Phylogenetic Characterization of the 5' Untranslated Region of Untypable HCV Genotypes Circulating in Pakistan.

IF 3.2 4区医学 Q3 VIROLOGY Intervirology Pub Date : 2020-12-22 DOI:10.1159/000512133

Usman Ghani, Irshad Ur Rehman, Muhammad Ali, Ayyaz Khan, Sana Ullah, Liaqat Ali, Sadia Butt

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引用次数: 0

Abstract

Introduction: Commercial methods for HCV genotyping is challenged by the increased prevalence of untypable genotypes in Pakistan.

Objective: The aim of the current study was to perform nucleotide sequencing of 5' UTR region for genotyping of viral isolates circulating in Peshawar, Pakistan.

Methods: The total number of commercially untypable samples were 94 in which 18 samples were sequenced for the characterization of 5' UTR region. Post-sequencing analysis was performed for genotype identification (n = 18) and molecular phylogenetic analysis.

Results: The current study reveals different genotypes, that is, 10/18 viral isolates were found to be genotype 3a (55.55%), 3 isolates (genotype 3b, 16.66%), 2 isolates (genotype 6h/6g, 11.11%), 2 (6g/d, 11.11%), and 1 sample (genotype 1c, 5.55%). In addition, genotype 3a is the dominant representative of HCV circulating in Pakistan and has been increasing across the country.

Conclusion: The current study also reveals that genotype 6 (2 were genotype 6h/6g and 2 were 6g/d) is also circulating in Pakistan and not restricted to South China and Hong Kong.

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巴基斯坦流行的无法识别的 HCV 基因型的 5' 非翻译区系统发育特征。

导言：在巴基斯坦，由于不可分型基因型的流行率增加，HCV 基因分型的商业方法面临挑战：本研究旨在对巴基斯坦白沙瓦市流行的病毒分离株进行 5' UTR 区域核苷酸测序，以进行基因分型：方法：共采集了 94 份商业上无法分型的样本，并对其中 18 份样本的 5' UTR 区域进行了测序。测序后进行了基因型鉴定（n = 18）和分子系统学分析：目前的研究揭示了不同的基因型，即发现 10/18 个病毒分离株为基因型 3a（55.55%）、3 个分离株（基因型 3b，16.66%）、2 个分离株（基因型 6h/6g，11.11%）、2 个（6g/d，11.11%）和 1 个样本（基因型 1c，5.55%）。此外，基因型 3a 是在巴基斯坦流行的 HCV 的主要代表，并且在全国范围内呈上升趋势：目前的研究还显示，基因型 6（2 例为基因型 6h/6g，2 例为基因型 6g/d）也在巴基斯坦流行，并不局限于华南地区和香港。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Intervirology 医学-病毒学

CiteScore

5.40

自引率

0.00%

发文量

审稿时长

6-12 weeks

期刊介绍： ''Intervirology'' covers progress in both basic and clinical virus research, and aims to provide a forum for the various disciplines within virology. Issues publishing original papers alternate with thematic issues, focusing on clearly defined topics. This thematic concentration serves to make timely reviews, research reports and controversy easily accessible to both specialists in the field and those who want to keep track of the latest developments outside their own area of interest. In addition to original papers, regular issues publish short communications and letters to the editor to provide readers with a forum for the exchange of ideas and comments. The scope encompasses work on the molecular biology of human and animal viruses, including genome organization and regulation, and the structure and function of viral proteins. The pathogenesis, immunology, diagnosis, epidemiology, prophylaxis and therapy of viral diseases are considered.