Frequency of the Mycobacterium tuberculosis RDRio genotype and its association with multidrug-resistant tuberculosis

Abstract

Background In recent decades, Mycobacterium tuberculosis with the RD Rio genotype, frequently isolated from tuberculosis patients in Rio de Janeiro, has become part of the Latin American – Mediterranean (LAM) family and has been associated with multidrug-resistant tuberculosis (MDR-TB). The aim of this study was to investigate the frequency of M. tuberculosis RD Rio in the state of Minas Gerais, Brazil, and its relationship with MDR-TB. Methods For convenience, 172 susceptible and 63 MDR M. tuberculosis isolates were taken from pulmonary samples from patients diagnosed between January 2007 and December 2011. The DNA extracted from these isolates was analyzed by spoligotyping, PCR-RFLP to characterize fbpC 103 / Ag85C103, multiplex PCR to detect RD Rio and RD174, and MIRU-VNTR 24 loci . Results Among the 235 isolates, the RD Rio pattern was identified in 122 (51.9%) isolates (IC 0.45–0.58), with 100 (42.5%) wild-type and 13 (5.5%) mixed pattern isolates, whereas RD174 was identified in 93 of the 122 RD Rio positive samples (76.3%). The LAM family and the LAM9 lineage were the most frequently identified among the isolates in this study. Among the 63 MDR isolates , 41 (65.1%) were RD Rio and 28 (44.4%) RD174. Conclusion The association of both deletions with MDR proved to be statistically significant, corroborating the few reports that have associated RD Rio with MDR. Electronic supplementary material The online version of this article (10.1186/s12879-019-4152-7) contains supplementary material, which is available to authorized users.

Genomic epidemiology of Mycobacterium tuberculosis in Santa Catarina, Southern Brazil

“…The definition of M.tb lineages based in SNP-typing method was performed according to the 62 SNPs barcode proposed by Coll et al 2014 56 and implemented in TB-Profiler . The fbp C 103 polymorphism (G->A at codon 103) was used to differentiate LAM strains from non-LAM strains 57 .…”

“…The definition of M.tb lineages based in SNP-typing method was performed according to the 62 SNPs barcode proposed by Coll et al 2014 56 and implemented in TB-Profiler. The fbpC 103 polymorphism (G->A at codon 103) was used to differentiate LAM strains from non-LAM strains 57 . Phylogenetic analysis was performed using Snippy pipeline v4.3.6 (https ://githu b.com/tseem ann/snipp y) for variant calling and alignment of all core SNP variants.…”

Genetic Diversity and Transmission of Multidrug-Resistant Mycobacterium tuberculosis strains in Lusaka, Zambia

“…All the 38 LAM strains were confirmed to belong to RD-Rio sub-lineage by multiplex PCR. The RD-Rio sub-lineage is common in Brazil and Portugal and has been associated with high transmissibility, MDR, and severe form of TB (Lazzarini et al 2007;David et al 2012;Mokrousov et al 2016;De Almeida et al 2019) It may be speculated that the ancestral strain might have come to Zambia through neighboring former Portuguese colonies such as Mozambique and Angola, which then gave rise to LAM11-ZWE that for some reason became endemic in this region (Mokrousov et al 2016;Brynildsrud et al 2018). Moreover, LAM1 and LAM9 spoligotypes are reported in high prevalence among LAM strains in Angola while LAM11_ZWE and LAM9 in Mozambique (Viegas et al 2010;Perdigão et al 2017).…”

Genomic Diversity of the Rarely Observed Genotype of the Mycobacterium tuberculosis Central Asian (CAS) Lineage 3 from North Brazil

“…There is compelling evidence that CAS lineage may have spread across Africa and Eurasia through ancient African-Asian trade networks and the routes of the Silk Road early in the first millennium [1]. Molecular data and identifiers from the CAS strains deposited in SITIVIT2 largely originate from countries along this route: Afghanistan (3), Belgium (1), Bangladesh (8), Brazil (2), China (3), Ethiopia (7), Great Britain (3), India (100), Iran (4), Iraque (24), Italy (1), Jamaica (1), Myanmar (6), Mozambique (1), Malawi (1), Marrocos (2), The Netherlands (1), Nepal (1), Oman (25), Pakistan (38), Saudi-Arabia (38), South Africa (5), Sudan (4), Somalia (9), Tanzania (7), Uganda (3), United States (15), Yemen (2), and Zambia (4). As L3 is underrepresented in this database, important numbers from medium and high-TB-income countries might be missing, since 189 entries are from an unknown origin.…”