Comparative Genomic and Proteomic Phylogenetic Analysis of Indian Isolate of Partial Coat Protein Gene Sequence of Zucchini Yellow Mosaic Virus (ZYMV) Using Data Mining
Neha Sharma*, Satya Vrat Bhardwaj, Anju Sharma, Manica Tomar, Rajinder Kaur, Pritam Dass Thakur and Anil Handa
Dr Y S Parmar University of Horticulture and Forestry, Nauni, Solan, Himachal Pradesh, India
- *Corresponding Author:
- Neha Sharma
Dr Y S Parmar University of Horticulture and Forestry
Nauni, Solan, Himachal Pradesh, India
Received Date: July 08, 2012; Accepted Date: August 20, 2012; Published Date: August 22, 2012
Citation: Sharma N, Bhardwaj SV, Sharma A, Tomar M, Kaur R, et al. (2012) Comparative Genomic and Proteomic Phylogenetic Analysis of Indian Isolate of Partial Coat Protein Gene Sequence of Zucchini Yellow Mosaic Virus (ZYMV) Using Data Mining. J Proteomics Bioinform 5: 196-203. doi: 10.4172/jpb.1000235
Copyright: © 2012 Sharma N, et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
A viral disease was identified on summer squash (Cucurbita pepo L.) plants in the hill state of Himachal Pradesh located in the North Western Himalayan regions, showing symptoms like mosaic, yellowing, shoe stringing of leaves and stunting of plants and infection at early stage of crop could cause as much as 94 per cent reduction of marketable fruits of summer squash. In the present study the causal virus was identified and characterized on the basis of ELISA, RT-PCR and Phylogeny. Partial CP gene was amplified and sequenced. For phylogenetic studies 67 nucleotide and 67 polyprotein sequences of ZYMV belonging to different countries were retrieved from NCBI. Phylogenetic analysis based on nucleotide and protein sequences of each country using Maximum Likelihood (ML), Neighbor Joining (NJ), Maximum Parsimony (MP) and Unweighted Pair Group Method of Arithmetic Averages (UPGMA) methods were achieved via phylip 3.68 and EXOMETM HORIZON, which revealed 91% similarity of the test virus nucleotide sequence with USA ZYMV CP sequence (D13914) and 75.9% similarity with partial polyprotein sequence of Japan (BAE75935).