International Journal of Current Microbiology and Applied Sciences (IJCMAS)
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Original Research Articles                      Volume : 10, Issue:1, January, 2021

PRINT ISSN : 2319-7692
Online ISSN : 2319-7706
Issues : 12 per year
Publisher : Excellent Publishers
Email : /
Editor-in-chief: Dr.M.Prakash
Index Copernicus ICV 2018: 95.39
NAAS RATING 2020: 5.38

Int.J.Curr.Microbiol.App.Sci.2021.10(1): 1923-1936

Phylogeographic Analysis and Codon Usage Bias of Coat Protein Gene of Banana Bunchy Top Virus Isolates in Kerala
Darsana Dilip1*, Vimi Louis2, P.M. Namitha2
1 Department of Plant Pathology, College of Horticulture, Kerala Agricultural University, Thrissur, Kerala, 680656, India
2Division of Plant Pathology, Banana Research Station, Kannara, Kerala Agricultural University, Thrissur, Kerala, 680652, India, India
*Corresponding author

Banana bunchy top disease (BBTD) caused by Banana bunchy top virus (BBTV) is one of the most devastating diseases in banana. The virus is reported to be evolving and causing serious economic loss in various banana growing parts of the world. The complete coding region and partial untranslated region (UTR) of coat protein (CP) gene was amplified from total DNA isolated from infected samples. The partial sequence of DNA-S of seventeen Kerala isolates were analysed for molecular diversity, codon usage bias and phylogeny were deduced. A large negative value of Fu and Li’ D and F tests indicated a demographic expansion of the population. Being a DNA virus, BBTV showed very less diversity among the isolates in the coding and non-coding regions. Although, nucleotide diversity and mutation rate in the non-coding region was surprisingly higher than the coding region. In the non-coding region, the stem loop region was highly conserved responsible for binding to the master rep protein and facilitating rolling circle replication of the genome. Nevertheless, the phylogeographic analysis confirmed an association with the geography as the northern, southern and clusters were grouped separately with high bootstrap support. There was a very conspicuous codon usage bias (CUB) in the CP gene and evidently nineteen synonymous codons were favoured over the others. The role of mutation and selection pressure on CUB of the gene was established using neutrality plot and Nc plot.

Keywords: Banana bunchy top virus, Genetic diversity, Phylogeny, Codon usage bias

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Darsana Dilip, Vimi Louis, Namitha, P.M. 2021. Phylogeographic Analysis and Codon Usage Bias of Coat Protein Gene of Banana Bunchy Top Virus Isolates in KeralaInt.J.Curr.Microbiol.App.Sci. 10(1): 1923-1936. doi:
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