Genotype diversity of hepatitis C virus (HCV) in HCV-associated liver disease patients in Indonesia

Utama, Andi; Tania, Navessa Padma; Dhenni, Rama; Gani, Rino Alvani; Hasan, Irsan; Sanityoso, Andri; Lelosutan, Syafruddin A.R.; Martamala, Ruswhandi; Lesmana, Laurentius A; Sulaiman, Ali; Tai, Susan

doi:10.1111/j.1478-3231.2010.02280.x

Cited by 33 publications

(22 citation statements)

References 37 publications

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“…HCV-2a was previously reported as the most common (52z) among the HCV clones obtained from blood donors in Indonesia, followed by HCV-1b (15z), HCV-1a (7z), and HCV-1c (7z), which is a unique Indonesian subtype (22). In a more recent study of patients with chronic liver disease, Utama et al reported that HCV 1b (47.3z) was the most prevalent subtype, followed by 1c (18.7z), 3k (10.7z), 2a (10.0z), 1a (6.7z), 2e (5.3z), 2f (0.7z), and 3a (0.7z) (37). Among people with HCV-HIV co-infection in Surabaya, those who were positive for anti-HCV antibodies showed HCV-1a (31.5z) as the predominant subtype, followed by 3a (23.3z), 1c (10.9z), 1b (9.6z), 3k (4.1z), 2a (1.4z), 4a (1.4z), and genotype 1 (16.4z) (19).…”

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confidence: 99%

High Rates of Hepatitis B Virus (HBV), Hepatitis C Virus (HCV), and Human Immunodeficiency Virus Infections and Uncommon HBV Genotype/Subtype and HCV Subtype Distributions among Transgender Individuals in Surabaya, Indonesia

et al. 2016

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SUMMARY:Transgender people are at a high risk for sexually transmitted viruses such as hepatitis B virus (HBV) and human immunodeficiency virus (HIV). Moreover, Indonesia has a moderate-to-high rate of HBV infection and rapid epidemic growth of HIV infection; hepatitis C virus (HCV) infection can co-occur with HBV and HIV infections. In this study, 10 of 107 individuals (9.3z) were positive for HBV surface antigen (HBsAg) and/or HBV DNA, whereas 19 of 101 individuals (18.8z) with negative results for HBsAg were positive for HBV core antibody (anti-HBc). Seven of the 107 individuals (6.5z) were anti-HCV positive, and 16 of the 100 tested samples (16.0z) were HIV positive. Genotype and subtype analyses of all 10 HBV DNA (6 HBsAg positive and 4 anti-HBc positive) strains showed that 3 were of the HBV genotype/HBsAg subtype C/adrq ＋ , one was of C/adw2, and 5 were of B/adw2. The HCV subtype distribution showed that 33.3z were of HCV-1b, and 66.7z were of HCV-3k (n ＝ 6). These distributions differed from those found in the general population of Surabaya, Indonesia. Interestingly, HIV subtype analysis showed a high prevalence of HIV, with possible recombinants of CRF01_AE and subtype B.

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confidence: 99%

High Rates of Hepatitis B Virus (HBV), Hepatitis C Virus (HCV), and Human Immunodeficiency Virus Infections and Uncommon HBV Genotype/Subtype and HCV Subtype Distributions among Transgender Individuals in Surabaya, Indonesia

et al. 2016

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“…HCV-2 exhibits high genetic diversity in West Africa, where it has thought to have endemically persisted and spread for at least 500 years (20). In addition, isolated pockets of endemic HCV-2 transmission have been found in geographic regions out-side Africa, including the Caribbean (21,39), Indonesia (41), and Vietnam (26). These lineages fall within the greater African diversity, but the extent of their divergence suggests dissemination from Africa before the rise of global travel and modern medicine (20).…”

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Colonial History and Contemporary Transmission Shape the Genetic Diversity of Hepatitis C Virus Genotype 2 in Amsterdam

Markov

Laar

Thomas

et al. 2012

J Virol

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g Evolutionary analysis of hepatitis C virus (HCV) genome sequences has provided insights into the epidemic history and transmission of this widespread human pathogen. Here we report an exceptionally diverse set of 178 HCV genotype 2 (HCV-2) isolates from 189 patients in Amsterdam, comprising 8 distinct HCV subtypes and 10 previously not recognized, unclassified lineages. By combining study subjects' demographic information with phylogeographic and molecular clock analyses, we demonstrate for the first time that the trans-Atlantic slave trade and colonial history were the driving forces behind the global dissemination of HCV-2. We detect multiple HCV-2 movements from present-day Ghana/Benin to the Caribbean during the peak years of the slave trade (1700 to 1850) and extensive transfer of HCV-2 among the Netherlands and its former colonies Indonesia and Surinam over the last 150 years. The latter coincides with the bidirectional migration of Javanese workers between Indonesia and Surinam and subsequent immigration to the Netherlands. In addition, our study sheds light on contemporary trends in HCV transmission within the Netherlands. We observe multiple lineages of the epidemic subtypes 2a, 2b, and 2c (together 67% of HCV-2 infections in Amsterdam), which cluster according to their suspected routes of transmission, specifically, injecting drug use (IDU) and contaminated blood/blood products. Understanding the epidemiological processes that generated the global pattern of HCV diversity seen today is critical for exposing associations between populations, risk factors, and specific HCV subtypes and might help HCV screening and prevention campaigns to minimize the future burden of HCV-related liver disease.

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“…In the case of HCV2c, the ID had 3033 AA protein sequences (27) . The HCV2d, the ID contained 149 AA protein sequences (34) .The HCV2e study allowed us to obtain ID of 119 AA protein sequences (33) . In the case of HCV2f, the ID had 93 AA protein sequences (33) .…”

Section: Exposed Protein Databases Hcv Genotypesmentioning

confidence: 99%

SEQUENCE SIMILARITY BETWEEN THYROID SELF-PROTEIN AND HEPATITIS C VIRUS POLYPROTEIN: possible triggering mechanism of autoimmune thyroiditis

Sousa

Paraná

Andrade

2016

Arq. Gastroenterol.

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-Background -Exposure to viral antigens that share amino acid sequence similar with self-antigens might trigger autoimmune diseases in genetically predisposed individuals, and the molecular mimicry theory suggests that epitope mimicry between the virus and human proteins can activate autoimmune disease. Objective -The purpose of this study is to explore the possible sequence similarity between the amino acid sequences of thyroid self-protein and hepatitis C virus proteins, using databanks of proteins and immunogenic peptides, to explain autoimmune thyroid disease. Methods -Were performed the comparisons between the amino acid sequence of the hepatitis C virus polyprotein and thyroid self-protein human, available in the database of National Center for Biotechnology Information on Basic Local Alignment Search Tool. Results -The sequence similarity was related each hepatitis C virus genotype to each thyroid antigen. The similarities between the thyroid and the viral peptides ranged from 21.0 % (31 identical residues out of 147 amino acid in the sequence) to 71.0% (5 identical residues out of 7 amino acid in the sequence). Conclusion -Bioinformatics data, suggest a possible pathogenic link between hepatitis C virus and autoimmune thyroid disease. Through of molecular mimicry is observed that sequences similarities between viral polyproteins and self-proteins thyroid could be a mechanism of induction of crossover immune response to self-antigens, with a breakdown of self-tolerance, resulting in autoimmune thyroid disease. HEADINGS -Hepacivirus. Thyroiditis. Amino acid sequence homology. Computational biology.

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Genotype diversity of hepatitis C virus (HCV) in HCV-associated liver disease patients in Indonesia

Abstract: Hepatitis C virus core sequence (237 bases) could identify the HCV subtype and the prevalence of HCV subtype based on core sequence was similar to those based on the NS5B region.

Cited by 33 publications

References 37 publications

High Rates of Hepatitis B Virus (HBV), Hepatitis C Virus (HCV), and Human Immunodeficiency Virus Infections and Uncommon HBV Genotype/Subtype and HCV Subtype Distributions among Transgender Individuals in Surabaya, Indonesia

High Rates of Hepatitis B Virus (HBV), Hepatitis C Virus (HCV), and Human Immunodeficiency Virus Infections and Uncommon HBV Genotype/Subtype and HCV Subtype Distributions among Transgender Individuals in Surabaya, Indonesia

Colonial History and Contemporary Transmission Shape the Genetic Diversity of Hepatitis C Virus Genotype 2 in Amsterdam

SEQUENCE SIMILARITY BETWEEN THYROID SELF-PROTEIN AND HEPATITIS C VIRUS POLYPROTEIN: possible triggering mechanism of autoimmune thyroiditis

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