1. QTL-Seq-based genetic analysis identifies a major genomic region governing dwarfness in rice (Oryza sativa L.)
- Author
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Gopalakrishnamurty Kadambari, Siddhartha Swarup Jena, Lakshminarayana R. Vemireddy, Ranjithkumar Nagireddy, Akkareddy Srividhya, Roja Veeraghattapu, Ch V Durgarani, Mahendranath Gandikota, Maliha Shake, G Eswar Reddy, P. V. Ramanarao, Aleena Dasari, C. N. Neeraja, Santosh Patil, Dondapati Annekitty Deborah, E. A. Siddiq, and Maganti Sheshumadhav
- Subjects
musculoskeletal diseases ,0301 basic medicine ,Quantitative Trait Loci ,Population ,Introgression ,Plant Science ,Quantitative trait locus ,Biology ,Genes, Plant ,Oryza ,Genetic analysis ,Chromosomes, Plant ,03 medical and health sciences ,Amino Acid Sequence ,Indel ,education ,Genetics ,education.field_of_study ,Oryza sativa ,Sequence Homology, Amino Acid ,Chromosome Mapping ,High-Throughput Nucleotide Sequencing ,food and beverages ,General Medicine ,biology.organism_classification ,Dwarfing ,Plant Breeding ,Phenotype ,030104 developmental biology ,Mutation ,Agronomy and Crop Science ,Genome, Plant - Abstract
A major dwarfing region for plant height, asd1, was identified employing the next-generation sequencing-based QTL-Seq approach from a dwarf mutant and is demonstrated to be responsible for the dwarf nature with least penalty on yield in rice. The yield plateauing of modern rice is witnessed since many decades due to the narrow genetic base owing to the usage of a single recessive gene, i.e., semi-dwarf-1 (sd-1) for development of short-statured varieties throughout the world. This calls for the searching of alternate sources for short stature in rice. To this end, we made an attempt to uncover yet another, but valuable dwarfing gene employing next-generation sequencing (NGS)-based QTL-Seq approach. Here, we have identified a major QTL governing plant height on chromosome 1, i.e., alternate semi-dwarf 1 (asd1) from an F2 mapping population derived from a cross between a dwarf mutant, LND384, and a tall landrace, INRC10192. Fine mapping of asd1 region employing sequence-based indel markers delimited the QTL region to 67.51 Kb. The sequencing of the QTL region and gene expression analysis predicted a gene that codes for IWS1 (C-terminus family protein). Furthermore, marker-assisted introgression of the asd1 into tall landrace, INRC10192, reduced its plant height substantially while least affecting the yield and its component traits. Hence, this novel dwarfing gene, asd1, has profound implications in rice breeding.
- Published
- 2018