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http://krishi.icar.gov.in/jspui/handle/123456789/67904
Title: | Recombination and negative selection pressure in the P1 gene of Indian Sugarcane streak mosaic virus |
Other Titles: | Not Available |
Authors: | Bagyalakshmi, K., B. Parameswari, C. Chinnaraja, 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: | 2013-11-24 |
Project Code: | Not Available |
Keywords: | Sugarcane streak mosaic virus (SCSMV), Potyviridae, P1 gene, recombination |
Publisher: | Indian Phytopathological Society, (South Zone) |
Citation: | Not Available |
Series/Report no.: | Not Available; |
Abstract/Description: | The Potyviridae family is one of the largest and economically most significant families of plant viruses, owing to their effects on crops globally. Sugarcane streak mosaic virus (SCSMV), a member of the genus Poacevirus, of this family, an important viral pathogen affects the sugarcane production in India. The genome has a single open reading frame that is translated in to a large polypeptide and consequently cleaved into functional proteins. This virus causes mosaic of sugarcane along with the Sugarcane mosaic virus (SCMV) which is a serious disease causing varietal degeneration reported from India in 1999 and later has been reported from geographically different Asian countries. The coding region for P1 peptidase is located at the very beginning of the viral genome of the family Potyviridae. P1 was thought of as serine peptidase with RNA-binding activity and with possible influence in cell-to-cell viral spreading. In order to unveil its mechanism of evolution we initiated the study by characterizing 10 P1 gene of Indian isolates and the sequences were compared with previously reported SCSMV isolates from different countries. Comparison of all of the sequenced virus isolates revealed a high level of diversity in the P1 gene (83–98% nt sequence identity; 87–100% aa sequence identity), and the Indian isolates were found to be the most divergent (up to 9% variation at the amino acid level). Phylogenetic analysis revealed clustering of 17 SCSMV isolates into two groups. Group I included isolates from India (except SCSMV-TPT) and Pakistan, and group II consisted of isolates from Japan, Indonesia, Thailand and SCSMV-TPT. The results obtained from phylogenetic study were further supported with the SNPs (single nucleotide polymorphism), INDELs (insertion and deletion) and evolutionary distance analysis. A significant proportion of recombination sites were found at the N terminal region of P1 gene of Indian isolates. Analysis of selection pressure indicated that the P1 gene of Indian SCSMV isolates is under strong negative selection. It is likely that recombination, along with strong negative selection, enhances the speed of elimination of lethal mutations in the P1 gene of Indian SCSMV isolates. |
Description: | Not Available |
ISBN: | Not Available |
Type(s) of content: | Presentation |
Sponsors: | Not Available |
Language: | English |
Name of Journal: | Not Available |
Volume No.: | Not Available |
Page Number: | 25-26 |
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/123456789/67904 |
Appears in Collections: | CS-SBI-Publication |
Files in This Item:
File | Description | Size | Format | |
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CTCRI BAGYA 2013.pdf | 9.82 MB | Adobe PDF | View/Open |
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