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/123456789/42871
Title: | Development of model web-server for crop variety identification using throughput SNP genotyping data |
Other Titles: | Not Available |
Authors: | Rajender Singh M. A. Iquebal C. N. Mishra Sarika Jaiswal Deepender Kumar Nishu Raghav Surinder Paul Sonia Sheoran Pradeep Sharma Arun Gupta Vinod Tiwari U. B.Angadi Neeraj Kumar Anil Rai G. P. Singh Dinesh Kumar Ratan Tiwari |
ICAR Data Use Licennce: | http://krishi.icar.gov.in/PDF/ICAR_Data_Use_Licence.pdf |
Author's Affiliated institute: | ICAR::Indian Institute of Wheat and Barley Research ICAR::Indian Agricultural Statistics Research Institute |
Published/ Complete Date: | 2019-03-26 |
Project Code: | Not Available |
Keywords: | SNP DUS ABS Variety Identification System |
Publisher: | Not Available |
Citation: | Not Available |
Series/Report no.: | Not Available; |
Abstract/Description: | Crop varieties or genotypes of a given species are pivotal for agricultural production and ownership, management and improvement of their germplasm is a great challenge. Its morphological identifcation requires time, cost and descriptors are often compromised statistically due to phenotypic plasticity. Development of DNA based signature of varieties can overcome these limitations. There is a global need to implement world trade organization (WTO) and intellectual property rights (IPR) guidelines of Plant Breeders Rights (PBR) where DUS (distinctness, uniformity and stability) testing can be supplemented by DNA profle. Universalization and minimization of SNP number without compromising identifcation accuracy is the major challenge in development of varietal profle by rapid genotype assay. Besides this, there is no server-based approach reducing computational skill with global accessibility of referral phenotypic and genotypic data. We report world’s frst model web server for crop variety identifcation using >350 Indian wheat varieties and Axiom 35K SNP chip data. Standard fltering and linkage disequilibrium approach were used to develop varietal signature in Linux using HTML, Java, PHP and MySQL with provision of QR code generator to facilitate bar-coding. Phylogenetic tree constructed by selected SNPs confrms six major trait based clusters of varieties and their pedigree. Our user friendly server based tool, VISTa (Variety Identifcation System of Triticum aestivum) (http://webtom.cabgrid. res.in/vista) can be used in DUS testing having dispute resolution of sovereignty and access beneft sharing (ABS) issues. This model approach can be used in other crops with pan-global level management of crop germplasm in endeavour of crop productivity. |
Description: | Not Available |
ISSN: | Not Available |
Type(s) of content: | Article |
Sponsors: | Not Available |
Language: | English |
Name of Journal: | Scientific Reports |
NAAS Rating: | 10 |
Volume No.: | 9 |
Page Number: | 5122 |
Name of the Division/Regional Station: | Not Available |
Source, DOI or any other URL: | https://doi.org/10.1038/s41598-019-41204-2 |
URI: | http://krishi.icar.gov.in/jspui/handle/123456789/42871 |
Appears in Collections: | AEdu-IASRI-Publication |
Files in This Item:
File | Description | Size | Format | |
---|---|---|---|---|
Development of model web-server for crop variety identification using throughput SNP genotyping data.pdf | 1.82 MB | Adobe PDF | View/Open |
Items in KRISHI are protected by copyright, with all rights reserved, unless otherwise indicated.