Studies on genomics and proteomics of a potyvirus infecting summer squash (Cucurbita pepo L.) in H.P
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Date
2009
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UHF,NAUNI,SOLAN
Abstract
Abstract
Summer Squash (Cucurbita pepo L.) is one of the important vegetable crops of family
Cucurbitaceae. Zucchini yellow mosaic virus (ZYMV; Family: Potyviridae, Genus:
Potyvirus) causes great losses to both crop and ornamental cucurbit crop production. In the
present study, after detection using ELISA, molecular characterization of ZYMV (at genomic
and proteomic level) infecting summer squash was carried out. A cDNA of approximately
700bp was amplified from infected tissue with the help of primers specific for potyvirus
group. The PCR amplified product was sequenced and analyzed. The sequence of partial coat
protein of 154 nucleotides of Una (Indian) isolate of zucchini yellow mosaic virus (ZYMV)
was determined and translated to proteins. Later, the sequence was submitted to NCBI and
has got accession no. GU144796 with protein id ACZ36948. In BLASTN analysis,
nucleotide test sequence showed 91% homology with D13914 (sequence from USA),
whereas, protein test sequence was 75.9% homologous in BLASTP analysis with a number of
protein sequences present in the database. The alignment score of test sequence with 67 other
isolates of ZYMV retrieved from NCBI database was highest for USA among varied
countries and lowest for China in case of nucleotides and Korea in case of proteins.
Phylogenetic analysis revealed 91% similarity of the test virus sequence with a USA ZYMV
CP (D13914) and 75.9% similarity of the partial polyprotein sequence with that of Japan
(BAE75935). Conserved domain of the test virus was found to show homology with the
potyvirus coat protein domain alignment collection (pfam00767). Computational restriction
digestion revealed that 22 different restriction enzymes restrict present isolate of ZYMV.
Secondary structures for polyprotein of the test virus was predicted which inferred dominance
of alpha () helix in the protein sequence.
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