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- Title
Molecular characterization and recombination analysis of an Indian isolate of Onion yellow dwarf virus.
- Authors
Verma, Rakesh; Mishra, Ritesh; Petrov, Nikolay; Stoyanova, Mariya; Stoev, Antoniy; Bakardjieva, NonkaValentinova; Gaur, R.
- Abstract
This study presents the first whole genome sequence of O nion yellow dwarf virus (OYDV isolate RR1) from onion ( Allium cepa) in India along with phylogenetic and recombination studies. We examined the sequence variability, distribution of simple sequence repeats (SSRs), and recombination breakpoints of different OYDV geographical isolates. The P1 and P3 regions of OYDV show a higher rate of sequence variability in amino acid and nucleotide sequences than other genomic regions. Entropy peaks of deduced amino acid sequences were higher in both regions (P1 and P3) of different OYDVs. The observed frequency of microsatellites was also higher in the P3 region of all OYDV genomes. The Indian isolate RR1 showed 75-98 % similarity with the other OYDV isolates in nucleotide and amino acid sequences and has 43 microsatellites and two compound microsatellites. It was most closely related to garlic isolate MS/SW1 from Australia. Isolate RR1 contained six recombination breakpoints in different genomic regions with the major parent related to the MS/SW1 (Australian) and SG1 (Spanish) OYDV isolates. The phylogenetic and recombination study demonstrated the divergence of Indian isolate RR1 from OYDV isolate from Australia.
- Subjects
ONION diseases &; pests; PHYLOGENY; GENETIC recombination; MICROSATELLITE repeats; PLANT viruses; AMINO acids
- Publication
European Journal of Plant Pathology, 2015, Vol 143, Issue 3, p437
- ISSN
0929-1873
- Publication type
Article
- DOI
10.1007/s10658-015-0695-7