title: Porcine respiratory coronavirus differs from transmissible gastroenteritis virus by a few genomic deletions.
abstract: The genome organization of porcine respiratory coronavirus (PRCV), a newly recognized agent which has a close antigenic relationship to the enteropathogenic transmissible gastroenteritis virus (TGEV), was studied. Genomic RNA from cell-cultured PRCV (French isolate RM4) was used to produce cDNA clones covering the genomic 3' end to the start of the spike (S) glycoprotein gene (7519 nucleotides). Six open reading frames (ORFs) were identified that allowed the translation of three coronavirus structural proteins and three putative non-structural (NS) polypeptides, homologous to TGEV ORFs designated NS3-1, NS4 and NS7. Pairwise alignment of PRCV nucleotide and amino acid sequences with sequence data available for three TGEV strains revealed a 96% overall homology. However, the genome of PRCV exhibited two important distinctive features. The first was that the S gene lacked 672 nucleotides in the 5' region and encoded a truncated form of the S polypeptide, and secondly, the first NS ORF downstream of the S gene was predicted to be non-functional as a consequence of a double deletion. The significance of genomic deletions with respect to tissue tropism and evolution of coronaviruses is discussed.
authors.affiliation: Laboratoire de Virologie et d'Immunologie Moléculaires, Centre de Recherches de Jouy-en-Josas, France.
authors.forename: D
authors.initials: D
authors.lastname: Rasschaert
authors.forename: M
authors.initials: M
authors.lastname: Duarte
authors.forename: H
authors.initials: H
authors.lastname: Laude
mesh_terms: D000595:Amino Acid Sequence; D000818:Animals; D001483:Base Sequence; D002460:Cell Line; D002872:Chromosome Deletion; D003332:Coronaviridae / Q000235:genetics*; D004279:DNA, Viral / Q000737:chemistry; D005761:Gastroenteritis, Transmissible, of Swine / Q000235:genetics; D015967:Gene Expression Regulation, Viral; D005814:Genes, Viral; D008969:Molecular Sequence Data; D008970:Molecular Weight; D016366:Open Reading Frames; D010802:Phylogeny; D015183:Restriction Mapping; D012689:Sequence Homology, Nucleic Acid; D013552:Swine / Q000382:microbiology*; D005760:Transmissible gastroenteritis virus / Q000235:genetics*
chemical_list: D004279:DNA, Viral