title: A novel strategy for the determination of a rhabdovirus genome and its application to sequencing of Eggplant mottled dwarf virus.
abstract: A novel strategy employing the rhabdovirus untranslated conserved intergenic regions was developed and applied successfully for the determination of the complete nucleotide sequence of Eggplant mottled dwarf virus (EMDV). The EMDV genome contains seven open reading frames with the same organization as Potato yellow dwarf virus (PYDV), the type species of the genus Nucleorhabdovirus. These two species encode five core genes [nucleocapsid (N), phosphoprotein (P), matrix (M), glycoprotein (G), and the polymerase (L)] like other viruses of the genus and an additional one (X), located between N and P, giving rise to a protein with currently unknown function. Furthermore, both EMDV and PYDV contain a gene (Y), inserted between P and M, which probably encodes the virus movement protein, in concordance with the rest of the plant-infecting rhabdoviruses. Phylogenetic analysis of the polymerase gene confirmed the classification of EMDV within the genus Nucleorhabdovirus and showed a close evolutionary relationship to PYDV. The novel sequencing strategy developed is a useful tool for the genome determination of yet uncharacterized rhabdoviruses.
authors.affiliation: Plant Pathology Laboratory, School of Agriculture, Aristotle University of Thessaloniki, 54 124 Thessaloniki, Greece.
authors.forename: Polyxeni G
authors.initials: PG
authors.lastname: Pappi
authors.forename: Chrysostomos I
authors.initials: CI
authors.lastname: Dovas
authors.forename: Konstantinos E
authors.initials: KE
authors.lastname: Efthimiou
authors.forename: Varvara I
authors.initials: VI
authors.lastname: Maliogka
authors.forename: Nikolaos I
authors.initials: NI
authors.lastname: Katis
mesh_terms: D016679:Genome, Viral; D016366:Open Reading Frames; D010802:Phylogeny; D010935:Plant Diseases / Q000821:virology*; D012209:Rhabdoviridae / Q000145:classification / Q000235:genetics* / Q000302:isolation & purification; D017422:Sequence Analysis, DNA / Q000379:methods*; D032323:Solanum melongena / Q000821:virology*; D014764:Viral Proteins / Q000235:genetics
chemical_list: D014764:Viral Proteins
references.citation: Virology. 1994 Jul;202(1):33-40
references.pmid: 8009845
references.citation: J Gen Virol. 2000 Jan;81(Pt 1):257-66
references.pmid: 10640565
references.citation: Virology. 1994 Oct;204(1):279-88
references.pmid: 8091658
references.citation: Bioinformatics. 2005 May 1;21(9):2104-5
references.pmid: 15647292
references.citation: Arch Virol. 2008;153(6):1041-7
references.pmid: 18449468
references.citation: Virus Res. 2011 Dec;162(1-2):110-25
references.pmid: 21933691
references.citation: Arch Virol. 2009;154(2):209-18
references.pmid: 19115034
references.citation: Arch Virol. 2000;145(7):1373-84
references.pmid: 10963343
references.citation: Curr Top Microbiol Immunol. 2005;292:1-24
references.pmid: 15981465
references.citation: Nucleic Acids Res. 2004 Mar 19;32(5):1792-7
references.pmid: 15034147
references.citation: Curr Top Microbiol Immunol. 2005;292:143-63
references.pmid: 15981471
references.citation: J Gen Virol. 2007 Jun;88(Pt 6):1810-1820
references.pmid: 17485543
references.citation: J Gen Virol. 2005 Oct;86(Pt 10):2849-2858
references.pmid: 16186241
references.citation: Annu Rev Phytopathol. 2005;43:623-60
references.pmid: 16078897
references.citation: J Gen Virol. 2003 Aug;84(Pt 8):2259-2264
references.pmid: 12867659
references.citation: J Gen Virol. 1969 Sep;5(2):319-20
references.pmid: 5347409
references.citation: Syst Biol. 2003 Oct;52(5):696-704
references.pmid: 14530136
references.citation: Virology. 2010 Jun 20;402(1):61-71
references.pmid: 20362316
references.citation: J Virol. 2005 Feb;79(4):2108-14
references.pmid: 15681413
references.citation: J Virol Methods. 2005 Oct;129(1):91-6
references.pmid: 16005085
references.citation: J Virol. 2005 May;79(9):5304-14
references.pmid: 15827145
references.citation: Virus Res. 2008 Jul;135(1):26-35
references.pmid: 18387687
references.citation: Virology. 1994 May 1;200(2):401-12
references.pmid: 8178430