Uniformity of Rotavirus Strain Nomenclature Proposed by the Rotavirus Classification Working Group (RCWG)

By J. Matthijnssens, M. Ciarlet, Sarah M. McDonald, H. Attoui, K. Bányai, J. R. Brister, J. Buesa, M. Esona, M. Estes, J. Gentsch and 16 more. Archives of Virology, 2011

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In April 2008, a nucleotide-sequence-based, complete genome classification system was developed for group A rotaviruses (RVs). This system assigns a specific genotype to each of the 11 genome segments of a particular RV strain according to established nucleotide percent cutoff values. Using this approach, the genome of individual RV strains are given the complete descriptor of Gx-P[x]-Ix-Rx-Cx-Mx-Ax-Nx-Tx-Ex-Hx. The Rotavirus Classification Working Group (RCWG) was formed by scientists in the field to maintain, evaluate and develop the RV genotype classification system, in particular to aid in the designation of new genotypes. Since its conception, the group has ratified 51 new genotypes: as of April 2011, new genotypes for VP7 (G20-G27), VP4 (P[28]-P[35]), VP6 (I12-I16), VP1 (R5-R9), VP2 (C6-C9), VP3 (M7-M8), NSP1 (A15-A16), NSP2 (N6-N9), NSP3 (T8-T12), NSP4 (E12-E14) and NSP5/6 (H7-H11) have been defined for RV strains recovered from humans, cows, pigs, horses, mice, South American camelids (guanaco), chickens, turkeys, pheasants, bats and a sugar glider. With increasing numbers of complete RV genome sequences becoming available, a standardized RV strain nomenclature system is needed, and the RCWG proposes that individual RV strains are named as follows: RV group/species of origin/country of identification/common name/year of identification/G- and P-type. In collaboration with the National Center for Biotechnology Information (NCBI), the RCWG is also working on developing a RV-specific resource for the deposition of nucleotide sequences. This resource will provide useful information regarding RV strains, including, but not limited to, the individual gene genotypes and epidemiological and clinical information. Together, the proposed nomenclature system and the NCBI RV resource will offer highly useful tools for investigators to search for, retrieve, and analyze the ever-growing volume of RV genomic data.

Subfields: Animal Science and Zoology, Cardiology and Cardiovascular Medicine, Infectious Diseases

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Citations in the corpus

Virus Variation Resource – improved response to emergent viral outbreaks (2016, background): “The nucleotide and protein sequences within these records can be invaluable for the unambiguous assignment of sequences to defined groups and can also serve as repositories of reference sequence feature annotation maintained by in-house curation efforts often in collaboration with other scientists (”
NCBI Viral Genomes Resource (2014, background): “43, Database issue some communities (29, (42) (43) (44) 47) , they need to be scaled to include more groups.”
Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation (2015, neutral): “The NCBI Viral Genome Annotation Working Group was established to leverage consortia of public databases, sequencing centers, and research groups to develop standardized sequence annotation as well as isolate naming schemes for different groups of viruses (59) (60) (61) (62) (63) .”