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Development of sequence-based markers for seed protein content in pigeonpea

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Relation http://oar.icrisat.org/11085/
http://dx.doi.org/10.1007/s00438-018-1484-8
10.1007/s00438-018-1484-8
 
Title Development of sequence-based markers for seed protein content in pigeonpea
 
Creator Obala, J
Saxena, R K
Singh, V K
Sameer Kumar, C V
Saxena, K B
Tongoona, P
Sibiya, J
Varshney, R K
 
Subject Crop Improvement
Pigeonpea
Genetics and Genomics
 
Description Pigeonpea is an important source of dietary protein to over a billion people globally, but genetic enhancement of seed protein content (SPC) in the crop has received limited attention for a long time. Use of genomics-assisted breeding would facilitate accelerating genetic gain for SPC. However, neither genetic markers nor genes associated with this important trait have been identified in this crop. Therefore, the present study exploited whole genome re-sequencing (WGRS) data of four pigeonpea genotypes (~ 12X coverage) to identify sequence-based markers and associated candidate genes for SPC. By combining a common variant filtering strategy on available WGRS data with knowledge of gene functions in relation to SPC, 108 sequence variants from 57 genes were identified. These genes were assigned to 19 GO molecular function categories with 56% belonging to only two categories. Furthermore, Sanger sequencing confirmed presence of 75.4% of the variants in 37 genes. Out of 30 sequence variants converted into CAPS/dCAPS markers, 17 showed high level of polymorphism between low and high SPC genotypes. Assay of 16 of the polymorphic CAPS/dCAPS markers on an F2 population of the cross ICP 5529 (high SPC) × ICP 11605 (low SPC), resulted in four of the CAPS/dCAPS markers significantly (P 
 
Publisher Springer
 
Date 2019-02
 
Type Article
PeerReviewed
 
Format application/pdf
 
Language en
 
Rights —
 
Identifier http://oar.icrisat.org/11085/1/Development%20of%20sequence-based%20markers%20for%20seed%20protein%20content%20in%20pigeonpea.pdf
Obala, J and Saxena, R K and Singh, V K and Sameer Kumar, C V and Saxena, K B and Tongoona, P and Sibiya, J and Varshney, R K (2019) Development of sequence-based markers for seed protein content in pigeonpea. Molecular Genetics and Genomics (TSI), 294 (1). pp. 57-68. ISSN 1617-4615