Advanced Molecular Surveillance of Hepatitis C Virus

  title={Advanced Molecular Surveillance of Hepatitis C Virus},
  author={L. M. Gonçalves Rossi and A. Escobar-Guti{\'e}rrez and P. Rahal},
  pages={1153 - 1188}
Hepatitis C virus (HCV) infection is an important public health problem worldwide. HCV exploits complex molecular mechanisms, which result in a high degree of intrahost genetic heterogeneity. This high degree of variability represents a challenge for the accurate establishment of genetic relatedness between cases and complicates the identification of sources of infection. Tracking HCV infections is crucial for the elucidation of routes of transmission in a variety of settings. Therefore… Expand
Multiregion deep sequencing of hepatitis C virus: An improved approach for genetic relatedness studies.
The usefulness of multiregion sequencing using a NGS platform for genetic relatedness studies among HCV cases is explored and next generation sequencing (NGS) approaches enormously facilitate the characterization of the HCV intra-host population by detecting rare variants at much lower frequencies. Expand
HCV adaptation to HIV coinfection.
PhyChem features identified here may be used for detection of HIV infection from intra-host HCV variants alone in co-infected patients, thus facilitating monitoring for HIV introduction to high-risk populations with high HCV prevalence. Expand
Clinical evaluation of a newly developed automated massively parallel sequencing assay for hepatitis C virus genotyping and detection of resistance-association variants. Comparison with a line probe assay.
A comparative evaluation of exact HCV genotyping in a newly developed automated-massively parallel sequencing (MPS) system, versus the established Line probe assay 2.0 (LiPA), substantiated by Sanger sequencing, using 120 previously identified-HCV RNA positive specimens found MPS to be beneficial for guiding decisions on HCV therapy and saving costs in the long term. Expand
New Epidemiologic Data Regarding Hepatitis C Virus Infection in Romania.
The genotyping tests recently performed on patients with HCV and advanced fibrosis eligible for the Direct-Acting Antiviral (DAA) therapy, as well as the prevalence of these cases across Romania, suggest the presence of genotypes non-1b is more common in Bucharest, in males and at a younger age. Expand
Virus-Free Synthesis of a Hepatitis C Virus P7 cDNA through a Three-Steps Polymerase Chain Reaction
A novel strategy to synthesize a viral cDNA sequence corresponding to the p7 gene in HCV genome-free conditions is proposed, which overcomes the elevated genetic variability of HCV genomes without affecting the antigenic characteristics of the putative viral protein. Expand
Screening haemodialysis patients for hepatitis C in Vietnam: The inconsistency between common hepatitis C virus serological and virological tests
HCV‐coreAg test is less labour‐intensive with a higher level of accuracy in patients with low viral loads making it cost effective for low‐resourced settings and Repeating genotyping may be required in HCV‐ coreAg positive patients with a low viral load. Expand
The Application of Metagenomic Approaches in the Management of Infectious Diseases
The emergence of next-generation sequencing (NGS) technology has greatly promoted the development of genome research, and the NGS-based metagenomics is gaining more and more attention as a potential technique for the management of infectious diseases. Expand
Hepatitis: Immunoregulation in pregnancy and perinatal transmission of HCV
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Separation and assembly of deep sequencing data into discrete sub-population genomes
A novel algorithm that simultaneously assembles discrete sequences of multiple genomes present in populations, enabling genomic analysis of heterogeneous pathogen genomes from patient samples and accurate detection of intra-host diversity, enabling not just basic research in personalized medicine but also accurate diagnostics and monitoring drug therapies. Expand
Quantitative Approach in Clinical Microbiology: A Paradigm Shift Toward Culture-Free Methods
Traditional diagnostic methods in clinical bacteriology rely heavily on the culturing of single pathogen colonies, but evidence is growing that polypathogenic diseases may exist. Expand


Hepatitis C virus molecular evolution: transmission, disease progression and antiviral therapy.
The rapidly evolving field of anti-HCV therapy is expected to broad its landscape even further with newer, more potent antivirals, bringing us one step closer to the interferon-free era. Expand
Molecular surveillance of hepatitis C.
Integration of genetic testing with computational models that automatically interpret the complex genetic parameters into transmission events and virulence is fundamental to comprehensive molecular surveillance of hepatitis C. Expand
Vertical transmission of hepatitis C virus: a tale of multiple outcomes.
The differences in the degree of divergence suggest that the mode of transmission of the virus was not the main factor driving viral evolution, and that immune system dysfunction related to HIV coinfection or persistent HCV seronegativity stand as potential mechanisms to explain the lack of molecular evolution observed. Expand
Role of viral and host factors in interferon based therapy of hepatitis C virus infection
The goal of this review article is to summarize the impact of recent scientific advances in this area regarding the understanding of human and HCV genetic variations and their effect on treatment outcomes. Expand
A New Evolutionary Model for Hepatitis C Virus Chronic Infection
P phylogenetic analyses of within-patient HCV sequences indicate that this simple evolutionary model is insufficient to explain HCV evolutionary dynamics during infection, and it is suggested that the diversity scores commonly used in HCV studies do not fully represent the dynamics of infection. Expand
Epidemiology of hepatitis C virus infection.
The high prevalence of anti-HCV detected in HCC suggests that HCV is a major co-factor in the development of HCC and again raises the issue of viral persistence and neoplastic transformation, an issue that for HBV has not yet been elucidated. Expand
Evidence of Recombination in Intrapatient Populations of Hepatitis C Virus
It is concluded that recombination should be considered as a potentially relevant mechanism generating genetic variation in HCV and with important implications for the treatment of this infection. Expand
Transmission of hepatitis C virus: self-limiting hepatitis or chronic hepatitis?
The evolutionary dynamics of the infecting virus and host genetic polymorphisms pertaining mainly to the immune system, including polymorphisms in the region of the Interleukin 28B gene encoding interferon-λ-3, are associated with susceptibility to HCV infection. Expand
Evolving epidemiology of hepatitis C virus.
  • D. Lavanchy
  • Medicine
  • Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases
  • 2011
The present assessment finds a global prevalence of 2.35%, affecting 160 million chronically infected individuals, and there is an urgent need for more accurate Information on the costs and burden of HCV to society. Expand
Detection of hepatitis C virus transmission by use of DNA mass spectrometry.
The development of a novel mass spectrometry (MS)-based approach to identify HCV transmission is described, which is rapid, robust, reproducible, cost-effective, and applicable to investigating transmissions of other pathogens. Expand