title: Novel porcine rotavirus of genotype P[27] shares new phylogenetic lineage with G2 porcine rotavirus strain.
abstract: A novel and unusual strain of porcine rotavirus (PoRV) CMP034 was isolated from a 7-week-old piglet during the epidemiological survey of porcine rotavirus infection in Chiang Mai province, Thailand from June 2000 to July 2001. Molecular characterization of gene VP4 by sequence analysis showed a low level of amino acid sequence identity, ranging from 56.7% to 76.6%, while comparison of VP8* portion showed 41.8% to 69.9% identity, with the 26 P genotypes recognized to date. Phylogenetic analysis of the VP4 sequence revealed that CMP034 was only distantly related to the other 26 P genotypes and was located in a separate branch. Sequence analysis of gene VP7 showed the highest level of amino acid identity (94.7%) with the PoRV G2-like reference strain 34461-4 but a lower level of identity with those of human G2 rotaviruses, ranging from 87.7% to 88.0%. Phylogenetic analysis of gene VP7 revealed two major lineages among G2 rotavirus strains based on the host origin. PoRV strain CMP034 clustered exclusively with G2-like PoRV strain 34461-4 in a novel lineage that is distinct from the major G2 human lineage. Moreover, strain CMP034 displayed a porcine-like VP6 and NSP5/6 with subgroup I specificity, while bearing an NSP4 with some genetic group B human-like characteristics. These findings provide evidence that CMP034 should be considered as a novel VP4 genotype P[27].
authors.affiliation: Department of Developmental Medical Sciences, Institute of International Health, Graduate School of Medicine, The University of Tokyo, 7-3-1 Hongo Bunkyu-ku, Tokyo 113-0033, Japan.
authors.forename: Pattara
authors.initials: P
authors.lastname: Khamrin
authors.forename: Niwat
authors.initials: N
authors.lastname: Maneekarn
authors.forename: Supatra
authors.initials: S
authors.lastname: Peerakome
authors.forename: Wisoot
authors.initials: W
authors.lastname: Chan-it
authors.forename: Fumihiro
authors.initials: F
authors.lastname: Yagyu
authors.forename: Shoko
authors.initials: S
authors.lastname: Okitsu
authors.forename: Hiroshi
authors.initials: H
authors.lastname: Ushijima
mesh_terms: D000595:Amino Acid Sequence; D000818:Animals; D000833:Animals, Suckling; D000956:Antigens, Viral / Q000235:genetics; D036022:Capsid Proteins / Q000235:genetics; D005814:Genes, Viral; D006306:Health Surveys; D008969:Molecular Sequence Data; D010802:Phylogeny; D016601:RNA-Binding Proteins / Q000235:genetics; D012401:Rotavirus / Q000145:classification* / Q000302:isolation & purification; D012400:Rotavirus Infections / Q000453:epidemiology / Q000662:veterinary* / Q000821:virology; D016415:Sequence Alignment; D020539:Sequence Analysis, Protein; D017386:Sequence Homology, Amino Acid; D013552:Swine; D013553:Swine Diseases / Q000453:epidemiology / Q000821:virology*; D013785:Thailand / Q000453:epidemiology; D017361:Viral Nonstructural Proteins / Q000235:genetics
chemical_list: D000956:Antigens, Viral; D036022:Capsid Proteins; D016601:RNA-Binding Proteins; C060339:VP4 protein, Rotavirus; C050779:VP7 protein, Rotavirus; D017361:Viral Nonstructural Proteins; C079234:NS35 protein, rotavirus