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Whole genome re-sequencing of soybean accession ec241780 providing genomic landscape of candidate genes involved in rust resistance

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Title Whole genome re-sequencing of soybean accession ec241780 providing genomic landscape of candidate genes involved in rust resistance
 
Creator Ratnaparkhe, Milind Balkrishna
Marmat, Niharika
Kumawat, Giriraj
Shivakumar, Maranna
Kamble, Viraj Gangadhar
Nataraj, Vennampally
Ramesh, Shunmugiah Veluchamy
Deshmukh, Milind Panjabrao
Singh, Ajay Kumar
Sonah, Humira
Deshmukh, Rupesh Kailasrao
Prasad, Manoj
Chand, Suresh
Gupta, Sanjay
 
Subject Soybean
whole genome re-sequencing
disease resistance
rust
Phakopsora pachyrhizi
single nucleotide polymorphisms (SNPs)
 
Description Accepted date: 25 October 2020
Background: In this study, whole genome re-sequencing of rust resistant soybean genotype EC241780 was performed to understand the genomic landscape involved in the resistance mechanism.

Methods: A total of 374 million raw reads were obtained with paired-end sequencing performed with Illumina HiSeq 2500 instrument, out of which 287.3 million high quality reads were mapped to Williams 82 reference genome. Comparative sequence analysis of EC241780 with rust susceptible cultivars Williams 82 and JS 335 was performed to identify sequence variation and to prioritise the candidate genes.

Results: Comparative analysis indicates that genotype EC241780 has high sequence similarity with rust resistant genotype PI 200492 and the resistance in EC241780 is conferred by the Rpp1 locus. Based on the sequence variations and functional annotations, three genes Glyma18G51715, Glyma18G51741 and Glyma18G51765 encoding for NBS-LRR family protein were identified as the most prominent candidate for Rpp1 locus.

Conclusion: The study provides insights of genome-wide sequence variation more particularly at Rpp1 loci which will help to develop rust resistant soybean cultivars through efficient exploration of the genomic resource.
 
Date 2020-11-03T11:10:26Z
2020-11-03T11:10:26Z
2020
 
Type Article
 
Identifier Current Genomics, 21(7): 504-511
1389-2029
DOI: 10.2174/1389202921999200601142258
https://www.eurekaselect.com/182392/article
http://223.31.159.10:8080/jspui/handle/123456789/1121
 
Language en_US
 
Publisher Bentham Science Publishers