KRISHI
ICAR RESEARCH DATA REPOSITORY FOR KNOWLEDGE MANAGEMENT
(An Institutional Publication and Data Inventory Repository)
"Not Available": Please do not remove the default option "Not Available" for the fields where metadata information is not available
"1001-01-01": Date not available or not applicable for filling metadata infromation
"1001-01-01": Date not available or not applicable for filling metadata infromation
Please use this identifier to cite or link to this item:
http://krishi.icar.gov.in/jspui/handle/123456789/67865
Title: | Molecular characterization and phylogenetic analysis of Sugarcane streak mosaic virus isolates from India |
Other Titles: | Not Available |
Authors: | Bagyalakshmi, K., B. Parameswari, C. Chinnaraja, and R. Viswanathan |
ICAR Data Use Licennce: | http://krishi.icar.gov.in/PDF/ICAR_Data_Use_Licence.pdf |
Author's Affiliated institute: | ICAR::Sugarcane Breeding Institute |
Published/ Complete Date: | 2012-10-15 |
Project Code: | Not Available |
Keywords: | HC-Pro gene, SCSMV, recombinant sequences, |
Publisher: | Society for Sugarcane Research and Development, Coimbatore, India |
Citation: | Not Available |
Series/Report no.: | Not Available; |
Abstract/Description: | The HC-Pro gene which is located upstream of the P1 region is the silencing suppressor protein among the Potyviridae family. It is known to be involved in the RNA silencing mechanism by interacting with host proteins yet to be studied. Twelve HC-Pro (Helper component proteinase) isolates of Indian SCSMV of 1410bp was characterized and compared with the available database isolates like Pakistan, Indonesia and Japan. The overall nucleotide and protein level identity was 75-95% and 88-100% respectively. High level of variation was observed among the isolates. The phylogenetic analysis clustered Indian and Pakistan isolates into one group, whereas Japanese and Indonesian in the other group. Potential recombination event detected in the isolates using non-parametric methods showed parental and the recombinant sequences. However, the isolates lacked the conserved motifs associated with aphid transmission at its N-Terminal region and suppression of RNA silencing at the central region. Also the zinc finger motif responsible for RNA silencing activity was found in the P1 region and not in HC-Pro as like other viruses in the Potyviridae family, when the complete genome sequence of SCSMV was characterized. P1 gene of 10 Indian SCSMV isolates were sequenced and compared with five other isolates reported worldwide for their phylogenetic survey of recombination events revealed a similar pattern like HC-Pro. The sequence lengths of the P1 genes of different SCSMV isolates are similar (1074 nucleotide) and each encoding a protein of 358 amino acids. Comparative sequence analysis of 10 Indian P1 isolates revealed 86-98% nucleotide sequence identity among themselves and 83-91% identity to the other SCSMV isolates like Pakistan, Japan and Indonesia. The ratio of non-synonymous to synonymous polymorphic sites is found to be negative in selection to purge the deleterious mutations in the coding sites. Since P1 is the first protein to be produced upon translation of the viral RNA, its further study will shed new lights to understand the mechanism of host viral interaction. |
Description: | Not Available |
Type(s) of content: | Presentation |
Sponsors: | Not Available |
Language: | English |
Volume No.: | Not Available |
Page Number: | 252-254 |
Name of the Division/Regional Station: | Division of crop protection |
Source, DOI or any other URL: | Not Available |
URI: | http://krishi.icar.gov.in/jspui/handle/123456789/67865 |
Appears in Collections: | CS-SBI-Publication |
Files in This Item:
File | Description | Size | Format | |
---|---|---|---|---|
12. Bagya 2012 ISNPSR.pdf | 108.74 kB | Adobe PDF | View/Open |
Items in KRISHI are protected by copyright, with all rights reserved, unless otherwise indicated.