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

• Published in: Interdisciplinary sciences : computational life sciences 2015-06, Vol.7 (2), p.168-176
• Main Authors: Morya, V. K., Singh, Yachna, Singh, Birendra K., Thomas, G.
• Format: Article
• Language: English
• Subjects: Architecture; Begomovirus - genetics; Begomovirus - pathogenicity; Biomedical and Life Sciences; Computational Biology/Bioinformatics; Computational Science and Engineering; Computer Appl. in Life Sciences; Computer Simulation; Disease control; DNA, Viral - genetics; Evolution, Molecular; Evolutionary; Geminiviridae - classification; Geminiviridae - genetics; Geminiviridae - pathogenicity; Geminivirus; Health Sciences; India; Life Sciences; Lycopersicon esculentum; Management; Mathematical and Computational Physics; Medicine; Models, Genetic; Original Research Article; Phylogeny; Plant diseases; Plant Diseases - virology; Recombinant; Recombination, Genetic; Statistics for Life Sciences; Strain; Theoretical; Theoretical and Computational Chemistry; Tomatoes; Viral diseases; Viruses
• ISSN: 1913-2751; 1867-1462
• DOI: 10.1007/s12539-015-0020-3

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 gi | 29825986 | ; gi | 283468151 | ; gi | 190559151 | and gi | 61652782 | were identified with the highest number of recombination event (1273). However, the Mung bean yellow mosaic India virus ( gi | 66351988 | ) 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.