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Published in: Archives of Virology 7/2011

01-07-2011 | Brief Report

Hardenbergia virus A, a novel member of the family Betaflexiviridae from a wild legume in Southwest Australia

Authors: Stephen Wylie, Michael Jones

Published in: Archives of Virology | Issue 7/2011

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Abstract

A 6,936-nucleotide sequence representing the complete genome of a plant virus, tentatively named Hardenbergia virus A, was obtained from Hardenbergia comptoniana. The predicted structure of the genome is a 5’ untranslated region (5’UTR), a 258-kDa polyprotein in open reading frame 1 (ORF1), a 43-kDa protein in ORF2, 3’UTR and poly(A) tail. The N-terminal region of ORF1 contains a replicase protein, and the C-terminal region contains a coat protein. The protein encoded by ORF2 has homology with p30-like viral movement proteins. The predicted genome organization and phylogeny of gene products places Hardenbergia virus A within the family Betaflexiviridae.
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Literature
1.
go back to reference Adams MJ, Antinow JF, Bar-Joseph M, Brunt AA, Candresse T, Foster GD, Martelli GP, Milne RG, Fauquet CM (2004) The new plant family Flexiviridae and assessment of molecular criteria for species demarcation. Arch Virol 149:1045–1060PubMed Adams MJ, Antinow JF, Bar-Joseph M, Brunt AA, Candresse T, Foster GD, Martelli GP, Milne RG, Fauquet CM (2004) The new plant family Flexiviridae and assessment of molecular criteria for species demarcation. Arch Virol 149:1045–1060PubMed
2.
go back to reference Altschul SF, Madden TL, Schäffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucl Acids Res 25:3389–3402PubMedCrossRef Altschul SF, Madden TL, Schäffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucl Acids Res 25:3389–3402PubMedCrossRef
3.
go back to reference Carstens EB (2010) Ratification vote on taxonomic proposals to the International Committee on Taxonomy of Viruses (2009). Arch Virol 155:133–146PubMedCrossRef Carstens EB (2010) Ratification vote on taxonomic proposals to the International Committee on Taxonomy of Viruses (2009). Arch Virol 155:133–146PubMedCrossRef
4.
go back to reference Cox BA, Jones RAC (2010) Genetic variability in the coat protein gene of Potato virus S isolates and distinguishing its biologically distinct strains. Arch Virol 155:1163–1169PubMedCrossRef Cox BA, Jones RAC (2010) Genetic variability in the coat protein gene of Potato virus S isolates and distinguishing its biologically distinct strains. Arch Virol 155:1163–1169PubMedCrossRef
6.
go back to reference Gambley CF, Thomas JE (2001) Molecular characterisation of Banana mild mosaic virus, a new filamentous virus in Musa spp. Arch Virol 146:1369–1379PubMedCrossRef Gambley CF, Thomas JE (2001) Molecular characterisation of Banana mild mosaic virus, a new filamentous virus in Musa spp. Arch Virol 146:1369–1379PubMedCrossRef
7.
go back to reference Geering AD, Thomas JE (1999) Characterisation of a virus from Australia that is closely related to papaya mosaic potexvirus. Arch Virol 144:577–592PubMedCrossRef Geering AD, Thomas JE (1999) Characterisation of a virus from Australia that is closely related to papaya mosaic potexvirus. Arch Virol 144:577–592PubMedCrossRef
8.
go back to reference Hailstones DL, Bryant KL, Broadbent P, Zhou C (2000) Detection of Citrus tatter leaf virus with reverse transcription-polymerase chain reaction (RT-PCR). Aust Plant Pathol 29:240–248CrossRef Hailstones DL, Bryant KL, Broadbent P, Zhou C (2000) Detection of Citrus tatter leaf virus with reverse transcription-polymerase chain reaction (RT-PCR). Aust Plant Pathol 29:240–248CrossRef
9.
go back to reference Hirata H, Lu X, Yamaji Y, Kagiwada S, Ugaki M, Namba S (2003) A single silent substitution in the genome of Apple stem grooving virus causes symptom attenuation. J Gen Virol 84:2579–2583PubMedCrossRef Hirata H, Lu X, Yamaji Y, Kagiwada S, Ugaki M, Namba S (2003) A single silent substitution in the genome of Apple stem grooving virus causes symptom attenuation. J Gen Virol 84:2579–2583PubMedCrossRef
10.
go back to reference Hirata H, Yamaji Y, Komatsu K, Kagiwada S, Oshima K, Okano Y, Takahashi S, Ugaki M, Namba S (2010) Pseudo-polyprotein translated from the full-length ORF1 of capillovirus is important for pathogenicity, but a truncated ORF1 protein without variable and CP regions is sufficient for replication. Virus Research 152:1–9PubMedCrossRef Hirata H, Yamaji Y, Komatsu K, Kagiwada S, Oshima K, Okano Y, Takahashi S, Ugaki M, Namba S (2010) Pseudo-polyprotein translated from the full-length ORF1 of capillovirus is important for pathogenicity, but a truncated ORF1 protein without variable and CP regions is sufficient for replication. Virus Research 152:1–9PubMedCrossRef
11.
go back to reference Koonin EV, Dolja VV (1993) Evolution and taxonomy of positive-strand RNA viruses: implications of comparative analysis of amino acid sequences. Crit Rev Biochem Mol Biol 28:375–430PubMedCrossRef Koonin EV, Dolja VV (1993) Evolution and taxonomy of positive-strand RNA viruses: implications of comparative analysis of amino acid sequences. Crit Rev Biochem Mol Biol 28:375–430PubMedCrossRef
12.
go back to reference Lazarovitz SG, Beachy RN (1999) Viral movement proteins as probes for intracellular and intercellular trafficking in plants. Plant Cell 11:535–548CrossRef Lazarovitz SG, Beachy RN (1999) Viral movement proteins as probes for intracellular and intercellular trafficking in plants. Plant Cell 11:535–548CrossRef
13.
go back to reference Martelli GP, Adams MJ, Kreuze JF, Dolja VV (2007) Family Flexiviridae: a case study in virion and genome plasticity. Annu Rev Phytopathol 45:73–100PubMedCrossRef Martelli GP, Adams MJ, Kreuze JF, Dolja VV (2007) Family Flexiviridae: a case study in virion and genome plasticity. Annu Rev Phytopathol 45:73–100PubMedCrossRef
14.
go back to reference Namba S (1995) Capillovirus genus. Arch Virol (Suppl 10) 465–467 Namba S (1995) Capillovirus genus. Arch Virol (Suppl 10) 465–467
15.
go back to reference Noorami MS, Awasthi P, Singh RM, Ram R, Sharma MP, Singh SR N, Ahmed N, Hallan V, Zaidi AA (2010) Complete nucleotide sequence of cherry virus A (CVA) infecting sweet cherry in India. Arch Virol 155:2079–2082CrossRef Noorami MS, Awasthi P, Singh RM, Ram R, Sharma MP, Singh SR N, Ahmed N, Hallan V, Zaidi AA (2010) Complete nucleotide sequence of cherry virus A (CVA) infecting sweet cherry in India. Arch Virol 155:2079–2082CrossRef
16.
go back to reference Poke FS (2008) Hop mosaic virus: complete nucleotide sequence and relationship to other carlaviruses. Arch Virol 153:1615–1619PubMedCrossRef Poke FS (2008) Hop mosaic virus: complete nucleotide sequence and relationship to other carlaviruses. Arch Virol 153:1615–1619PubMedCrossRef
17.
go back to reference Rozanov MN, Koonin EV, Gorbalenya AE (1992) Conservation of the putative methyl-transferase domain: a hallmark of the ‘Sindbis-like’ supergroup of positive-strand RNA viruses. J Gen Virol 73:2129–2134PubMedCrossRef Rozanov MN, Koonin EV, Gorbalenya AE (1992) Conservation of the putative methyl-transferase domain: a hallmark of the ‘Sindbis-like’ supergroup of positive-strand RNA viruses. J Gen Virol 73:2129–2134PubMedCrossRef
18.
go back to reference Saldarelli P, Rowhani A, Routh G, Minafra A, Digiaro M (1998) Use of degenerate primers in a RT-PCR assay for the identification and analysis of some filamentous viruses, with special reference to clostero- and vitiviruses of the grapevine. Euro J Plant Pathol 104:945–950CrossRef Saldarelli P, Rowhani A, Routh G, Minafra A, Digiaro M (1998) Use of degenerate primers in a RT-PCR assay for the identification and analysis of some filamentous viruses, with special reference to clostero- and vitiviruses of the grapevine. Euro J Plant Pathol 104:945–950CrossRef
19.
go back to reference Tatineni S, Afunian MR, Gowda S, Hilf ME, Bar-Joseph M, Dawson WO (2009) Characterization of the 5′- and 3′-terminal subgenomic RNAs produced by a capillovirus: evidence for a CP subgenomic RNA. Virology 385:521–528PubMedCrossRef Tatineni S, Afunian MR, Gowda S, Hilf ME, Bar-Joseph M, Dawson WO (2009) Characterization of the 5′- and 3′-terminal subgenomic RNAs produced by a capillovirus: evidence for a CP subgenomic RNA. Virology 385:521–528PubMedCrossRef
20.
go back to reference Webster C, Jones RAC, Coutts BA, Jones MGK, Wylie SJ (2007) Virus impact at the interface of an ancient ecosystem and a recent agroecosystem: studies on three legume-infecting potyviruses in the southwest Australian floristic region. Plant Pathol 56:729–742CrossRef Webster C, Jones RAC, Coutts BA, Jones MGK, Wylie SJ (2007) Virus impact at the interface of an ancient ecosystem and a recent agroecosystem: studies on three legume-infecting potyviruses in the southwest Australian floristic region. Plant Pathol 56:729–742CrossRef
21.
go back to reference Wylie SJ, Nouri S, Coutts BA, Jones MGK (2010) Narcissus late season yellows virus and Vallota speciosa virus found infecting domestic and wild populations of Narcissus species in Australia. Arch Virol 155:1171–1174PubMedCrossRef Wylie SJ, Nouri S, Coutts BA, Jones MGK (2010) Narcissus late season yellows virus and Vallota speciosa virus found infecting domestic and wild populations of Narcissus species in Australia. Arch Virol 155:1171–1174PubMedCrossRef
22.
go back to reference Yaegashi H, Takahashi T, Isogai M, Kobori T, Ohki S, Yoshikawa N (2007) Apple chlorotic leaf spot virus 50 kDa movement protein acts as a suppressor of systemic silencing without interfering with local silencing in Nicotiana benthamiana. J Gen Virol 88:316–324PubMedCrossRef Yaegashi H, Takahashi T, Isogai M, Kobori T, Ohki S, Yoshikawa N (2007) Apple chlorotic leaf spot virus 50 kDa movement protein acts as a suppressor of systemic silencing without interfering with local silencing in Nicotiana benthamiana. J Gen Virol 88:316–324PubMedCrossRef
23.
go back to reference Zerbino DR, Birney E (2008) Velvet: Algorithms for de novo short read assembly using de Bruijn graphs. Genome Res 18:821–829PubMedCrossRef Zerbino DR, Birney E (2008) Velvet: Algorithms for de novo short read assembly using de Bruijn graphs. Genome Res 18:821–829PubMedCrossRef
Metadata
Title
Hardenbergia virus A, a novel member of the family Betaflexiviridae from a wild legume in Southwest Australia
Authors
Stephen Wylie
Michael Jones
Publication date
01-07-2011
Publisher
Springer Vienna
Published in
Archives of Virology / Issue 7/2011
Print ISSN: 0304-8608
Electronic ISSN: 1432-8798
DOI
https://doi.org/10.1007/s00705-011-0963-6

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