Abstract
A distinct bipartite begomovirus was isolated in northeastern Brazil infecting Macroptilium lathyroides showing symptoms of yellow mosaic. The complete genome (DNA-A and DNA-B) of the virus was cloned using rolling circle amplification and subsequently sequenced. Clones presented the typical genomic organization of a New World bipartite begomovirus. Based on the current taxonomic criteria established for the genus Begomovirus, the virus corresponds to a new species, showing highest nucleotide identity with other Brazilian begomoviruses that infect leguminous hosts. In phylogenetic analysis the virus clustered with bean golden mosaic virus. Recombination events were not detected. We propose the name Macroptilium common mosaic virus (MacCMV) for the virus reported in this study.
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References
Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ (1990) Basic local alignment search tool. J Mol Biol 215:403–410
Bird J, Sanchez J, Vakili NG (1973) Golden yellow mosaic of beans (Phaseolus vulgaris) in Puerto Rico. Phytopathol 63:1435
Brown JK, Fauquet CM, Briddon RW, Zerbini FM, Moriones E, Navas-Castillo J (2012) Family Geminiviridae. In: King AMQ, Adams MJ, Carstens EB, Lefkowitz EJ (eds) Virus taxonomy 9th report of the International Committee on Taxonomy of Viruses. Elsevier Academic Press, London, pp 351–373
Castillo-Urquiza GP, Beserra JEA Jr, Bruckner FP, Lima ATM, Varsani A, Alfenas-Zerbini P, Zerbini FM (2008) Six novel begomoviruses infecting tomato and associated weeds in southeastern Brazil. Arch Virol 153:1985–1989
Chagas CM, Barradas MM, Vicente M (1981) Espécies hospedeiras do vírus do mosaico dourado do feijoeiro (VMDF). Arq Inst Biol São Paulo 48:123–127
Dellaporta SL, Wood J, Hicks JB (1983) A plant DNA minipreparation: Version II. Plant Mol Biol Rep 1:19–21
Edgar RC (2004) MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 32:1792–1797
Fourment M, Gibbs AJ, Gibbs MJ (2008) SWeBLAST: a sliding window web-based BLAST tool for recombination analysis. J Virol Methods 152:98–101
Hanley-Bowdoin L, Settlage SB, Orozco BM, Nagar S, Robertson D (2000) Geminiviruses: models for plant DNA replication, transcription, and cell cycle regulation. Crit Rev Plant Sci 18:71–106
Inoue-Nagata AK, Albuquerque LC, Rocha WB, Nagata T (2004) A simple method for cloning the complete begomovirus genome using the bacteriophage phi 29 DNA polymerase. J Virol Met 116:209–211
Martin DP, Lemey P, Lott M, Moulton V, Posada D, Lefeuvre P (2010) RDP3: a flexible and fast computer program for analyzing recombination. Bioinformatics 26:2462–2463
Muhire B, Varsani A, Martin DP (2014) SDT: a virus classification tool based on pairwise sequence alignment and identity calculation. PLoS One 9:1–8
Navas-Castillo J, Fiallo-Olivé E, Sánchez-Campos S (2011) Emerging virus diseases transmitted by whiteflies. Annu Rev Phytopathol 49:219–248
Nylander JAA (2004) MrModeltest v2. Program distributed by the author. Evolutionary Biology Centre, Uppsala University
Rocha CS, Castillo-Urquiza GP, Lima ATM, Silva FN, Xavier CAD, Hora-Júnior BT, Beserra-Júnior JEA, Malta AWO, Martin DP, Varsani A, Alfenas-Zerbini P, Mizubuti ESG, Zerbini FM (2013) Brazilian begomovirus populations are highly recombinant, rapidly evolving and segregated based on geographical location. J Virol 87:5784–5799
Ronquist F, Huelsenbeck JP (2003) MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19:1572–1574
Roye ME, McLaughlin WA, Nakhla MK, Maxwell DP (1997) Genetic diversity among geminiviruses associated with the weed species Sida spp., Macroptilium lathyroides, and Wissadula amplissima from Jamaica. Plant Dis 81:1251–1258
Sambrook J, Fritsch EF, Maniatis T (1989) Molecular cloning - a laboratory manual, 2nd edn. Cold Spring Harbor Laboratory Press, Cold Spring Harbor
Silva SJC, Castillo-Urquiza GP, Hora-Júnior BT, Assunção IP, Lima GSA, Pio-Ribeiro G, Mizubuti ESG, Zerbini FM (2012) Species diversity, phylogeny and genetic variability of begomovirus populations infecting leguminous weeds in northeastern Brazil. Plant Pathol 61:457–467
Tamura K, Stecher G, Peterson D, Filipski A, Kumar S (2013) MEGA 6: molecular evolutionary genetics analysis version 6.0. Mol Bio Evol 30:2725–2729
Wyant PS, Gotthardt D, Scha¨fer B, Krenz B, Jeske H (2011) The genomes of four novel begomoviruses and a new Sida micrantha mosaic virus strain from Bolivian weeds. Arch Virol 156:347–352
Acknowledgements
This work was funded by FAPEPI/CNPq (Grant PPP-033/14 to JEAB), PRONEX/FAPEPI (Grant 004/2012 to ASFA) and FAPEMIG (Grant APQ-02037-13 to FMZ). LSP was the recipient of a CAPES scholarship.
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This study was funded by FAPEPI (Grant no. PPP-033/14 and PRONEX-004/2012) and by FAPEMIG (Grant no. APQ-02037-13).
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This article does not contain any studies with human participants or animals performed by any of the authors.
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The sequences reported in this paper have been deposited in GenBank under the accession numbers KX691396, KX691397 and KX691412.
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Passos, L.S., Rodrigues, J.S., Soares, É.C.S. et al. Complete genome sequence of a new bipartite begomovirus infecting Macroptilium lathyroides in Brazil. Arch Virol 162, 3551–3554 (2017). https://doi.org/10.1007/s00705-017-3522-y
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DOI: https://doi.org/10.1007/s00705-017-3522-y