Abstract
A bipartite begomovirus was identified from a Boehmeria leiophylla plant sample exhibiting yellow mosaic symptoms collected in Nabanhe National Nature Reserve, Xishuangbanna, Yunnan, China. Five complete DNA-A and four DNA-B genome sequences were obtained by rolling-circle amplification (RCA), cloned, and sequenced. All DNA-A sequences were determined to be 2759 nucleotides in size, sharing 99.9%–100% nucleotide sequence identity with each other. The DNA-B sequences were comprised of 2673 nucleotides, sharing 98.6–100% nucleotide sequence identity with each other. Genomic organization of the begomovirus was typical of Old World bipartite begomoviruses. Sequence analysis revealed 81.84% nucleotide sequence identity to tomato leaf curl Hsinchu virus (ToLCHsV) from China for the DNA A component and 67.23% identity to the squash leaf curl China virus (SLCCNV) from India for the DNA B component. The sequence comparisons suggest that this bipartite begomovirus represents a novel species for which we propose the name “Ramie yellow mosaic virus”.
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References
King AMQ, Adams MJ, Carstcns EB, Lefkowitz EJ (2012) Virus taxonomy: ninth report of the international committee on taxonomy of viruses. Elsevier/Academic Press, San Diego, pp 351–372
Nawaz-ul-Rehman MS, Fauquet CM (2009) Evolution of geminiviruses and their satellites. FEBS Lett 583:1825–1832
Harrison BD, Robinson DJ (1999) Natural genomic and antigenic variation in whitefly-transmitted geminiviruses (Begomoviruses). Annu Rev Phytopathol 37:369–398
Rojas MR, Hagen C, Lucas WJ, Gilbertson RL (2005) Exploiting chinks in the plant’s Armor: evolution and emergence of geminiviruses. Annu Rev Phytopathol 43:361–394
Hanley-Bowdoin L, Bejarano ER, Robertson D, Mansoor S (2013) Geminiviruses: masters at redirecting and reprogramming plant processes. Nat Rev Microbiol 11:777–788
Briddon RW, Patil BL, Bagewadi B, Nawaz-ul-Rehman MS, Fauquet CM (2010) Distinct evolutionary histories of the DNA-A and DNA-B components of bipartite begomoviruses. BMC Evol Biol 10:97
Bernard V, Brunaud V, Lecharny A (2010) TC-motifs at the TATA-box expected position in plant genes: a novel class of motifs involved in the transcription regulation. BMC Genom 11:166
Navas-Castillo J, Fiallo-Olivé E, Sánchez-Campos S (2011) Emerging virus diseases transmitted by whiteflies. Annu Rev Phytopathol 49:219–248
Kenyon L, Tsai WS, Shih SL, Lee LM (2014) Emergence and diversity of begomoviruses infecting solanaceous crops in East and Southeast Asia. Virus Res 186:104–113
Li J, Zhang XY, Qian YJ (2016) Molecular characterization of Ramie mosaic virus isolates detected in Jiangsu and Zhejiang provinces, China. Acta Virol 54:225–228
Doyle JJ, Doyle JL (1987) A rapid DNA isolation procedure for small quantities of fresh tissue. Phytochem Bull 19:11–15
Xie Y, Zhou XP, Zhang ZK, Qi YJ (2002) Tobacco curly shoot virus isolated in Yunnan is distinct species of Begomovirus. Chin Sci Bull 47:197–200
Rojas MR, Gilbertson RL, Russell DR, Maxwell DP (1993) Use of degenerate primers in the polymerase chain-reaction to detect whitefly-transmitted geminiviruses. Plant Dis 77:340–347
Briddon RW, Bull SE, Mansoor S, Amin I, Markham PG (2002) Universal primers for the PCR-mediated amplification of DNA beta-a molecule associated with some monopartite begomoviruses. Mol Biotechnol 20:315–318
Bull SE, Briddon RW, Markham PG (2003) Universal primers for the PCR-mediated amplification of DNA 1: a satellite-like molecule associated with begomovirus-DNAβ complexes. Mol Biotechnol 23:83–86
Guo W, Yang XL, Xie Y, Cui XF, Zhou XP (2009) Tomato yellow leaf curl Thailand virus-[Y72] from Yunnan is a monopartite begomovirus associated with DNA β. Virus Genes 38:328–333
Brown JK, Zerbini FM, Navas-Castillo J, Moriones E, RamosSobrinho R, Silva JCF, Fiallo-OlivéE Briddon RW, HernándezZepeda C, Idris A, Malathi VG, Martin DP, Rivera-Bustamante R, Ueda S, Varsani A (2015) Revision of Begomovirus taxonomy based on pairwise sequence comparisons. Arch Virol 160:1593–1619
Muhire B, Varsani A, Martin DP (2014) SDT: a virus classification tool based on pairwise sequence alignment and identity calculation. PLoS One 9(9):e108277
Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S (2011) MEGA5: Molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28:2731–2739
Zhang J, Wu ZJ (2013) First Report of Kudzu mosaic virus on Pueraria montana (Kudzu) in China. Plant Dis 97:148
Li J, Zhou XP (2010) Molecular characterization and experimental host-range of two begomoviruses infecting Clerodendrum cyrtophyllum in China. Virus Genes 41:250–259
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This work was supported by the National Natural Science Foundation of China (U1136606 and 31560501).
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Zhao, L., Zhong, J., Zhang, X. et al. Complete genome sequence of a new bipartite begomovirus infecting Boehmeria leiophylla in China. Arch Virol 163, 1989–1992 (2018). https://doi.org/10.1007/s00705-018-3802-1
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DOI: https://doi.org/10.1007/s00705-018-3802-1