Expanded Classification of Hepatitis C Virus Into 7 Genotypes and 67 Subtypes: Updated Criteria and Genotype Assignment Web Resource
By Donald B. Smith, J. Bukh, C. Kuiken, A. Muerhoff, Charles M. Rice, J. Stapleton, Peter Simmonds. Hepatology, 2013
1,366 citations recorded by the source corpus.
The 2005 consensus proposal for the classification of hepatitis C virus (HCV) presented an agreed and uniform nomenclature for HCV variants and the criteria for their assignment into genotypes and subtypes. Since its publication, the available dataset of HCV sequences has vastly expanded through advancement in nucleotide sequencing technologies and an increasing focus on the role of HCV genetic variation in disease and treatment outcomes. The current study represents a major update to the previous consensus HCV classification, incorporating additional sequence information derived from over 1,300 (near‐)complete genome sequences of HCV available on public databases in May 2013. Analysis resolved several nomenclature conflicts between genotype designations and using consensus criteria created a classification of HCV into seven confirmed genotypes and 67 subtypes. There are 21 additional complete coding region sequences of unassigned subtype. The study additionally describes the development of a Web resource hosted by the International Committee for Taxonomy of Viruses (ICTV) that maintains and regularly updates tables of reference isolates, accession numbers, and annotated alignments (http://talk.ictvonline.org/links/hcv/hcv-classification.htm). The Flaviviridae Study Group urges those who need to check or propose new genotypes or subtypes of HCV to contact the Study Group in advance of publication to avoid nomenclature conflicts appearing in the literature. While the criteria for assigning genotypes and subtypes remain unchanged from previous consensus proposals, changes are proposed in the assignment of provisional subtypes, subtype numbering beyond “w,” and the nomenclature of intergenotypic recombinant. Conclusion: This study represents an important reference point for the consensus classification of HCV variants that will be of value to researchers working in clinical and basic science fields. (Hepatology 2014;59:318‐327)
Subfields: Hepatology, Infectious Diseases, Molecular Biology
View Paper: https://www.semanticscholar.org/paper/89337dfe32ac544f67a7d0e827ed34dad1dba3d0
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In Hepatology
In Infectious Diseases
In Molecular Biology
- Danso Ako-Adjei
- Peter Simmonds
- J. R. Brister
- Yīmíng Bào
- Oliver George Pybus
- O. Blinkova
- D. Rabosky
- L. Garamszegi
Citations in the corpus
- Consensus proposals for classification of the family Hepeviridae (2014, methodology): “The utility of this framework is illustrated by the fact that an update to the HCV classification system almost 10 years later (Smith et al., 2014) was required simply to accommodate the large number of subsequently assigned subtypes, whereas only minor changes to the consensus rules for genotype an”
- Global Distribution and Prevalence of Hepatitis C Virus Genotypes (2014, background): “Strains that belong to the same subtype differ at <15% of nucleotide sites.(19) The contemporary global geographic distribution of HCV genotypes is complex.”
- NCBI Viral Genomes Resource (2014, methodology): “These genotyping schemes can provide an important framework for the interpretation of genome sequence data (34) , and more communities are expected to develop genotyping schemes in the coming years.”