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Objective @#To learn the characteristics of second-line drug resistance and related gene mutations of multidrug-resistant Mycobacterium tuberculosis ( MDR-TB ) Beijing genotype strains. @*Methods@#The MDR-TB isolates in Hwa Mei Hospital from 2017 to 2019 were enrolled and detected using RD105 deletion-targeted multiplex polymerase chain reaction (PCR). The proportion method for drug susceptibility test was used to detect the drug-resistant profiles against kanamycin, amikacin, capreomycin, ofloxacin and levofloxacin. The gene sequencing of rrs, tlyA, eis, gidB, gyrA and gyrB was conducted by PCR compared with H37RV strain. The differences in the rates of drug resistance and mutation between Beijing and non-Beijing genotype strains were examined to understand the characteristics of Beijing genotype strains. @*Results@#There were 106 Beijing genotype and 27 non-Beijing genotype strains in 133 MDR-TB isolates. The drug resistance rates of kanamycin, amikacin, capreomycin, ofloxacin and levofloxacin in Beijing genotype strains were 9.43%, 7.55%, 3.77%, 32.08% and 32.08%, respectively. The rates of quasi-extensive and extensive drug resistance in Beijing genotype strains were 30.19% and 7.55%. The gene mutation rates of rrs, tlyA, eis, gidB, gyrA and gyrB in Beijing genotype strains were 7.55%, 7.55%, 1.89%, 2.83%, 36.79% and 2.83%, respectively. There were no significantly differences between Beijing and Non-Beijing genotype strains in the factors above ( P>0.05 ). The gene rrs, tlyA, eis, gidB, gyrA and gyrB had 2, 1, 2, 2, 5 and 3 mutation types, respectively, with single base substitution as the main type. @*Conclusion@#Beijing genotype strains are dominant in MDR-TB, with high resistance to fluoroquinolones and mainly gyrA gene mutation.
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Objective@#To establish and evaluate a multiplex PCR method for rapid identification of Mycobacterium species in order to provide an approach for rapid diagnosis of pathogens causing tuberculosis.@*Methods@#Four genes including 16S rRNA, Rv0577, RD9 and mtbk_20680 were selected to establish the multiplex PCR method. Specific primers were designed and the reaction system and conditions were optimized. The sensitivity and specificity of the multiplex PCR method were evaluated through identifying Mycobacterium africanum (M.africanum), Mycobacterium bovis (M.bovis), M. bovis BCG, seven common non-tuberculosis Mycobacterium (NTM), seven reference species of common respiratory bacteria and 93 clinical strains of Mycobacterium tuberculosis (MTB) isolated from patients with tuberculosis in Gansu Province of China.@*Results@#The fragments of 16S rRNA, Rv0577, RD9 and mtbk_20680 genes were 543 bp, 786 bp, 369 bp and 231 bp in length, respectively. MTB strains of the Beijing genotype were positive for all of the four genes, while the non-Beijing genotype strains were negative for mtbk_20680. M. africanum, M. bovis and M. bovis BCG strains were negative for 16S rRNA and Rv0577. NTM strains only carried 16S rRNA and none of four genes were detected in the seven species of respiratory bacteria. Among the 93 clinical MTB strains, 80 (86.02%) belonged to the Beijing genotype and the other 13 (13.98%) were non-Beijing genotype strains. The specificity of the multiplex PCR method was 100%.@*Conclusions@#The established multiplex PCR method could accurately distinguish Mycobacterium, Mycobacterium tuberculosis complex (MTBC), NTM, MTB, and Beijing and non-Beijing genotype MTB with high sensitivity and specificity.
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Objective To establish and evaluate a multiplex PCR method for rapid identification of Mycobacterium species in order to provide an approach for rapid diagnosis of pathogens causing tuberculo-sis. Methods Four genes including 16S rRNA, Rv0577, RD9 and mtbk_20680 were selected to establish the multiplex PCR method. Specific primers were designed and the reaction system and conditions were opti-mized. The sensitivity and specificity of the multiplex PCR method were evaluated through identifying Myco-bacterium africanum (M. africanum), Mycobacterium bovis (M. bovis), M. bovis BCG, seven common non-tuberculosis Mycobacterium (NTM), seven reference species of common respiratory bacteria and 93 clinical strains of Mycobacterium tuberculosis (MTB) isolated from patients with tuberculosis in Gansu Province of China. Results The fragments of 16S rRNA, Rv0577, RD9 and mtbk_20680 genes were 543 bp, 786 bp, 369 bp and 231 bp in length, respectively. MTB strains of the Beijing genotype were positive for all of the four genes, while the non-Beijing genotype strains were negative for mtbk_20680. M. africanum, M. bovis and M. bovis BCG strains were negative for 16S rRNA and Rv0577. NTM strains only carried 16S rRNA and none of four genes were detected in the seven species of respiratory bacteria. Among the 93 clinical MTB strains, 80 (86. 02％ ) belonged to the Beijing genotype and the other 13 (13. 98％ ) were non-Beijing gen-otype strains. The specificity of the multiplex PCR method was 100％ . Conclusions The established multi-plex PCR method could accurately distinguish Mycobacterium, Mycobacterium tuberculosis complex (MTBC), NTM, MTB, and Beijing and non-Beijing genotype MTB with high sensitivity and specificity.
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Introducción: el conocimiento de los linajes de Mycobacterium tuberculosis es importante para entender el origen, evolución y propagación de la bacteria. Objetivo: determinar los patrones genéticos de M. tuberculosis circulantes en Cuba. Métodos: estudio descriptivo de corte transversal con un componente analítico en Cuba, en el período comprendido de enero de 2009 a diciembre de 2010. Se aplicó la tipificación con oligonucleótidos espaciadores (Spoligotyping) a 308 aislamientos de M. tuberculosis del período 2009-2010. La clasificación en genotipos se realizó según la base de datos internacional SpolDB4. Los resultados se analizaron además con la herramienta web en línea MIRU-VNTRplus y se compararon con los patrones genéticos de M. tuberculosis identificados en 1993-1995 en Cuba. Resultados: se definieron 79 patrones genotípicos diferentes, de los cuales 46 (62 por ciento) fueron patrones no reportados anteriormente en SpolDB4. Los 22 agrupamientos definidos incluyeron al 75,4 por ciento de los aislamientos estudiados. Se encontraron cinco familias genéticas fundamentales: Beijing (25,6 por ciento), S (19,2 por ciento), LAM (16,9 por ciento), Haarlem (16,9 por ciento) y T (5,8 por ciento). La familia S prevaleció en la región Occidental (OR=3,4; 95 por ciento IC:1,8-6,3; p<0,05), Beijing en el Centro de Cuba (OR=6,7; 95 por ciento IC:3,7-11,9; p<0,05) y LAM (OR=3,0; 95 por ciento IC:1,6-5,6; p<0.05) y Haarlem en la zona Oriental (OR=1,8; 95 por ciento IC:1,0-3,4; p<0,05). Conclusiones: se observó una gran diversidad genética entre los aislamientos de M. tuberculosis circulante en Cuba en 2009-2010. En el país, la estructura genética de la población de M. tuberculosis ha variado en el tiempo con una disminución de genotipos endémicos como Haarlem y T y un aumento significativo de S y Beijing. Estos datos aportan elementos importantes para la epidemiología y control de la TB en Cuba(AU)
Introduction: knowledge about Mycobacterium tuberculosis lineages is important to understand the origin, evolution and spread of this bacterium. Objective: determine the genetic patterns of M. tuberculosis circulating in Cuba. Methods: adescriptive cross-sectional study was conducted with an analytical component in Cuba in the period extending from January 2009 to December 2010. Spacer oligonucleotide typing (Spoligotyping) was applied to 308 M. tuberculosis isolates from the period 2009-2010. Classification into genotypes was carried out according to the international database SpolDB4. Results were additionally analyzed with the online tool MIRU-VNTRplus and compared with the M. tuberculosis genetic patterns found in Cuba in 1993-1995. Results: 79 different genotypic patterns were defined, of which 46 (62 percent) had not been previously reported in SpolDB4. The 22 clusters defined included 75.4 percent of the isolates studied. Five main genetic families were found: Beijing (25.6 percent), S (19.2 percent), LAM (16.9 percent), Haarlem (16.9 percent) and T (5.8 percent). The S family prevailed in the Western region (OR=3.4; CI 95 percent:1.8-6.3; p<0.05), Beijing in Central Cuba (OR=6.7; CI 95 percent:3.7-11.9; p<0.05), and LAM (OR=3.0; CI 95 percent:1.6-5.6; p<0.05) and Haarlem in the Eastern region (OR=1.8; CI 95 percent:1.0-3.4; p<0.05). Conclusions: great diversity was observed among the M. tuberculosis isolates circulating in Cuba in the period 2009-2010. The genetic structure of M. tuberculosis has changed in the country with the passing of time, with a reduction in endemic genotypes like Haarlem and T, and a significant increase in S and Beijing. These data contribute important information for epidemiology and TB control in Cuba(AU)
Subject(s)
Humans , Oligonucleotides/genetics , Mycobacterium tuberculosis/genetics , Epidemiology, Descriptive , Cross-Sectional Studies , Molecular Epidemiology/methods , CubaABSTRACT
Objective To evaluate the application of spacer oligonucleotide typing (Spoligotyping) and mycobaeterial interspersed repetitive unit-variable-number tandem repeat (MIRU-VNTR) analysis in the molecular-epidemiological study of tuberculosis and to discuss the characteristics of pediatric Mycobacterium (M.) tuberculosis strains in Chongqing. Methods M. tuberculosis strains isolated and typed by Spoligotyping and MIRU-VNTR respectively, from the children patients in Chongqing and to compare the results from both methods, epidemiologically. Results By means of Spoligotyping, 210 clinical isolates were divided into 2 gene groups, displaying 44 genotypes. Among them, the biggest group was M. tuberculosis Beijing family, including 130 strains (61.90%) ,using the Spoligotyping. From the results of MIRU-VNTR, 24 loci showed different polymorphism and the HGI of different loci set (12 old loci, 15 basic loci and 24-loci set) increased accordingly. The subtle difference in HGI was originated from one locus ETR-B, which was included in the 24-locus system. The diversity of each loci and MIRU-VNTR set for non-Beijing genotype strains was higher than that of the Beijing genotype strains. Conclusion In this study, it was preliminarily confirmed the existence of high polymorphism of M. tuberculosis while the Beijing Family was the main genotype and main prevalent strain in children of Chongqing area. Spoligotyping prior to 15-locus with ETR-B combination seemed more suitable for the massive epidemiological investigation of pediatric tuberculosis patients.
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Purpose : The purpose of this study was to understand the molecular epidemiology of tuberculosis in Khorasan province of Iran was studied by spoligotyping 113 Mycobacterium tuberculosis isolates. The spoligotyping results were in comparison to the word Spoligotyping Database of Institute Pasteur de Guadeloupe (SpolDB4). Spoligotyping data from Iran has rarely been described and there is limited information on the major circulating clades of M. tuberculosis in Iran. Materials and Methods: Spoligotyping was performed on 113 M. tuberculosis isolates from Mashhad patients between November 2004 and September 2005. Results: The study found 57 spoligopatterns. 17 clusters and 32 true orphan genotype. The biggest cluster with 13 isolates had not been previously reported. The Beijing genotype was seen in eight (7.1%) isolates. Conclusions: Genotyping and Spoligotyping gives a unifying framework for both epidemiology and evolutionary analysis of M. tuberculosis populations.
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Objective To identify a unique protein as a novel genetic marker for rapid molecular typing of Mycobacteriutn tuberculosis Beijing genotype strains by comparing the proteome of Beijing genotype strains with non-Beijing strains.Methods Fifty-six clinical isolates of Mycobacterium tuber- culosis were analyzed by spoligotyping to determine genotypes.The two-dimensional electrophoresis (2 DE)was used to compare the global protein patterns between Beijing genotype strains and non Bei jing strains.Differential expressed proteins were measured by matrix assisted laser desorption ioniza tion lime of flight mass spectrometry(MALDI-TOF-MS).The data obtained from peptide mass fingerprinting were compared in protein database.The genes encoding differential expressed proteins and their upstream were sequenced.Results Forty nine of the 56 isolates were Beijing genotype strains and 7 isolates were non-Beijing strains.A unique protein Rv0927c was identified,which is absent in Beijing genotype strains compared with 7 non Beijing strains and H37Rv.There were two characteristic mutations in Beijing genotype strains,a deletion of AGC at nucleotide position 421 of Rv0927c and a 127 G→A muta- tion in the upstream of Rv0927c.but not in non Beijing strains and H37Rv.Conclusion Characteris tic mutations of Rv0927c in Beijing genotype strains can be used as a novel genetic marker for rapid molecular typing of Mycobacteriuln tuberculosis Beijing genotype strains and non Beijing strains.