Abstract
Sugarcane streak mosaic virus (SCSMV), a member of the genus Poacevirus, family Potyviridae, is an important viral pathogen affecting sugarcane cultivation in India. The complete nucleotide sequence of a SCSMV isolate from India (SCSMV-IND) was determined. The linear, assembled, single-stranded positive-sense RNA genome of SCSMV-IND was 9,786 nucleotides in length (excluding the poly (A) tail) and encoded a polyprotein of 3,131 amino acid residues. The genome of SCSMV-IND shared high degree of sequence identity with SCSMV-PAK (93 % at nucleotide and 97 % at amino acid), and shared only 81 % nucleotide and 94 % amino acid identities with all the four SCSMV isolates (SCSMV-JP1, -JP2, -ID, and -THA). Phylogenetic tree analysis of the complete genome sequences of SCSMV isolates revealed that they can be clustered into two groups. SCSMV-IND and -AP isolates showed 18 % (nucleotide) divergence within the highly conserved 3′ partial genome, suggesting a high level of genetic diversity among the Indian SCSMV isolates.
References
R. Viswanathan, M. Balamuralikrishnan, R. Karuppaiah, Sugar Cane Int. 25, 6–14 (2007)
J.S. Hall, B. Adams, T.J. Parsons, R. French, L.C. Lane, S.G. Jensen, Mol. Phylogenet. Evol. 10, 323–332 (1998)
M. Hema, P. Sreenivasulu, H.S. Savithri, Arch. Virol. 147, 1997–2007 (2002)
M. Hema, J. Joseph, K. Gobinath, P. Sreenivasulu, H.S. Savithri, Arch. Virol. 144, 479–490 (1999)
M. Chatenet, C. Mazarin, J.C. Girard, E. Fernandez, D. Gargani, G.P. Rao, M. Lockhart, P. Rott, Sugar Cane Int. 23(28), 12–15 (2005)
R.K. Gaur, M. Singh, A. Singh, L.C. Mishra, G.P. Rao, Sugar cane Int. 24, 13–17 (2006)
R. Viswanathan, M. Balamuralikrishnan, R. Karuppaiah, Virus Genes 36, 553–564 (2008)
G.P. Rao, M. Chatenet, J.G. Girard, P. Rott, Sugar Tech. 8, 79–81 (2006)
D.L. Xu, G.H. Zhou, Y.J. Xie, R. Mock, R. Li, Virus Genes 40, 432–439 (2010)
W. Li, Z. He, S. Li, Y. Huang, Z. Zhang, D. Jiang, X. Wang, Z. Luo, Arch. Virol. (2011). doi:10.1007/s00705-011-1090-0
M. Hema, N. Kirthi, P. Sreenivasulu, H.S. Savithri, Arch. Virol. 148, 1185–1193 (2003)
T.A. Hall, Nucleic Acids Symp. Ser. 41, 95–98 (1999)
J.D. Thompson, T.J. Gibson, F. Plewniak, F. Jeanmougin, D.G. Higgins, Nucleic Acids Res. 24, 4876–4882 (1997)
D.P. Martin, P. Lemey, M. Lott, V. Moulton, D. Posada, P. Lefeuvre, Bioinformatics 26, 2462–2463 (2010)
A. Valli, G. Dujovny, J.A. Garcia, J. Virol. 82, 974–986 (2008)
A.Y. Brock, C.S. Drake, Q. Feng, T.J. Morris, T. Satyanarayana, F. Roy, Virus Res. 163, 672–677 (2012)
M.J. Adams, J.F. Antoniw, C.M. Fauquet, Arch. Virol. 150, 459–479 (2005)
B. Salvador, P. Saenz, E. Yanguez, J.B. Quiot, L. Quiot, M.O. Delgadillo, J.A. Garcia, C. Simon-Mateo, Mol. Plant Pathol. 9, 147–155 (2008)
A. Valli, J.J. Lopez-Moya, J.A. Garcia, J. Gen. Virol. 88, 1016–1028 (2007)
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The authors are grateful to Dr. N. Vijayan Nair, Director of the Institute for the encouragement and providing necessary facilities to carry out the work.
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Parameswari, B., Bagyalakshmi, K., Viswanathan, R. et al. Molecular characterization of Indian sugarcane streak mosaic virus isolate. Virus Genes 46, 186–189 (2013). https://doi.org/10.1007/s11262-012-0827-5
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DOI: https://doi.org/10.1007/s11262-012-0827-5