title: Identification and validation of functional markers in a global rice collection by association mapping.
abstract: Recent results indicate that marker-assisted selection is an effective approach to reduce the cost and to improve the efficacy and accuracy of selection in plant breeding. This study was conducted to identify and validate molecular markers linked to important breeding traits by association mapping. The association was evaluated between 81 molecular markers (STS, SSR, Indel, CAPS, and PCR-based SNP) and 15 morphological traits in a global panel of 100 rice (Oryza sativa) accessions. The population structure analysis identified three main subpopulations. Obvious kinship relationships were also detected between the rice accessions. Association analysis was performed based on the mixed linear model by considering population structure and family relatedness. In addition, the false discovery rate method was used to correct the multiple testing. A total of 47 marker-trait associations were identified, including 22 markers for 14 traits. Among all, the polymorphism at the loci DDR-GL was highly associated with grain characters (grain length, grain width, and length/width ratio). In addition, marker RM3148 was responsible for five important traits simultaneously. Results demonstrated that such informative markers can be very useful for rice breeding programs using marker-assisted selection. Moreover, the diverse populations of rice accessions are a valuable resource for association mapping of morphological traits.
authors.affiliation: a Department of Agronomy and Plant Breeding, Faculty of Agriculture, Shahid Bahonar University of Kerman, P.O. Box 76169-133, Kerman, Iran.
authors.forename: Mojtaba
authors.initials: M
authors.lastname: Jahani
authors.forename: Ghorbanali
authors.initials: G
authors.lastname: Nematzadeh
authors.forename: Behnaz
authors.initials: B
authors.lastname: Dolatabadi
authors.forename: Sayyed Hamidreza
authors.initials: SH
authors.lastname: Hashemi
authors.forename: Ghasem
authors.initials: G
authors.lastname: Mohammadi-Nejad
mesh_terms: D000704:Analysis of Variance; D002874:Chromosome Mapping; D005819:Genetic Markers; D005828:Genetics, Population; D005838:Genotype; D012275:Oryza / Q000235:genetics*; D040641:Quantitative Trait Loci; D015203:Reproducibility of Results
chemical_list: D005819:Genetic Markers
keywords: analyses d’association génétique; association mapping; cartographie des associations; functional marker; genetic association studies; locus de caractère quantitatif; marqueur fonctionnel; quantitative trait loci; rice; riz