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Ecogenomics of Geminivirus from India and Neighbor Countries: An In Silico Analysis of Recombination Phenomenon

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Abstract

Recombination is one of the keys factor in evolutionary processes, involved in shaping the architecture of genomes and consequent phenotype. Understanding the recombination phenomenon especially among viruses will help in disease management. The present study aimed for in-silico analysis of recombination phenomenon among Begomoviruses, particularly emphasizing on viruses strains reported from India and neighboring countries. A total of 956 virus sequences have been used in this study. The Tomato yellow leaf curl China viruses, namely \(\hbox {gi}\vert 29825986\vert ;\hbox { gi}\vert 283468151\vert ; \hbox { gi}\vert 190559151\vert\) and \(\hbox {gi}\vert 61652782\vert\) were identified with the highest number of recombination event (1273). However, the Mung bean yellow mosaic India virus \((\hbox {gi}\vert 66351988\vert )\) was found to have 1170 recombination event. The phylogenic analysis among the highly recombinant sequences was carried to get an insight of the evolution among viral sequences in this class of plant viruses. The phylogenetic analysis revealed a pattern in diversity among these virus strains and a split tree analysis showed diversity in the range of 0.049128335–10.269852. This in silico analysis may pave way for a greater understanding of recombination phenomenon in geminiviruses and it might be helpful for strategic plant viral disease management.

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Acknowledgments

Authors V. K. Morya and Birendra K. Singh are thankful to Inha University, Incheon, South Korea; however, Yachna Singh and G. Thomas are thankful to Sam Higginbottom Institute of Agriculture, Technology and Sciences, Allahabad, India, for providing necessary environment.

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Authors and Affiliations

  1. Department of Biological Engineering, Inha University, Nam-gu, Yong-Hyun Incheon, 402-751, Korea

    V. K. Morya & Birendra K. Singh

  2. Department of Molecular Biology and Cellular Engineering, Sam Higginbotom Institute of Agriculture, Technology and Sciences, Allahabad, Uttar Pradesh, 211007, India

    Yachna Singh & G. Thomas

Authors
  1. V. K. Morya
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  2. Yachna Singh
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  3. Birendra K. Singh
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  4. G. Thomas
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Correspondence to V. K. Morya.

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Morya, V.K., Singh, Y., Singh, B.K. et al. Ecogenomics of Geminivirus from India and Neighbor Countries: An In Silico Analysis of Recombination Phenomenon. Interdiscip Sci Comput Life Sci 7, 168–176 (2015). https://doi.org/10.1007/s12539-015-0020-3

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  • DOI: https://doi.org/10.1007/s12539-015-0020-3

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