HYDROPATHICITY, PHYLOGENETICS AND POSSIBLE CODONS ANALYSIS FOR ASPARAGINE, GLUTAMINE, ARGININE, AND PROLINE PROTEINS IN VICILIN GENES OF ABROMA ANGUSTA, SOLANUM LYCOPERSICUM, THEOBROMA CACAO. HERRANIA NYCTERODENDRON, Z. FURFURACEA, PISUM SATIVUM, VICIA FABA, THEOBROMA CACAO

LEPCHA LAYDONG¹*, B.C. BASISTHA², K.B. SUBBA^3
1Bioinformatics Centre (Sub-DISC), Sikkim State Council of Science & Technology, Department of Science & Technology and Climate Change, Vigyan Bhawan, Deorali- 737 102, Gangtok, Sikkim, India
²Bioinformatics Centre (Sub-DISC), Sikkim State Council of Science & Technology, Department of Science & Technology and Climate Change, Vigyan Bhawan, Deorali- 737 102, Gangtok, Sikkim, India
³Bioinformatics Centre (Sub-DISC), Sikkim State Council of Science & Technology, Department of Science & Technology and Climate Change, Vigyan Bhawan, Deorali- 737 102, Gangtok, Sikkim, India
* Corresponding Author : laydsimick@gmail.com

Received : 03-03-2016     Accepted : 12-04-2016     Published : 28-04-2016
Volume : 7     Issue : 1       Pages : 329 - 345
Int J Bioinformatics Res 7.1 (2016):329-345

Keywords : Codons, Proteins, Bioinformatics, Genomic, Phylogenetic, Hydropathicity, Amino acids
Academic Editor : Zhijun Duan
Conflict of Interest : None declared
Acknowledgements/Funding : The study acknowledges the web lab of Bioinformatics Sub-Distributed Information Centre (DISC), Sikkim State Council of Science & Technology and also Department of Biotechnology, Government of India, for providing all the necessary facilities to complete this research
Author Contribution : None declared

The study was conducted by analyzing and retrieving DNA Vicilin genes of various plant species whose partial genomic information or database are so far been experimented and submitted in gene bank. The DNA sequences of Vicilin genes were retrieved from plant species such as Abroma angusta, Solanum lycopersicum, Theobroma cacao. Herrania nycterodendron, Z. furfuracea, Pisum sativum, Vicia faba, Theobroma cacao. Specific Bioinformatics software tools were applied to analyzed the necessary genomic information from studied Vicilin genes. The codons ratio of proteins amino acids such as Asparagine (AAC,AAT,GAC,GAT), Glutamine (CAA,CAG), Arginine (AGA,AGG,CGA,CGC,CGG,CGT), and Proline (CCA,CCC,CCG,CCT), were analyzed from within the retrieved DNA Vicilin genes. The study found that the major storage protein amino acids Asparagine (Asn), Arginine (Arg) and Proline (Pro) is ingredient more in Vicilin genes of Abroma angusta. It also studied the hydropathicity nature of specific amino acids from various vicilin genes of studied plant species. It helps to understand the protein amino acids interaction behaviour with the hydrogen bond of H2O. According to the Phylogenetic study, two of the Vicilin genes possessing plant species; Pisum sativum and Vicia faba are close relatives, belonging to family Fabaceae. This signifies that family Fabaceae is possibly being a dominant plant family in exhibiting secretion of Vicilin genes, an anti-decay gene. The main objective of the study was to analyze and understand the efficient Vicilin gene from various studied Vicilin genes of species respectively regarding their constituents of major proteins amino acids such as Asparagine, Glutamine, Arginine, and Proline. And also to find out the plant family that exhibits the most dominant status for the ingredients of Vicilin genes.