Phylogenetic Analysis of Isolated HCV Strains from Tunisian Hemodialysis Patients

Kchouk, Fatma Houissa; Gorgi, Yousr; Bouslama, Lamjed; Sfar, Imen; Ayari, Rym; Khiri, Hacène; Halfon, P.; Aouadi, Houda; Ayed, S.; Ayed, K.; Abdallah, T. Ben

doi:10.1089/vim.2012.0043

Cited by 10 publications

(7 citation statements)

References 41 publications

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“…After removal of 187 duplicates, 382 irrelevant titles, and 81 papers with irrelevant abstracts, finally, 14 studies were eligible to be assessed in phylogenetic analyses (33-43, 50-52). In total, 505 sequences of HCV-1a and -1b were obtained from these 14 studies.…”

Section: Resultsmentioning

confidence: 99%

Molecular Tracing of Hepatitis C Virus Genotype 1 Isolates in Iran: A NS5B Phylogenetic Analysis with Systematic Review

et al. 2016

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ContextHepatitis C virus (HCV) is characterized by a high degree of genetic heterogeneity and classified into 7 genotypes and different subtypes. It heterogeneously distributed through various risk groups and geographical regions. A well-established phylogenetic relationship can simplify the tracing of HCV hierarchical strata into geographical regions. The current study aimed to find genetic phylogeny of subtypes 1a and 1b of HCV isolates based on NS5B nucleotide sequences in Iran and other members of Eastern Mediterranean regional office of world health organization, as well as other Middle Eastern countries, with a systematic review of available published and unpublished studies.Evidence AcquisitionThe phylogenetic analyses were performed based on the nucleotide sequences of NS5B gene of HCV genotype 1 (HCV-1), which were registered in the GenBank database. The literature review was performed in two steps: 1) searching studies evaluating the NS5B sequences of HCV-1, on PubMed, Scopus, and Web of Science, and 2) Searching sequences of unpublished studies registered in the GenBank database.ResultsIn this study, 442 sequences from HCV-1a and 232 from HCV-1b underwent phylogenetic analysis. Phylogenetic analysis of all sequences revealed different clusters in the phylogenetic trees. The results showed that the proportion of HCV-1a and -1b isolates from Iranian patients probably originated from domestic sources. Moreover, the HCV-1b isolates from Iranian patients may have similarities with the European ones.ConclusionsIn this study, phylogenetic reconstruction of HCV-1 sequences clearly indicated for molecular tracing and ancestral relationships of the HCV genotypes in Iran, and showed the likelihood of domestic origin for HCV-1a and various origin for HCV-1b.

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Section: Resultsmentioning

confidence: 99%

Molecular Tracing of Hepatitis C Virus Genotype 1 Isolates in Iran: A NS5B Phylogenetic Analysis with Systematic Review

et al. 2016

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“…Meanwhile, HCV genotypes 4, 5, and 6 are endemic to specific geographical areas: HCV-4 is mainly found in Egypt and Sub-Saharan Africa, HCV-5 in South Africa [5], and HCV-6 in South China and South-East Asian countries [28,40]. In Tunisia, previous epidemiological and phylogenetic studies, conducted on both healthy and HCV-infected subjects, reported a large predominance of genotype 1b [15,16,22]. Interestingly, our present results are in a prefect correlation with this data.…”

Section: Discussionmentioning

confidence: 99%

“…Additionally, it is important to consider HCV RNA measurement in these patients because the immunosuppression inherent to chronic renal disease, as a preventive factor against nosocomial spread of HCV [13]. Hemodialysis is considered one of the main risk factors of HCV infection, due to several invasive medical procedures and potential nosocomial transmission that patients with chronicrenal failure (CRF) are continuously submitted [13,22]. Furthermore, nosocomial transmission in the dialysis units may be associated with hemodialysis procedures, such as aerosol formation during fistula cannulation for vein access, accidents with contaminated blood, and direct contact with contaminated materials used by infected patients [12].…”

Section: Discussionmentioning

confidence: 99%

“…In Tunisian dialysis patients, the prevalence of infection varied from 43 % before 1995 [19] to 19.07 % in 2002 [9], and this infection was correlated with a history of blood transfusions and with a longterm hemodialysis. Kchouk and collaborators [22] reported that blood transfusions are the common major risk factors of infection. The major procedures to prevent HCV nosocomial transmission include protocols for handling bodily fluids, use of erythropoietin to minimize blood transfusions, and isolation policies [17].…”

Section: Discussionmentioning

confidence: 99%

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Hepatitis C Genotype Prevalence in Monastir Region, Tunisia: Correlation between 5′ Untranslated Region (5′UTR), Non-structural 5B (NS5B), and Core Sequences in HCV Subtyping

et al. 2016

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Hepatitis C virus (HCV) is a causative agent of chronic liver disease, cirrhosis, and hepatocellular carcinoma. It constitutes a major public health around the world. There is no vaccine available against HCV, and current therapies are effective in only small percentage of patients. HCV has wide population-specific genotype variability. Genotype knowledge and viral load assessment are equally important for designing therapeutic strategies. Taking into account that the molecular epidemiology of HCV variants circulating in Tunisia is not yet well elucidated, and that, at present, little is known about the distribution pattern of HCV in Monastir region (Tunisia), we aimed, herein, to evaluate the prevalence of HCV genotypes in Monastir and to identify risk-related factors. For this purpose, 50 anti-HCV antibody-positive cases were diagnosed and subjected to viral RNA extraction, amplification, genotyping, and viral load quantification. Molecular epidemiology was studied by 5' untranslated region (5' UTR) sequencing as compared with the non-structural 5B (NS5B) and core region sequences. Overall concordance between 5' UTR, core, and NS5B sequencing was 100 %. The highest prevalent genotype was 1b (50 %) followed by genotypes 1a (16 %), 4a (12 %), 2a (10 %), 2c (8 %), and 3a (4 %). Interestingly, the subtype 1b had a statistically significant higher viral load than the other genotypes followed by subtype 1a. Based on these data, this study revealed a high prevalence of HCV genotype 1 (subtypes 1b and 1a) compared to other genotypes. A continued monitoring of HCV and knowledge of circulating genotypes could impact on future vaccine formulations.

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“…Furthermore, HCV epidemic subtypes show high prevalence, low genetic diversity, and spreading during the 20 th century via blood transfusions, injecting drug use and invasive medical procedures. On the contrary, endemic subtypes reveal long persistence in human populations in geographically restricted areas, with low transmission rates and a high genetic diversity as a result [ 36 - 38 ].…”

Section: Phylogenetic Analysismentioning

confidence: 99%

Updateon different aspects of HCV variability: focus on NS5B polymerase

et al. 2014

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The study of hepatitis C virus (HCV) genotypes/subtypes, quasispecies and recombinants obtained by virus genome sequencing are important for epidemiological studies, to trace the source of infection, for development of new direct acting antivirals (DAAs) therapy and for understanding antiviral selection pressures. The HCV NS5B gene encodes a polymerase, which is responsible for virus replication and is a potential target for the development of antiviral agents. Many studies for classification of HCV use a particular segment of the NS5B gene, in addition to other specific regions, and phylogenetic analysis. Actually, some nucleoside/nucleotide analogues and non-nucleoside inhibitors target NS5B protein. This review focuses on HCV variability, phylogenetic analysis and the role of NS5B in the virus-host interactions.

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Phylogenetic Analysis of Isolated HCV Strains from Tunisian Hemodialysis Patients

Cited by 10 publications

References 41 publications

Molecular Tracing of Hepatitis C Virus Genotype 1 Isolates in Iran: A NS5B Phylogenetic Analysis with Systematic Review

Molecular Tracing of Hepatitis C Virus Genotype 1 Isolates in Iran: A NS5B Phylogenetic Analysis with Systematic Review

Hepatitis C Genotype Prevalence in Monastir Region, Tunisia: Correlation between 5′ Untranslated Region (5′UTR), Non-structural 5B (NS5B), and Core Sequences in HCV Subtyping

Updateon different aspects of HCV variability: focus on NS5B polymerase

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