Hepatitis C Virus Evolutionary Patterns Studied Through Analysis of Full-Genome Sequences
@article{Salemi2002HepatitisCV, title={Hepatitis C Virus Evolutionary Patterns Studied Through Analysis of Full-Genome Sequences}, author={Marco Salemi and Anne-Mieke Vandamme}, journal={Journal of Molecular Evolution}, year={2002}, volume={54}, pages={62-70} }
Abstract. The evolutionary patterns of hepatitis C virus (HCV), including the best-fitting nucleotide substitution model and the molecular clock hypothesis, were investigated by analyzing full-genome sequences available in the HCV database. The likelihood ratio test allowed us to discriminate among different evolutionary hypotheses. The phylogeny of the six major HCV types was accurately inferred, and the final tree was rooted by reconstructing the hypothetical HCV common ancestor with the…
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References
SHOWING 1-10 OF 69 REFERENCES
Reduction of synonymous substitutions in the core protein gene of hepatitis C virus
- BiologyJournal of Molecular Evolution
- 2004
The phylogenetic trees constructed showed that strains isolated from a single location were not necessarily clustered as a group, which suggests that the viruses may be transferred with blood on a worldwide scale and suggests that major groups of hepatitis C viruses diverged from their common ancestor several hundred years ago.
Full-length sequence of a hepatitis C virus genome having poor homology to reported isolates: comparative study of four distinct genotypes.
- BiologyVirology
- 1992
At least 12 genotypes of hepatitis C virus predicted by sequence analysis of the putative E1 gene of isolates collected worldwide.
- BiologyProceedings of the National Academy of Sciences of the United States of America
- 1993
The complete nucleotide sequence of the putative envelope 1 (E1) gene in 51 HCV isolates from around the world is determined and it is found that they could be grouped into at least 12 distinct genotypes, with important implications for HCV diagnosis and vaccine development.
Molecular cloning of the human hepatitis C virus genome from Japanese patients with non-A, non-B hepatitis.
- BiologyProceedings of the National Academy of Sciences of the United States of America
- 1990
The nucleotide sequence of the Japanese type of hepatitis C virus (HCV-J) genome, consisting of 9413 nucleotides, was determined by analyses of cDNA clones from plasma specimens from Japanese…
Revealing the history of infectious disease epidemics through phylogenetic trees.
- BiologyPhilosophical transactions of the Royal Society of London. Series B, Biological sciences
- 1995
Despite similarities between these viruses, especially in their transmission routes, they have very different epidemiological histories, and a possible reason for the difference is that HCV has coexisted longer with human populations.
Evolutionary analysis of variants of hepatitis C virus found in South-East Asia: comparison with classifications based upon sequence similarity.
- BiologyThe Journal of general virology
- 1996
Variants of hepatitis C virus (HCV) have been classified by nucleotide sequence comparisons in different regions of the genome. Many investigators have defined the ranges of sequence similarity…
Identification of genotypes of hepatitis C virus by sequence comparisons in the core, E1 and NS-5 regions.
- BiologyThe Journal of general virology
- 1994
sequence analysis of variants in the 5' non-coding region (5'NCR) and in the genes encoding the core protein, an envelope protein (E1) and a non-structural protein (NS-5) indicate that subgenomic regions such as E1 and NS-5 contain sufficient phylogenetic information for the identification of each of the 11 or 12 known types and subtypes of HCV.
The origin of hepatitis C virus genotypes.
- BiologyThe Journal of general virology
- 1997
It is shown here that the common ancestor of different types of hepatitis C virus (HCV) is older than previously thought, andimation of the time of origin of the major HCV genotypes (types 1-6) is problematic, but data and analogy with other viruses suggest that divergence occurred at least 500-2000 years ago.
Full-length sequence of the genome of hepatitis C virus type 3a: comparative study with different genotypes.
- BiologyThe Journal of general virology
- 1994
Phylogenetic analysis of the putative core region and a portion of NS5B encoding the Gly-Asp-AsP motif indicated that HCV-K3a closely matched the corresponding type 3a group, and the deletion and addition of amino acids in both E2 and NS5A may be associated with their pathobiological features.
Complete nucleotide sequence of a type 4 hepatitis C virus variant, the predominant genotype in the Middle East.
- BiologyThe Journal of general virology
- 1997
The entire sequence encompassing the coding region of the genotype 4a isolate ED43, obtained from an HCV-infected individual from Egypt, confirmed the classification of type 4 as a separate major genotype.