Whole Genome Re-sequencing of Soybean Accession EC241780 Providing Genomic Landscape of Candidate Genes Involved in Rust Resistance
| Autor: | Giriraj Kumawat, Shunmugiah V. Ramesh, M. P. Deshmukh, Sanjay Gupta, Rupesh Deshmukh, Suresh Chand, Manoj Prasad, Vennampally Nataraj, Niharika Marmat, Humira Sonah, Viraj Gangadhar Kamble, M. Shivakumar, Milind B. Ratnaparkhe, Ajay Kumar Singh |
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| Rok vydání: | 2020 |
| Předmět: |
0106 biological sciences
Candidate gene disease resistance Sequence analysis whole genome re-sequencing Locus (genetics) Plant disease resistance 01 natural sciences Genome Article 03 medical and health sciences Genetics Gene Genetics (clinical) 030304 developmental biology 0303 health sciences Phakopsora pachyrhizi biology food and beverages rust single nucleotide polymorphisms (SNPs) biology.organism_classification Soybean 010606 plant biology & botany Reference genome |
| Zdroj: | Current Genomics |
| ISSN: | 1389-2029 |
| Popis: | 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. |
| Databáze: | OpenAIRE |
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