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VirusDisease

, Volume 29, Issue 1, pp 68–74 | Cite as

Molecular evidence of an isolate of mungbean yellow mosaic India virus with a recombinant DNA B component occurring on mungbean from mid-hills of Meghalaya, India

  • Amrita Banerjee
  • Yashi Umbrey
  • Rohit M. Yadav
  • Somnath Roy
Original Article

Abstract

A new isolate (Mg-mungbean-1) of yellow mosaic virus (YMV) was identified and characterized from mungbean growing in mid-hill condition of Meghalaya, India. Full genome of components (DNA A and DNA B; NCBI accessions number KU95030 and KU95031, respectively) of the virus were amplified through rolling circle amplification and sequenced. Both, DNA A and DNA B shared a common region (CR) with 90.4% similarity. The DNA A of Mg-mungbean-1 showed maximum (97.59%) nucleotide identity with mungbean yellow mosaic India virus (MYMIV) isolate (HF922628) reported from West Bengal, India and DNA B showed ~ 96% nucleotide identity with mungbean yellow mosaic virus (MYMV) isolates having variant DNA B. Phylogenetic tree of DNA A also identified Mg-mungbean-1 as a MYMIV. Based on DNA B the current isolate grouped with the variant Indian MYMV isolates. One recombination event in the CR of DNA B of Mg-mungbean-1 was detected, where MYMV:India:clonePB1 and MYMIV:India:cloneMBB-B31 have been identified as major and minor parents, respectively. Overall, the current study indicated occurrence of an isolate of MYMIV with a recombinant DNA B component on mungbean from mid-hills of Meghalaya, India. To the best of our knowledge this is the first molecular characterization of YMV from northeast India.

Keywords

Northeast India MYMIV MYMV Mungbean Genome Recombination 

Notes

Acknowledgements

This work was supported by the Department of Biotechnology, Government of India [grant number BT/324/NE/TBP/2012].

Supplementary material

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Supplementary material 9 (PDF 278 kb)

References

  1. 1.
    Barnabas AD, Radhakrishnan GK, Usha R. Characterization of a begomovirus causing horsegram yellow mosaic disease in India. Eur. J. Plant Pathol. 2010;127:41–51.CrossRefGoogle Scholar
  2. 2.
    Briddon RW, Patil BL, Basavaraj B, Nawaz-ul-Rehman MS, Fauquet CM. Distinct evolutionary histories of the DNA-A and DNA-B components of bipartite begomoviruses. BMC Evol. Biol. 2010;10:97.CrossRefPubMedPubMedCentralGoogle Scholar
  3. 3.
    Briddon RW, Stanley J. Subviral agents associated with plant single-stranded DNA viruses. Virology. 2006;344:198–210.CrossRefPubMedGoogle Scholar
  4. 4.
    Fontes EP, Eagle PA, Sipe PS, Luckow VA, Hanley-Bowdoin L. Interaction between a geminivirus replication protein and origin DNA is essential for viral replication. J. Biol. Chem. 1994;269:8459–65.PubMedGoogle Scholar
  5. 5.
    Fontes EP, Gladfelter HJ, Schaffer RL, Petty IT, Hanley-Bowdoin L. Geminivirus replication origins have a modular organization. Plant Cell. 1994;6:405–16.CrossRefPubMedPubMedCentralGoogle Scholar
  6. 6.
    Girish KR, Usha R. Molecular characterization of two soybean infecting begomoviruses from India and evidence for recombination among legume-infecting begomoviruses from South-East Asia. Virus Res. 2005;108:167–76.CrossRefPubMedGoogle Scholar
  7. 7.
    Inoue-Nagata AK, Albuquerque LC, Rocha WB, Nagata T. A simple method for cloning the complete begomovirus genome using the bacteriophage phi29 DNA polymerase. J. Virol. Methods. 2004;116:209–11.CrossRefPubMedGoogle Scholar
  8. 8.
    John P, Sivalingam PN, Haq QMI, Kumar N, Mishra A, Briddon RW, Malathi VG. Cowpea golden mosaic disease in Gujarat is caused by a Mungbean yellow mosaic India virus isolate with a DNA B variant. Arch. Virol. 2008;153:1359–65.CrossRefPubMedGoogle Scholar
  9. 9.
    Karthikeyan A, Shobhana VG, Sudha M, Raveendran M, Senthil N, Pandiyan M, Nagarajan P. Mungbean yellow mosaic virus (MYMV): a threat to green gram (Vigna radiata) production in Asia. Int. J. Pest Manag. 2014;60:314–24.CrossRefGoogle Scholar
  10. 10.
    Karthikeyan AS, Vanitharani R, Balaji V, Anuradha S, Thillaichidambaram P, Shivaprasad PV, Parameswari C, Balamani V, Saminathan M, Veluthambi K. Analysis of an isolate of Mungbean yellow mosaic virus (MYMV) with a highly variable DNA-B component. Arch. Virol. 2004;149:1643–52.CrossRefPubMedGoogle Scholar
  11. 11.
    King AM, Adams MJ, Lefkowitz EJ, Carstens EB, Ball LA. Virus Taxonomy: IXth Report of the International Committee on Taxonomy of Viruses. London: Elsevier Academic Press; 2011.Google Scholar
  12. 12.
    Lazarowitz SG, Shepherd RJ. Geminiviruses: genome structure and gene function. Crit. Rev. Plant Sci. 1992;11:327–49.CrossRefGoogle Scholar
  13. 13.
    Martin DP, Lemey P, Lott M, Moulton V, Posada D, Lefeuvre P. RDP3: a flexible and fast computer programme for analyzing recombination. Bioinfromatics. 2010;26:2462–3.CrossRefGoogle Scholar
  14. 14.
    Muhire BM, Varsani A, Martin DP. SDT: a virus classification tool based on pairwise sequence alignment and identity calculation. PLoS ONE. 2014;9:e108277.  https://doi.org/10.1371/journal.pone.0108277.CrossRefPubMedPubMedCentralGoogle Scholar
  15. 15.
    Naimuddin AM, Pratap A. First report of natural infection of Mungbean yellow mosaic India virus in two wild species of Vigna. New Dis. Rep. 2011;23:21–2.CrossRefGoogle Scholar
  16. 16.
    Naimuddin Akram M. Detection of mixed infection of begomoviruses in cowpea and their molecular characterization based on CP gene sequences. J. Food Legumes. 2010;23:191–5.Google Scholar
  17. 17.
    Nath PD, Saikia AK. Effects of time sowing on the incidence of mungbean yellow mosaic virus disease and whitefly (Bemisia tabaci Genn.) population in greengram. Ann. Agric. Res. 1995;16(4):483–4.Google Scholar
  18. 18.
    Orozeo BM, Gladfelter HJ, Settlage SB, Eagle PA, Gentry RN, Hanley-Bowdoin L. Multiple cis elements contribute to geminivirus origin function. Virology. 1998;242:346–56.CrossRefGoogle Scholar
  19. 19.
    Pant V, Gupta D, Choudhury NR, Malathi VG, Varma A, Mukherjee SK. Molecular characterization of the Rep protein of the blackgram isolate of Indian mungbean yellow mosaic virus. J. Gen. Virol. 2001;82:2559–67.CrossRefPubMedGoogle Scholar
  20. 20.
    Qazi J, Ilyas M, Mansoor S, Briddon RW. Legume yellow mosaic viruses: genetically isolated begomoviruses. Mol. Plant Pathol. 2007;8:343–8.CrossRefPubMedGoogle Scholar
  21. 21.
    Reddy BVB, Obaiah S, Prasanthi L, Sivaprasad Y, Sujitha A, Krishna TG. Mungbean yellow mosaic India virus is associated with yellow mosaic disease of blackgram (Vigna mungo L.) in Andhra Pradesh. India. Arch. Phytopathol. Plant Protect. 2015;48:345–53.CrossRefGoogle Scholar
  22. 22.
    Roberts S, Stanley J. Lethal mutations within the conserved stem-loop of African cassava mosaic virus DNA are rapidly corrected by genomic recombination. J. Gen. Virol. 1994;75:3203–9.CrossRefPubMedGoogle Scholar
  23. 23.
    Saunders K, Salim N, Mali VR, Malathi VG, Briddon RW, Markham PG, Stanley J. Characterization of Sri Lankan cassava mosaic virus and Indian cassava mosaic virus: evidence for acquisition of a DNA B component by a monopartite begomovirus. Virology. 2002;293:63–74.CrossRefPubMedGoogle Scholar
  24. 24.
    Seal SE, Van den Bosch F, Jeger MJ. Factors influencing begomovirus evolution and their increasing global significance: implications for sustainable control. Crit. Rev. Plant Sci. 2006;25:23–46.CrossRefGoogle Scholar
  25. 25.
    Tamura K, Stecher G, Peterson D, Filipski A, Kumar S. MEGA6: molecular evolutionary genetics analysis version 6.0. Mol. Biol. Evol. 2013;30:2725–9.CrossRefPubMedPubMedCentralGoogle Scholar
  26. 26.
    Tsai WS, Shih SL, Venkatesan SG, Aquino MU, Green SK, Kenyon L, Jan FJ. Distribution and genetic diversity of begomoviruses infecting tomato and pepper plants in the Philippines. Ann. Appl. Biol. 2011;158:275–87.CrossRefGoogle Scholar
  27. 27.
    Usharani KS, Surendranath B, Haq QMR, Malathi VG. Yellow mosaic virus infecting soybean in northern India is distinct from the species infecting soybean in southern and western India. Curr. Sci. 2004;86:845–50.Google Scholar
  28. 28.
    Varma A, Malathi VG. Emerging geminivirus problems: a serious threat to crop production. Ann. Appl. Biol. 2003;142:145–64.CrossRefGoogle Scholar
  29. 29.
    Zhou X, Liu Y, Calvert L, Munoz C, Otim-Nape GW, Robinson DJ, Harrison BD. Evidence that DNA-A of a geminivirus associated with severe cassava mosaic disease in Uganda has arisen by interspecific recombination. J. Gen. Virol. 1997;78:2101–11.CrossRefPubMedGoogle Scholar

Copyright information

© Indian Virological Society 2018

Authors and Affiliations

  • Amrita Banerjee
    • 1
    • 4
  • Yashi Umbrey
    • 2
  • Rohit M. Yadav
    • 3
  • Somnath Roy
    • 3
    • 4
  1. 1.ICAR Research Complex for NEH RegionUmiamIndia
  2. 2.College of Post Graduate StudiesCentral Agricultural UniversityUmiamIndia
  3. 3.ICAR-National Bureau of Plant Genetic Resources, Regional StationUmiamIndia
  4. 4.ICAR-National Rice Research InstituteCentral Rainfed Upland Rice Research StationHazaribagIndia

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