title: A highly divergent isolate of tomato blistering mosaic virus from Solanum violaefolium.
abstract: The complete genome of a tymovirus infecting Solanum violaefolium was sequenced. The genome comprised 6284 nt, with a 5'-UTR of 137 nt and a comparatively longer 3'-UTR of 121 nt. Sequence analysis confirmed three ORFs encoding a movement protein, a polyprotein, and a coat protein (CP). The isolate was considered to be the Tomato blistering mosaic virus (ToBMV) based on a CP amino acid sequence identity of 95.3 %. The nucleotide sequence of the complete genome of the S. violaefolium isolate, however, differed markedly from the other two reported ToBMV isolates, with identities of 76.6 and 76.3 %, below one of the demarcation criteria of the genus Tymovirus (overall genome identity of 80 %). No recombination signals were detected in the genome of this isolate. The high identity of the CP amino acid sequence and similar host responses suggest that the S. violaefolium isolate belongs to the same species as the Tomato blistering mosaic virus. The sequence analysis of this ToBMV isolate thus suggests that the demarcation criterion of 80 % overall genome sequence identity in the genus Tymovirus may require revision.
authors.affiliation: Departamento de Biologia Celular, Universidade de Brasília, UnB, Brasília, DF, Brazil.
authors.forename: Rosana
authors.initials: R
authors.lastname: Blawid
authors.affiliation: Pós-Graduação em Fitopatologia, Universidade Federal Rural de Pernambuco, Recife, PE, Brazil.
authors.forename: Evelyn Anly Ishikawa
authors.initials: EA
authors.lastname: Hayashi
authors.affiliation: Departamento de Fitopatologia e Nematologia, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Cx. Postal 9, Piracicaba, SP, 13418-900, Brazil.
authors.forename: Jorge Alberto Marques
authors.initials: JA
authors.lastname: Rezende
authors.affiliation: Departamento de Fitopatologia e Nematologia, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Cx. Postal 9, Piracicaba, SP, 13418-900, Brazil.
authors.forename: Elliot W
authors.initials: EW
authors.lastname: Kitajima
authors.affiliation: Departamento de Biologia Celular, Universidade de Brasília, UnB, Brasília, DF, Brazil. tatsuya@unb.br.
authors.forename: Tatsuya
authors.initials: T
authors.lastname: Nagata
mesh_terms: D000595:Amino Acid Sequence; D001483:Base Sequence; D016679:Genome, Viral; D023281:Genomics; D009690:Nucleic Acid Conformation; D010802:Phylogeny; D012367:RNA, Viral; D017422:Sequence Analysis, DNA; D032322:Solanum / Q000821:virology*; D017806:Tymovirus / Q000235:genetics* / Q000302:isolation & purification
chemical_list: D012367:RNA, Viral
keywords: Species demarcation criteria; Tymoviridae; Tymovirus
references.citation: Virology. 2005 Apr 10;334(2):245-54
references.pmid: 15780874
references.citation: J Theor Biol. 1995 Jun 7;174(3):269-80
references.pmid: 7545258
references.citation: Arch Virol. 2005 Nov;150(11):2325-38
references.pmid: 15883655
references.citation: Nucleic Acids Res. 2015 Jan;43(Database issue):D257-60
references.pmid: 25300481
references.citation: Virus Genes. 2012 Aug;45(1):190-4
references.pmid: 22528644
references.citation: Virology. 1974 Mar;58(1):119-25
references.pmid: 4362544
references.citation: Arch Virol. 2015 Feb;160(2):609-12
references.pmid: 25416495
references.citation: Virus Evol. 2015 May 26;1(1):vev003
references.pmid: 27774277
references.citation: Virology. 2004 Mar 30;321(1):36-46
references.pmid: 15033563
references.citation: J Virol. 1996 Apr;70(4):2107-15
references.pmid: 8642631
references.citation: J Virol. 2003 Jul;77(13):7452-8
references.pmid: 12805444
references.citation: Nucleic Acids Res. 2002 Oct 1;30(19):4232-40
references.pmid: 12364602
references.citation: J Gen Virol. 1973 Jul;20(1):37-50
references.pmid: 4584930
references.citation: RNA. 2007 Jan;13(1):129-37
references.pmid: 17095542
references.citation: Proc Natl Acad Sci U S A. 1996 Oct 29;93(22):12212-6
references.pmid: 8901559
references.citation: Bioinformatics. 2009 Jun 1;25(11):1435-7
references.pmid: 19369500
references.citation: J Mol Biol. 2000 Aug 18;301(3):625-42
references.pmid: 10966774
references.citation: Nucleic Acids Res. 1990 Mar 11;18(5):1181-7
references.pmid: 2320413
references.citation: Virology. 1993 Oct;196(2):694-702
references.pmid: 8372442
references.citation: Virology. 2009 Sep 30;392(2):238-45
references.pmid: 19664793
references.citation: Plant Physiol. 2007 Dec;145(4):1232-40
references.pmid: 17720752
references.citation: Genome Announc. 2014 Aug 07;2(4):null
references.pmid: 25103753
references.citation: Nat Struct Biol. 1996 Sep;3(9):771-81
references.pmid: 8784351
references.citation: Virus Genes. 2013 Feb;46(1):190-4
references.pmid: 23054432
references.citation: J Virol Methods. 2015 Sep 15;222:11-5
references.pmid: 25986144