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Archives of Virology
Published in: Archives of Virology 8/2011

01-08-2011 | Brief Report

Genetic variation and evolutionary analysis of broad bean wilt virus 2

Authors: Rosa M. Ferrer, Inmaculada Ferriol, Pedro Moreno, José Guerri, Luis Rubio

Published in: Archives of Virology | Issue 8/2011

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Abstract

The genetic variation and evolutionary mechanisms of broad bean wilt virus 2 (BBWV-2) were studied by nucleotide sequence analysis of four genomic regions of 30 isolates from different countries. Nucleotide diversity was high (0.198) for a plant virus. Phylogenetic and genetic structure analyses showed low population subdivision, suggesting a significant gene flow between distant geographic areas. Analysis of synonymous and nonsynonymous substitutions showed different negative selection pressures for different parts of the coding regions, but no positive selection was found. Several recombination detection methods showed that some BBWV-2 genomes might have originated from recombination or reassortment.
Literature
1.
Chare ER, Holmes EC (2004) Selection pressures in the capsid genes of plant RNA viruses reflect mode of transmission. J Gen Virol 85:3149–3157PubMedCrossRef
2.
Chare ER, Holmes EC (2006) A phylogenetic survey of recombination frequency in plant RNA viruses. Arch Virol 151:933–946PubMedCrossRef
3.
Ferrer RM, Escriu F, Luis-Arteaga M, Guerri J, Moreno P, Rubio L (2008) New molecular methods for identification of Broad bean wilt virus 1. Mol Cell Probes 22:223–227PubMedCrossRef
4.
Ferrer RM, Luis-Arteaga M, Guerri J, Moreno P, Rubio L (2007) Detection and identification of species of the genus Fabavirus by RT-PCR with a single pair of primers. J Virol Meth 144:156–160CrossRef
5.
García-Arenal F, Fraile A, Malpica JM (2001) Variability and genetic structure of plant virus populations. Ann Rev Phytopathol 39:157–186CrossRef
6.
Guindon S, Gascuel O (2003) A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol 52:696–704PubMedCrossRef
7.
Ikegami M, Kawashima H, Natsuaki T, Sugimura N (1998) Complete nucleotide sequence of the genome organization of RNA2 of patchouli mild mosaic virus, a new fabavirus. Arch Virol 143:2431–2434PubMedCrossRef
8.
Ikegami M, Onobori Y, Sugimura N, Natsuaki T (2001) Complete nucleotide sequence and the genome organization of Patchouli mild mosaic virus RNA1. Intervirology 44:355–358PubMedCrossRef
9.
Kobayashi YO, MikoshibaY HondaY, Omura T (2004) Detection of Broad bean wilt virus 1 and Broad bean wilt virus 2 in Japan. Ann Rept Kanto Pl Prot Soc 51:43–48
10.
Kobayashi YO, Nakano M, Kashiwazaki S, Naito T, Mikoshiba Y, Shiota A, Kameya-Iwaki M, Honda Y (1999) Sequence analysis of RNA-2 of different isolates of broad bean wilt virus confirms the existence of two distinct species. Arch Virol 144:1429–1438PubMedCrossRef
11.
Kondo T, Fuji S, Yamashita K, Kang DK, Chang MU (2005) Broad bean wilt virus 2 in yams. J Gen Plant Pathol 71:441–443CrossRef
12.
Koh LH, Cooper JI, Wong SM (2001) Complete sequences and phylogenetic analyses of a Singapore isolate of broad bean wilt fabavirus. Arch Virol 146:135–147PubMedCrossRef
13.
Kosakovsky Pond SL, Frost SD W (2005) Datamonkey: rapid detection of selective pressure on individual sites of codon alignments. Bioinformatics 21:2531–2533CrossRef
14.
Kumar S, Dudley J, Nei M, Tamura K (2008) MEGA: A biologist-centric software for evolutionary analysis of DNA and protein sequences. Brief Bioinf 9:299–306CrossRef
15.
Kuroda T, Okumura A, Takeda I, Miura Y, Suzuki K (2000) Nucleotide sequence and synthesis of infectious RNA from cloned cDNA of broad bean wilt virus 2 RNA 2. Arch Virol 145:787–793PubMedCrossRef
16.
Lai MMC (1998) Cellular factors in the transcription and replication of viral RNA genomes: a parallel to DNA-dependent RNA transcription. Virology 244:1–12PubMedCrossRef
17.
Li WH (1993) Unbiased estimation of the rates of synonymous and nonsynonymous substitution. J Mol Evol 36:96–99PubMedCrossRef
18.
Librado R, Rojas J (2009) DnaSP v5. A software for comprehensive analysis of DNA polymorphism date. Bioinformatics 25:1451–1452PubMedCrossRef
19.
Lisa V, Boccardo G (1996) Fabaviruses: Broad bean wilt and allied viruses. In: Harrison BH, Murant AF (eds) Polyhedral virions and bipartite RNA genomes (The Plant Viruses, vol. 5). Plenum Press, New York, pp 229–250
20.
Martin DP, Lemey P, Lott M, Moulton V, Posada D (2010) RDP3: a flexible and fast computer program for analyzing recombination. Bioinformatics 26:2462–2463PubMedCrossRef
21.
Martín S, Garcia ML, Troisi A, Rubio L, Milne RG, Legarreta G, Grau O, Alioto D, Moreno P, Guerri J (2006) Genetic variation of populations of Citrus psorosis virus. J Gen Virol 87:3097–3102PubMedCrossRef
22.
Martín S, Sambade A, Rubio L, Vives MC, Moya P, Guerri J, Elena SF, Moreno P (2009) Contribution of recombination and selection to molecular evolution of Citrus tristeza virus. J Gen Virol 90:1527–1538PubMedCrossRef
23.
Nagy PD (2008) Recombination in plant RNA viruses. In: Roossinck M (ed) Plant virus evolution. Springer, Berlin, pp 133–156CrossRef
24.
Nakamura S, Iwai T, Honkura R (1998) Complete nucleotide sequence and genome organization of broad bean wilt virus 2. Ann Phytopathol Soc Jpn 64:565–568
25.
Pamilo P, Bianchi NO (1993) Evolution of the Zfx and Zfy, genes: rates and interdependence between the genes. Mol Biol Evol 10:271–281PubMed
26.
Qi Y, Zhou X, Li D (2000) Complete nucleotide sequence and infectious cDNA clone of the RNA1of a Chinese isolate of broad bean wilt virus 2. Virus Genes 20:201–207PubMedCrossRef
27.
Qi Y, Zhou X, Xue C, Li D (2000) Nucleotide sequence of RNA2 and polyprotein processing sites of a Chinese isolate of broad bean wilt virus 2. Prog Nat Sci 10:680–686
28.
Posada D, Crandall KA (1998) ModeltestL testing the model of DNA substitution. Bioinformatics 14:817–818PubMedCrossRef
29.
Rubio L, Ayllón MA, Kong P, Fernández A, Polek M, Guerri J, Moreno P, Falk BW (2001) Genetic variation of Citrus tristeza virus (CTV) in California and Spain. Evidences for mixed infections and recombination. J Virol 75:8054–8062PubMedCrossRef
30.
Sambade A, Rubio L, Garnsey SM, Costa N, Muller GW, Peyrou M, Guerri J, Moreno P (2002) Comparison of the RNA population of pathogenically distinct isolates of Citrus tristeza virus. Application to monitoring cross protection. J Plant Pathol 51:257–265CrossRef
31.
Sui C, Wei JH, Zhan QQ, Zhang J (2009) First Report of Broad bean wilt virus 2 Infecting Bupleurum chinense in China. Plant Dis 93:844CrossRef
32.
Tárraga J, Medina I, Arbiza L, Huerta-Cepas J, Gabaldón T, Dopazo J, Dopazo H (2007) Phylemon: a suite of web tools for molecular evolution, phylogenetics and phylogenomics. Nucleic Acids Res 35:W38–W42PubMedCrossRef
33.
Vives MC, Rubio L, Galipienso L, Navarro L, Moreno P, Guerri J (2002) Low genetic variation of Citrus leaf blotch virus isolates from different host species and geographic origins. J Gen Virol 83:2587–2591PubMed
34.
Wei TY, Yang JG, Liao FL, Gao FL, Lu LM, Zhang XT, Li F, Wu ZJ, Lin QY, Xie LH, Lin HX (2009) Genetic diversity and population structure of rice stripe virus in china. J Gen Virol 90:1025–1034PubMedCrossRef
Metadata
Title
Genetic variation and evolutionary analysis of broad bean wilt virus 2
Authors
Rosa M. Ferrer
Inmaculada Ferriol
Pedro Moreno
José Guerri
Luis Rubio
Publication date
01-08-2011
Publisher
Springer Vienna
Published in
Archives of Virology / Issue 8/2011
Print ISSN: 0304-8608
Electronic ISSN: 1432-8798
DOI
https://doi.org/10.1007/s00705-011-0990-3

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