Journal article
QTL-seq for the identification of candidate genes for days to flowering and leaf shape in pigeonpea
Heredity, Vol.128, pp.411-419
2022
Abstract
To identify genomic segments associated with days to flowering (DF) and leaf shape in pigeonpea, QTL-seq approach has been used in the present study. Genome-wide SNP profiling of extreme phenotypic bulks was conducted for both the traits from the segregating population (F2) derived from the cross combination- ICP 5529 × ICP 11605. A total of 126.63 million paired-end (PE) whole-genome resequencing data were generated for five samples, including one parent ICP 5529 (obcordate leaf and late-flowering plant), early and late flowering pools (EF and LF) and obcordate and lanceolate leaf shape pools (OLF and LLS). The QTL-seq identified two significant genomic regions, one on CcLG03 (1.58 Mb region spanned from 19.22 to 20.80 Mb interval) for days to flowering (LF and EF pools) and another on CcLG08 (2.19 Mb region spanned from 6.69 to 8.88 Mb interval) for OLF and LLF pools, respectively. Analysis of genomic regions associated SNPs with days to flowering and leaf shape revealed 5 genic SNPs present in the unique regions. The identified genomic regions for days to flowering were also validated with the genotyping-by-sequencing based classical QTL mapping method. A comparative analysis of the identified seven genes associated with days to flowering on 12 Fabaceae genomes, showed synteny with 9 genomes. A total of 153 genes were identified through the synteny analysis ranging from 13 to 36. This study demonstrates the usefulness of QTL-seq approach in precise identification of candidate gene(s) for days to flowering and leaf shape which can be deployed for pigeonpea improvement.
Details
- Title
- QTL-seq for the identification of candidate genes for days to flowering and leaf shape in pigeonpea
- Authors/Creators
- V. Singh (Author/Creator) - International Crops Research Institute for the Semi-Arid TropicsP. Sinha (Author/Creator) - International Crops Research Institute for the Semi-Arid TropicsJ. Obala (Author/Creator) - International Crops Research Institute for the Semi-Arid TropicsA.W. Khan (Author/Creator) - International Crops Research Institute for the Semi-Arid TropicsA. Chitikineni (Author/Creator) - International Crops Research Institute for the Semi-Arid TropicsR.K. Saxena (Author/Creator) - International Crops Research Institute for the Semi-Arid TropicsR.K. Varshney (Author/Creator) - International Crops Research Institute for the Semi-Arid Tropics
- Publication Details
- Heredity, Vol.128, pp.411-419
- Publisher
- Springer Nature
- Identifiers
- 991005545520807891
- Copyright
- © 2021 The Authors.
- Murdoch Affiliation
- Food Futures Institute; Centre for Crop and Food Innovation; State Agricultural Biotechnology Centre
- Language
- English
- Resource Type
- Journal article
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- Collaboration types
- Domestic collaboration
- International collaboration
- Citation topics
- 3 Agriculture, Environment & Ecology
- 3.4 Crop Science
- 3.4.96 QTL
- Web Of Science research areas
- Ecology
- Evolutionary Biology
- Genetics & Heredity
- ESI research areas
- Molecular Biology & Genetics