Genetic Variation of the Mycobacterium tuberculosis in North of Iran; the Golestan Province

Kochkaksaraei, Maya Babai; Kaboosi, Hami; Ghaemi, Ezzat Allah

doi:10.5812/ircmj.91553

Cited by 7 publications

(5 citation statements)

References 27 publications

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…İran'da 162 MTK izolatının dâhil edildiği bir çalışmada, 15 lokuslu MIRU-VNTR sonuçlarına göre NEW-1 (%22.2) ve Beijing (%13.6) ailelerinin en sık görülen aileler olduğu belirtilmiştir. Çalışma sonuçlarına göre Beijing izolatlarının tedavilerinde sorunlar yaşandığı ve diğer ilaçlarla göre SM direncinin hâlâ yüksek olduğu ifade edilmiştir (15) . Spoligotiplendirme yöntemi ile 234 MTK izolatının genotip analizinin yapıldığı bir çalışmada, LAM (%37.2) ailesinin en yaygın görünen aile olduğu, bunu sırasıyla Haarlem (%15.8), T (%8.1), U (%3.4), S (%2.6), X (%2.1) ve Beijing (%0.9) ailelerinin izlediği belirtilmiştir.…”

Section: Discussionunclassified

Genotyping of Mycobacterium tuberculosis Complex Isolates from Patients with Tuberculosis by MIRU-VNTR and Spoligotyping Methods

Biltekin,

Ülger,

Kayar

et al. 2023

Turk Mikrobiyol Cemiy Derg

View full text Add to dashboard Cite

Amaç: Tüberküloz, tüm dünyada görülen önemli mortalite ve morbidite ile sonuçlanan, tek bir enfeksiyöz ajanının neden olduğu bakteriyel bir hastalıktır. Tüberküloz basili ile dünya nüfusunun neredeyse dörtte biri enfektedir ve bu hastalıktan dolayı her yıl yaklaşık iki milyon kişi ölmektedir. Bu çalışmada ilimizdeki Mycobacterium tuberculosis kompleks (MTK) izolatlarının genotiplendirilmesi ve bu izolatlara ait moleküler epidemiyolojik verilerinin elde edilmesi amaçlanmıştır.

show abstract

Section: Discussionunclassified

Genotyping of Mycobacterium tuberculosis Complex Isolates from Patients with Tuberculosis by MIRU-VNTR and Spoligotyping Methods

Biltekin,

Ülger,

Kayar

et al. 2023

Turk Mikrobiyol Cemiy Derg

View full text Add to dashboard Cite

show abstract

“…It was rare to find a report of this subset of the EA (L4) lineage in Iranian studies until about a decade ago. Since then, researchers from various regions, especially in the north and the capital, have repeatedly reported it (Kochkaksaraei et al 2019 ; Azimi et al 2018 ). The NEW-1 sub-lineage was identified as the dominant (21.9%) circulating genotype in Iran by a systematic review of studies of the last decade (Hadifar et al 2021 ).…”

Section: Discussionmentioning

confidence: 99%

“…Unexpectedly, 15-locus and even 12-locus analyzes were more discriminative than 24-locus analysis for our isolates (HGDI = 0.943 and 0.867 compared to 0.835, respectively). Numerous studies in Iran have reported the discriminatory power of 15-locus MIRU-VNTR analysis to be very high (HGDI ≥ 0.98) and desirable for the genotypic differentiation of MTB (Kochkaksaraei et al 2019 ; Azimi et al 2018 ; Mousavi et al 2020 ). Nevertheless, a study in China calculated the HGDI of 12-, 15-, and 24-locus analysis for 668 isolates at 0.925, 0.996, and 0.998, respectively (Shi et al 2018 ), which is inconsistent with the present study for the 24-locus analysis.…”

Section: Discussionmentioning

confidence: 99%

Genetic diversity of drug-resistant Mycobacterium tuberculosis clinical isolates from Khuzestan province, Iran

et al. 2022

View full text Add to dashboard Cite

The emergence of drug-resistant strains of the Mycobacterium tuberculosis (MTB) has challenged tuberculosis control programs. So far, few studies using the 24-locus mycobacterial interspersed repetitive unit variable number tandem repeats (MIRU-VNTR) have investigated the genetic diversity of MTB in Iran. This study aimed to determine the genetic diversity of MTB isolates resistant to first-line anti-tuberculosis drugs using 24-locus MIRU-VNTR in southwestern Iran. Out of 6620 MTB clinical isolates, 29 resistant isolates to one or more isoniazid, rifampin, and ethambutol were detected using drug susceptibility testing by the proportional method. The manual 24-locus MIRU-VNTR was used to determine the MTB resistant isolates’ phylogenetic relationship. MIRU-VNTRplus web application tools were applied to analyze the associated data. Using 24-locus MIRU-VNTR, 13.8% of isolates (n = 4) were distributed in two clusters, and the remaining 86.2% (n = 25) showed a unique pattern. Four clonal complexes were observed in the minimum spanning tree based on the double-locus variant. Most isolates belonged to Delhi/CAS (34.5%, 10/29) and NEW-1 (24.1%, 7/29) sub-lineages, followed by EAI and LAM with a frequency of 6.9% (2/29) and 3.5% (1/29), respectively. Eight isolates (27.6%) did not match any genotype in the database. The 24-locus MIRU-VNTR showed a high discriminatory power; however, the 15-locus and 12-locus set analyses were more discriminative. Our study revealed a high degree of genetic diversity among drug-resistant MTB isolates, which could be interpreted as the low rate of person-to-person transmission in this region. The 15-locus MIRU-VNTR would be recommended for preliminary genotyping of drug-resistant MTB.

show abstract

“…Different studies showed that there is a remarkable genotypic diversity among Mtb population in Iran ( Merza et al, 2010 ; Mansoori et al, 2018 ; Hadifar et al, 2019b , 2021 ; Kochkaksaraei et al, 2019 ; Vaziri et al, 2019 ). According to the reports, certain genotypes, such as CAS, NEW-1, and Beijing are more medically important than other genotypes in this geographical region.…”

Section: Discussionmentioning

confidence: 99%

The shortcut of mycobacterial interspersed repetitive unit-variable number tandem repeat typing for Mycobacterium tuberculosis differentiation

et al. 2022

View full text Add to dashboard Cite

The 24-loci mycobacterial interspersed repetitive unit-variable number tandem repeat (MIRU-VNTR) genotyping has been used as an international standard method for Mycobacterium tuberculosis (Mtb) genotyping. However, different optimized VNTR loci sets for improving the discrimination of specific Mtb genotypes have been proposed. In this regard, we investigated the efficacy of accumulation of the percentage differences (APDs) compared with the least absolute shrinkage and selection operator (LASSO) regression strategy to identify a customized genotype-specific VNTR loci set which provides a resolution comparable to 24-loci MIRU-VNTR in divergent Mtb populations. We utilized Spoligotyping and 24-loci MIRU-VNTR typing for genotyping 306 Mtb isolates. The APD and LASSO regression approaches were used to identify a customized VNTR set in our studied isolates. Besides, the Hunter-Gaston discriminatory index (HGDI), sensitivity, and specificity of each selected loci set were calculated based on both strategies. The selected loci based on LASSO regression compared with APD-based loci showed a better discriminatory power for identifying all studied genotypes except for T genotype, which APD-based loci showed promising discriminative power. Our findings suggested the LASSO regression rather than the APD approach is more effective in the determination of possible discriminative VNTR loci set to precise discrimination of our studied Mtb population and may be beneficial to be used in finding reduced number loci sets in other Mtb genotypes or sublineages. Moreover, we proposed customized genotype-specific MIRU-VNTR loci sets based on the LASSO regression and APD approaches for precise Mtb strains identification. As the proposed VNTR sets offered a comparable discriminatory power to the standard 24 MIRU-VNTR loci set could be promising alternatives to the standard genotyping for using in resource-limited settings.

show abstract

Genetic Variation of the Mycobacterium tuberculosis in North of Iran; the Golestan Province

Cited by 7 publications

References 27 publications

Genotyping of Mycobacterium tuberculosis Complex Isolates from Patients with Tuberculosis by MIRU-VNTR and Spoligotyping Methods

Genotyping of Mycobacterium tuberculosis Complex Isolates from Patients with Tuberculosis by MIRU-VNTR and Spoligotyping Methods

Genetic diversity of drug-resistant Mycobacterium tuberculosis clinical isolates from Khuzestan province, Iran

The shortcut of mycobacterial interspersed repetitive unit-variable number tandem repeat typing for Mycobacterium tuberculosis differentiation

Contact Info

Product

Resources

About