Hepatitis C virus Infection among Patients at Hospital Tengku Ampuan Afzan, Kuantan: Genotypes Distribution, RNA sequence Variation, Risk Factors and Co-morbidities

Hepatitis C virus (HCV) genotyping is very important for the clinical management of HCV-infected patients. HCV strains demonstrate a high degree of genetic heterogeneity. The 5’ un-translated region (5’UTR) of HCV is the most highly conserved region of the virus genome, making this region ideal targ...

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Main Authors:	Abdul Rahman, Siti Nurul Fazlin, Hamzah, Hairul Aini, Mustafa Mahmoud, Mohammed Imad Al-Deen, Hasmoni, Mohamed Hadzri
Format:	Conference or Workshop Item
Language:	English English English English English
Published:	2015
Subjects:	QR Microbiology
Online Access:	http://irep.iium.edu.my/47612/ http://irep.iium.edu.my/47612/ http://irep.iium.edu.my/47612/3/Fazlin_abstract.pdf http://irep.iium.edu.my/47612/4/poster.ppt http://irep.iium.edu.my/47612/6/Poster_Presentations_for_Day_1_and_day_2.pdf http://irep.iium.edu.my/47612/7/Certificate.pdf http://irep.iium.edu.my/47612/11/Cover_page_abstract_book.pdf

id	iium-47612
recordtype	eprints
spelling	iium-476122016-05-23T02:39:07Z http://irep.iium.edu.my/47612/ Hepatitis C virus Infection among Patients at Hospital Tengku Ampuan Afzan, Kuantan: Genotypes Distribution, RNA sequence Variation, Risk Factors and Co-morbidities Abdul Rahman, Siti Nurul Fazlin Hamzah, Hairul Aini Mustafa Mahmoud, Mohammed Imad Al-Deen Hasmoni, Mohamed Hadzri QR Microbiology Hepatitis C virus (HCV) genotyping is very important for the clinical management of HCV-infected patients. HCV strains demonstrate a high degree of genetic heterogeneity. The 5’ un-translated region (5’UTR) of HCV is the most highly conserved region of the virus genome, making this region ideal target for HCV RNA amplification-based detection assays. Additional target to determine the genotypes of HCV is the non-structural (NS) 5B region of the viral genome. The aim of this study was to determine HCV genotypes and identify sequence variances in common genotypes as well as their association with certain factors. Nucleotide sequence analysis of 5’UTR and NS5B region were performed to identify viral genotypes of 40 HCV infected patients attending Gastroenterology Clinic, HTAA Kuantan Pahang. Of the 40 samples, 39 (97.5%) were tested positive for HCV RNA. RNA-positive isolates were subjected to direct sequencing and the results were compared with reference sequences from NCBI homepage. Based on the analysis of both of the above regions, 31 (77.5%) isolates were successfully classified into their genotypes and subtypes; 3a (57.5%), 1a (12.5%), 3b (2.5%) and 1b (2.5%). No genotype 2, 4, 5 and 6 were found in this study. However, there was one mixed-genotype (3a/1a) HCV infection. Sequence variations were analyzed in both regions, NS5B region demonstrated greater genetic variability in its sequence than 5’UTR. No significant association was found between HCV genotypes with patient’s demographic data, risk factors, alcohol consumption and co-infection with HBV or HIV. In conclusion, the use of the 5’UTR and NS5B-based assays proved to be a sensitive and reliable method for HCV RNA detection and genotyping. Genotype 3 followed by genotype 1 were the common HCV genotypes found in this study population. The base sequences of both genotypes varied at certain locations in both the 5’UTR and NS5B regions however NS5B region sequences displayed higher heterogeneity. Furthermore, no risk factors and co-morbidities were linked to HCV genotypes. 2015-12-07 Conference or Workshop Item PeerReviewed application/pdf en http://irep.iium.edu.my/47612/3/Fazlin_abstract.pdf application/pdf en http://irep.iium.edu.my/47612/4/poster.ppt application/pdf en http://irep.iium.edu.my/47612/6/Poster_Presentations_for_Day_1_and_day_2.pdf application/pdf en http://irep.iium.edu.my/47612/7/Certificate.pdf application/pdf en http://irep.iium.edu.my/47612/11/Cover_page_abstract_book.pdf Abdul Rahman, Siti Nurul Fazlin and Hamzah, Hairul Aini and Mustafa Mahmoud, Mohammed Imad Al-Deen and Hasmoni, Mohamed Hadzri (2015) Hepatitis C virus Infection among Patients at Hospital Tengku Ampuan Afzan, Kuantan: Genotypes Distribution, RNA sequence Variation, Risk Factors and Co-morbidities. In: International Congress of the Malaysian Society for Microbiology 2015 (7-10 December 2015) hosted in Bayview Beach resort, Penang, Malaysia, 7-10 Dec 2015, Penang. (Unpublished) http://www.mymicro.org/icmsm2015.php
repository_type	Digital Repository
institution_category	Local University
institution	International Islamic University Malaysia
building	IIUM Repository
collection	Online Access
language	English English English English English
topic	QR Microbiology
spellingShingle	QR Microbiology Abdul Rahman, Siti Nurul Fazlin Hamzah, Hairul Aini Mustafa Mahmoud, Mohammed Imad Al-Deen Hasmoni, Mohamed Hadzri Hepatitis C virus Infection among Patients at Hospital Tengku Ampuan Afzan, Kuantan: Genotypes Distribution, RNA sequence Variation, Risk Factors and Co-morbidities
description	Hepatitis C virus (HCV) genotyping is very important for the clinical management of HCV-infected patients. HCV strains demonstrate a high degree of genetic heterogeneity. The 5’ un-translated region (5’UTR) of HCV is the most highly conserved region of the virus genome, making this region ideal target for HCV RNA amplification-based detection assays. Additional target to determine the genotypes of HCV is the non-structural (NS) 5B region of the viral genome. The aim of this study was to determine HCV genotypes and identify sequence variances in common genotypes as well as their association with certain factors. Nucleotide sequence analysis of 5’UTR and NS5B region were performed to identify viral genotypes of 40 HCV infected patients attending Gastroenterology Clinic, HTAA Kuantan Pahang. Of the 40 samples, 39 (97.5%) were tested positive for HCV RNA. RNA-positive isolates were subjected to direct sequencing and the results were compared with reference sequences from NCBI homepage. Based on the analysis of both of the above regions, 31 (77.5%) isolates were successfully classified into their genotypes and subtypes; 3a (57.5%), 1a (12.5%), 3b (2.5%) and 1b (2.5%). No genotype 2, 4, 5 and 6 were found in this study. However, there was one mixed-genotype (3a/1a) HCV infection. Sequence variations were analyzed in both regions, NS5B region demonstrated greater genetic variability in its sequence than 5’UTR. No significant association was found between HCV genotypes with patient’s demographic data, risk factors, alcohol consumption and co-infection with HBV or HIV. In conclusion, the use of the 5’UTR and NS5B-based assays proved to be a sensitive and reliable method for HCV RNA detection and genotyping. Genotype 3 followed by genotype 1 were the common HCV genotypes found in this study population. The base sequences of both genotypes varied at certain locations in both the 5’UTR and NS5B regions however NS5B region sequences displayed higher heterogeneity. Furthermore, no risk factors and co-morbidities were linked to HCV genotypes.
format	Conference or Workshop Item
author	Abdul Rahman, Siti Nurul Fazlin Hamzah, Hairul Aini Mustafa Mahmoud, Mohammed Imad Al-Deen Hasmoni, Mohamed Hadzri
author_facet	Abdul Rahman, Siti Nurul Fazlin Hamzah, Hairul Aini Mustafa Mahmoud, Mohammed Imad Al-Deen Hasmoni, Mohamed Hadzri
author_sort	Abdul Rahman, Siti Nurul Fazlin
title	Hepatitis C virus Infection among Patients at Hospital Tengku Ampuan Afzan, Kuantan: Genotypes Distribution, RNA sequence Variation, Risk Factors and Co-morbidities
title_short	Hepatitis C virus Infection among Patients at Hospital Tengku Ampuan Afzan, Kuantan: Genotypes Distribution, RNA sequence Variation, Risk Factors and Co-morbidities
title_full	Hepatitis C virus Infection among Patients at Hospital Tengku Ampuan Afzan, Kuantan: Genotypes Distribution, RNA sequence Variation, Risk Factors and Co-morbidities
title_fullStr	Hepatitis C virus Infection among Patients at Hospital Tengku Ampuan Afzan, Kuantan: Genotypes Distribution, RNA sequence Variation, Risk Factors and Co-morbidities
title_full_unstemmed	Hepatitis C virus Infection among Patients at Hospital Tengku Ampuan Afzan, Kuantan: Genotypes Distribution, RNA sequence Variation, Risk Factors and Co-morbidities
title_sort	hepatitis c virus infection among patients at hospital tengku ampuan afzan, kuantan: genotypes distribution, rna sequence variation, risk factors and co-morbidities
publishDate	2015
url	http://irep.iium.edu.my/47612/ http://irep.iium.edu.my/47612/ http://irep.iium.edu.my/47612/3/Fazlin_abstract.pdf http://irep.iium.edu.my/47612/4/poster.ppt http://irep.iium.edu.my/47612/6/Poster_Presentations_for_Day_1_and_day_2.pdf http://irep.iium.edu.my/47612/7/Certificate.pdf http://irep.iium.edu.my/47612/11/Cover_page_abstract_book.pdf
first_indexed	2023-09-18T21:07:43Z
last_indexed	2023-09-18T21:07:43Z
_version_	1777411045454774272

Hepatitis C virus Infection among Patients at Hospital Tengku Ampuan Afzan, Kuantan: Genotypes Distribution, RNA sequence Variation, Risk Factors and Co-morbidities

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