Beijing genotype is the most dominant genotype among clinical isolates of m.tuberculosis in Kazakhstan

Methods of genotyping of M. tuberculosis play important role in tuberculosis (TB) infection control. These techniques are used to detect or exclude laboratory errors, control recurrent cases and determine ways of TB transmission. Today, there are more than 10 methods of genotyping, MIRU-VNTR being one of the most widely used methods in the world

Whole genome sequencing of m. Tuberculosis strains in kazakhstan reveal genomic variants in genes coding pe/ppe protein family specific for mdr/xdr isolates

Worldwide in 2016, around 10.4 million people were diagnosed with TB among which 1.7 million died [1]. Despite the progress in decreasing the global incidence of drug-susceptible TB, multidrug-resistant (MDR) and extensively drug-resistant (XDR) tuberculosis in the past decade led to decreased efficiency of chemotherapy. However, the rate of drug-resistant TB increases annually, especially multidrug-resistant TB (MDR TB) [1]

Genotyping Of M. Tuberculosis Clinical Isolates From New Cases Of Tuberculosis In Kazakhstan

Tuberculosis (TB) remains a major health problem in Kazakhstan. Despite of that the rates of TB disease and mortality decreased from 58,5/100000 and 4,1/100000 in 2015 to 52,7/100000 and 3,4/100000 in 2016 respectively, the rate of multidrug-resistant TB (MDR-TB) increased from 12,2/100000 in 2014 to 13,5/100000 in 2015 [1]; MDR strains associated with resistance to the main two first line anti-TB drugs – isoniazid and rifampicin are the most dangerous. 27 countries relate to high MDR-TB burden countries, 15 of them in the European region, including Kazakhstan [2]; Methods of genotyping of M. tuberculosis play important role in TB infection control. There are more than 10 methods of genotyping, MIRU-VNTR is one of the widely used method in the world

Whole genome sequencing of mycobacterium tuberculosis in Kazakhstan: first sequence results of two clinical isolates

The project is aimed to create the prerequisites for a personalized approach to the diagnosis and treatment of tuberculosis (TB) by identifying and comparing the whole genome sequences of M.tuberculosis strains isolated in Kazakhstan. Analysis for whole genome sequences obtained using the next generation sequencing technology will clarify the factors cause of the formation of highly virulent strains of M.tuberculosis, the evolution of local strains, and genetic markers of drug resistance

MULTIDRUG-RESISTANT TUBERCULOSIS: WHOLE-GENOME SEQUENCING AND BIOINFORMATICS ANALYSIS

Introduction:Tuberculosis (TB) remains a serious public health threat worldwide. It is estimated that approximately one-third of the world’s population has been infected with multidrug-resistant tuberculosis (MDR-TB), and 1.8 million people die of this disease annually. It is extremely important to determinate susceptible and resistant strains with different mutations in genes encoding drug metabolism of Mycobacterium tuberculosis (MTB) strains in Kazakhstan. Materials and Methods: The whole genome sequencing of 8 MDR-TB clinical isolates using next-generation sequencing platform were examined. Results: Both missense and splice mutations, known pathogenic and novel variants were found. Genomic variants (SNPs and indels) in de novo assembled and annotated whole-genomes and specific/ novel variants in drug-resistant genes of MDR strains from Kazakhstan were observed. We identified 1933 non repetitive single nucleotide variations (SNVs), among which a common pool of 1037 SNPs were shared by the 8 isolates. We found several mutations that are known to confer resistance to drugs. The majority of MTB isolates were the Beijing-type strain (lineage 2- East-Asian lineage) and their complete genomes were studied for the first time in Kazakhstan. The most frequent resistance mutations were observed in the katG and rpoB genes, conferring resistance to isoniazid and rifampicin respectively. In addition, WGS analysis allowed the detection of heteroresistance to multiple drugs. Conclusion: These findings may provide a basis for expansion of the reference MTB database, and further investigation of virulence and transmissibility patterns in MDR strains. This study may provide a basis for creation of the reference database, the subsequent study, and comparison with the different drug-resistant MTB isolates circulating in Kazakhstan. Grant references: AP05134737; MES RK

Whole genome sequencing of m. Tuberculosis strains in kazakhstan reveal genomic variants in genes coding pe/ppe protein family specific for mdr/xdr isolates

Worldwide in 2016, around 10.4 million people were diagnosed with TB among which 1.7 million died [1]. Despite the progress in decreasing the global incidence of drug-susceptible TB, multidrug-resistant (MDR) and extensively drug-resistant (XDR) tuberculosis in the past decade led to decreased efficiency of chemotherapy. However, the rate of drug-resistant TB increases annually, especially multidrug-resistant TB (MDR TB) [1]