title: Completion of the sequence of a cetacean morbillivirus and comparative analysis of the complete genome sequences of four morbilliviruses.
abstract: The gene encoding the large (L) protein and the genome termini of the dolphin strain of cetacean morbillivirus (CeMV) were sequenced. The CeMV genome is 15702 nucleotides long and has been compared with other available morbillivirus genome sequences in regards to the "rule of six" and the "phase" of any particular nucleotide, defined as its position within a given hexamer, which here is defined as a group of six nucleotides starting from the 3' end of the genomic RNA. With exception of the position of the start of the F gene, the phase of the transcription start sites of each gene is strictly conserved between the morbilliviruses, but each gene is in a different phase. The lengths of gene transcripts differ between viruses by multiples of six nucleotides with exception of the M and F transcripts. The differences between the various morbilliviruses result from deletions or insertions of multiples of six nucleotides in the 3' and 5' UTRs of the different viral genes. The four bases were distributed non-randomly over the six positions in the hexamer boxes. However, the distribution patterns of each of the four bases indicated that multiples of three were more prevalent than those of six nucleotides. This reflected the positions of nucleotides in codons and codon usage in the reading frames. The L protein of CeMV was found to be 2183 amino acids in length and similar to that of MV and RPV. The CeMV L protein sequence was found to be equidistant between those of the CDV/PDV and MV/RPV subgroups of the morbilliviruses. This concurs with the analyses carried out on the other structural proteins.
authors.affiliation: School of Biology and Biochemistry, The Queen's University of Belfast, Belfast BT9 7BL, N. Ireland. b.rima@qub.ac.uk
authors.forename: B K
authors.initials: BK
authors.lastname: Rima
authors.forename: A M J
authors.initials: AM
authors.lastname: Collin
authors.forename: J A P
authors.initials: JA
authors.lastname: Earle
mesh_terms: D020413:3' Untranslated Regions / Q000235:genetics; D020121:5' Untranslated Regions / Q000235:genetics; D000818:Animals; D001482:Base Composition; D001483:Base Sequence; D002591:Cetacea / Q000821:virology; D003062:Codon / Q000235:genetics; D005814:Genes, Viral; D016679:Genome, Viral; D008969:Molecular Sequence Data; D018103:Morbillivirus / Q000235:genetics* / Q000302:isolation & purification; D016366:Open Reading Frames; D010802:Phylogeny; D012333:RNA, Messenger / Q000235:genetics; D012367:RNA, Viral / Q000235:genetics; D011995:Recombination, Genetic; D017421:Sequence Analysis; D017384:Sequence Deletion; D017385:Sequence Homology; D024363:Transcription Initiation Site; D014158:Transcription, Genetic; D014764:Viral Proteins / Q000235:genetics*
chemical_list: D020413:3' Untranslated Regions; D020121:5' Untranslated Regions; D003062:Codon; D012333:RNA, Messenger; D012367:RNA, Viral; D014764:Viral Proteins
references.citation: J Gen Virol. 1991 Feb;72 ( Pt 2):443-7
references.pmid: 1993883
references.citation: J Virol. 1998 Apr;72(4):3117-28
references.pmid: 9525637
references.citation: J Gen Virol. 1992 May;73 ( Pt 5):1189-94
references.pmid: 1588321
references.citation: Nature. 1988 Nov 3;336(6194):21
references.pmid: 3185717
references.citation: J Virol. 1998 Feb;72(2):891-9
references.pmid: 9444980
references.citation: J Gen Virol. 1995 Dec;76 ( Pt 12):3051-8
references.pmid: 8847510
references.citation: J Virol. 1993 Aug;67(8):4822-30
references.pmid: 8392616
references.citation: Virus Res. 1996 Jan;40(1):47-55
references.pmid: 8725120
references.citation: J Gen Virol. 1997 Mar;78 ( Pt 3):571-6
references.pmid: 9049407
references.citation: Cell. 1989 Mar 10;56(5):759-64
references.pmid: 2924348
references.citation: J Gen Virol. 1996 Dec;77 ( Pt 12):3041-6
references.pmid: 9000095
references.citation: J Virol. 1985 Mar;53(3):908-19
references.pmid: 3882996
references.citation: Curr Top Microbiol Immunol. 1995;191:181-92
references.pmid: 7789160
references.citation: J Gen Virol. 1997 Nov;78 ( Pt 11):2859-70
references.pmid: 9367373
references.citation: Nature. 1990 Nov 1;348(6296):21
references.pmid: 2234055
references.citation: J Gen Virol. 1997 Jan;78 ( Pt 1):97-106
references.pmid: 9010291
references.citation: J Gen Virol. 1994 Oct;75 ( Pt 10):2829-34
references.pmid: 7931174
references.citation: Virus Res. 1994 Dec;34(3):291-304
references.pmid: 7531923