MIRU-VNTR genotyping of Mycobacterium tuberculosis in a population of patients in Cali, Colombia, 2013-2015
Introduction: Tuberculosis continues to be one of the main public health problems in the world. Together with the HIV infection, it is one of the main causes of death due to infections worldwide. In 2016, 6.3 million new cases of the disease were reported.
Objective: To describe the genetic patterns determined by genotyping using variable-number tandem repeats of mycobacterial interspersed repetitive units (MIRU-VNTR) in the study population and compare them with other studies carried out in Cali, Colombia, and the world.
Materials and methods: We genotyped a total of 105 DNA samples extracted from sputum or culture isolates of the Mycobacterium tuberculosis complex, which were obtained from pulmonary tuberculosis diagnosed patients over the period 2013-2015, in Cali. We performed PCR amplification of 24 loci by MIRU-VNTR on the DNA extracted from the samples. The amplicons were visualized in agarose gel electrophoresis (2%) with SYBR Safe™ staining. Then, the alleles were designated by graphical analysis using the GelAnalyzer 2010 software. These results were analyzed using the UPGMA logarithm and compared with the registers from the MIRU-VNTR plus and SITVITWEB databases.
Results: We genotyped 62 of the samples completely and we obtained 58 different MIRU-VNTR profiles. By comparing with the international databases, we determined the following distributions per lineage: LAM, 54.8%; Haarlem,25.8%; S, 14.5%; Beijing, 3.2%, and Cameroon, 1.6%. The MIRU-VNTR patterns corresponded to 17 different MITs; the most frequent were MIT 190 and MIT 110, with 22.6% and 6.5%, respectively.
Conclusions: These results demonstrated previous observations about the predominance of the LAM and Haarlem lineages in the city, and the presence of the MITs found in another city of Colombia.
['García|David Felipe|DF|', 'Astudillo|Myriam|M|']
D000293:Adolescent D000328:Adult D000368:Aged D000369:Aged, 80 and over D000465:Algorithms D003105:Colombia D004269:DNA, Bacterial D016208:Databases, Factual D004352:Drug Resistance, Microbial D004587:Electrophoresis, Agar Gel D005260:Female D005838:Genotype D060005:Genotyping Techniques D014943:Global Health D006801:Humans D020071:Interspersed Repetitive Sequences D008297:Male D008875:Middle Aged D018598:Minisatellite Repeats D009169:Mycobacterium tuberculosis D010802:Phylogeny D012307:Risk Factors D012959:Socioeconomic Factors D013183:Sputum D014397:Tuberculosis, Pulmonary D055815:Young Adult
Mycobacterium tuberculosis pulmonary minisatellite repeats