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Please use this identifier to cite or link to this item:
http://krishi.icar.gov.in/jspui/handle/123456789/4433
Title: | Novel and Stress Relevant EST Derived SSR Markers Developed and Validated in Peanut |
Other Titles: | Not Available |
Authors: | Bosamia, T.C. Mishra, G.P. Thankappan, R. Dobaria, J.R. |
Published/ Complete Date: | 2015-06-05 |
Project Code: | IXX10033 |
Keywords: | peanut groundnut stress SSR marker assisted selection EST EST-SSR |
Publisher: | PLOS |
Citation: | Not Available |
Series/Report no.: | Not Available; |
Abstract/Description: | With the aim to increase the number of functional markers in resource poor crop like cultivated peanut (Arachis hypogaea), large numbers of available expressed sequence tags (ESTs) in the public databases, were employed for the development of novel EST derived simple sequence repeat (SSR) markers. From 16424 unigenes, 2784 (16.95%) SSRs containing unigenes having 3373 SSR motifs were identified. Of these, 2027 (72.81%) sequences were annotated and 4124 gene ontology terms were assigned. Among different SSR motif-classes, tri-nucleotide repeats (33.86%) were the most abundant followed by di-nucleotide repeats (27.51%) while AG/CT (20.7%) and AAG/CTT (13.25%) were the most abundant repeat-motifs. A total of 2456 EST-SSR novel primer pairs were designed, of which 366 unigenes having relevance to various stresses and other functions, were PCR validated using a set of 11 diverse peanut genotypes. Of these, 340 (92.62%) primer pairs yielded clear and scorable PCR products and 39 (10.66%) primer pairs exhibited polymorphisms. Overall, the number of alleles per marker ranged from 1-12 with an average of 3.77 and the PIC ranged from 0.028 to 0.375 with an average of 0.325. The identified EST-SSRs not only enriched the existing molecular markers kitty, but would also facilitate the targeted research in marker-trait association for various stresses, inter-specific studies and genetic diversity analysis in peanut. |
Description: | Not Available |
ISSN: | 1932-6203 |
Type(s) of content: | Research Paper |
Sponsors: | ICAR |
Language: | English |
Name of Journal: | PLOS One |
NAAS Rating: | 8.74 |
Volume No.: | 10 |
Page Number: | e0129127 |
Name of the Division/Regional Station: | Crop Improvement |
Source, DOI or any other URL: | 10.1371/journal.pone.0133537 |
URI: | http://krishi.icar.gov.in/jspui/handle/123456789/4433 |
Appears in Collections: | CS-DGR-Publication |
Files in This Item:
File | Description | Size | Format | |
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2015_PlosOne Novel and Stress Relevant EST Derived SSR.pdf | 1.23 MB | Adobe PDF | View/Open |
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