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ARS Home » Pacific West Area » Davis, California » Crops Pathology and Genetics Research » Research » Research Project #426483

Research Project: Application of Molecular Marker-Assisted Selection to Rice Improvement (continuing project)

Location: Crops Pathology and Genetics Research

Project Number: 2032-21000-021-05-T
Project Type: Trust Fund Cooperative Agreement

Start Date: Jan 1, 2014
End Date: Jun 30, 2015

Research will be conducted on the development and application of methods and protocols for genotyping of rice using next-generation DNA sequencing and on the development and characterization of genetic mapping and mutant populations of rice. Specific objectives include: 1) next-generation genotyping of rice germplasm; 2) exome sequence analysis of California varieties and breeding germplasm; 3) development and evaluation of rice populations for genetic analysis of agriculturally important traits.

Single nucleotide polymorphisms (SNPs) will be identified by sequencing reduced representation genomic DBA libraries of mapping population lines and selected rice germplasm in conjunction with computational genomics. SNP markers identified in this manner will be used in conjunction with phenotypic data on traits of interest to identify genetic loci contributing to the expression of those traits. Exome sequencing will be employed to sequence protein-coding regions of the genomes of selected rice germplasm with emphasis on proteins implicated in yield and tolerance to abiotic stress. Development of genetic mapping and mutant populations will consist of generation advance through single-seed descent and chemical mutagenesis. Evaluation of populations for agronomic traits of interest will be performed in consultation and conjunction with Rice Experiment Station breeders.