified Beijing 1071-32 isolates were found to exhibit MDR genotypic profiles with concomitant resistance to additional first-line drugs due to a characteristic signature of six mutations in rpoB450, rpoC485, katG315, katG335, rpsL43 and embB497. In conclusion, this study provides a set of three concordant SNPs for the detection and screening of Beijing 1071-32 isolates along with a validated real-time PCR assay easily deployable across multiple settings for the epidemiological tracking of this significant MDR cluster.Igor MokrousovAnna VyazovayaViacheslav SinkovAlena GerasimovaPanayotis IoannidisWeiwei JiaoPolina KhromovaDimitrios PapaventsisOksana PasechnikJoão PerdigãoNalin RastogiAdong ShenYuriy SkibaNatalia SolovievaPhilip SuffysSilva TafajTatiana UmpelevaDiana VakhrushevaIrina YarusovaSvetlana ZhdanovaViacheslav ZhuravlevOleg OgarkovNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-9 (2021) |
| institution |
DOAJ |
| collection |
DOAJ |
| language |
EN |
| topic |
Medicine R Science Q |
| spellingShingle |
Medicine R Science Q Igor Mokrousov Anna Vyazovaya Viacheslav Sinkov Alena Gerasimova Panayotis Ioannidis Weiwei Jiao Polina Khromova Dimitrios Papaventsis Oksana Pasechnik João Perdigão Nalin Rastogi Adong Shen Yuriy Skiba Natalia Solovieva Philip Suffys Silva Tafaj Tatiana Umpeleva Diana Vakhrusheva Irina Yarusova Svetlana Zhdanova Viacheslav Zhuravlev Oleg Ogarkov Practical approach to detection and surveillance of emerging highly resistant Mycobacterium tuberculosis Beijing 1071-32-cluster |
| description |
Abstract Ancient sublineage of the Mycobacterium tuberculosis Beijing genotype is endemic and prevalent in East Asia and rare in other world regions. While these strains are mainly drug susceptible, we recently identified a novel clonal group Beijing 1071-32 within this sublineage emerging in Siberia, Russia and present in other Russian regions. This cluster included only multi/extensive drug resistant (MDR/XDR) isolates. Based on the phylogenetic analysis of the available WGS data, we identified three synonymous SNPs in the genes Rv0144, Rv0373c, and Rv0334 that were specific for the Beijing 1071-32-cluster and developed a real-time PCR assay for their detection. Analysis of the 2375 genetically diverse M. tuberculosis isolates collected between 1996 and 2020 in different locations (European and Asian parts of Russia, former Soviet Union countries, Albania, Greece, China, Vietnam, Japan and Brazil), confirmed 100% specificity and sensitivity of this real-time PCR assay. Moreover, the epidemiological importance of this strain and the newly developed screening assay is further stressed by the fact that all identified Beijing 1071-32 isolates were found to exhibit MDR genotypic profiles with concomitant resistance to additional first-line drugs due to a characteristic signature of six mutations in rpoB450, rpoC485, katG315, katG335, rpsL43 and embB497. In conclusion, this study provides a set of three concordant SNPs for the detection and screening of Beijing 1071-32 isolates along with a validated real-time PCR assay easily deployable across multiple settings for the epidemiological tracking of this significant MDR cluster. |
| format |
article |
| author |
Igor Mokrousov Anna Vyazovaya Viacheslav Sinkov Alena Gerasimova Panayotis Ioannidis Weiwei Jiao Polina Khromova Dimitrios Papaventsis Oksana Pasechnik João Perdigão Nalin Rastogi Adong Shen Yuriy Skiba Natalia Solovieva Philip Suffys Silva Tafaj Tatiana Umpeleva Diana Vakhrusheva Irina Yarusova Svetlana Zhdanova Viacheslav Zhuravlev Oleg Ogarkov |
| author_facet |
Igor Mokrousov Anna Vyazovaya Viacheslav Sinkov Alena Gerasimova Panayotis Ioannidis Weiwei Jiao Polina Khromova Dimitrios Papaventsis Oksana Pasechnik João Perdigão Nalin Rastogi Adong Shen Yuriy Skiba Natalia Solovieva Philip Suffys Silva Tafaj Tatiana Umpeleva Diana Vakhrusheva Irina Yarusova Svetlana Zhdanova Viacheslav Zhuravlev Oleg Ogarkov |
| author_sort |
Igor Mokrousov |
| title |
Practical approach to detection and surveillance of emerging highly resistant Mycobacterium tuberculosis Beijing 1071-32-cluster |
| title_short |
Practical approach to detection and surveillance of emerging highly resistant Mycobacterium tuberculosis Beijing 1071-32-cluster |
| title_full |
Practical approach to detection and surveillance of emerging highly resistant Mycobacterium tuberculosis Beijing 1071-32-cluster |
| title_fullStr |
Practical approach to detection and surveillance of emerging highly resistant Mycobacterium tuberculosis Beijing 1071-32-cluster |
| title_full_unstemmed |
Practical approach to detection and surveillance of emerging highly resistant Mycobacterium tuberculosis Beijing 1071-32-cluster |
| title_sort |
practical approach to detection and surveillance of emerging highly resistant mycobacterium tuberculosis beijing 1071-32-cluster |
| publisher |
Nature Portfolio |
| publishDate |
2021 |
| url |
https://doaj.org/article/094c659a70fb4f98a78b23dc78ccaef5 |
| work_keys_str_mv |
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