title: Association mapping for important agronomic traits in core collection of rice (Oryza sativa L.) with SSR markers.
abstract: Mining elite genes within rice landraces is of importance for the improvement of cultivated rice. An association mapping for 12 agronomic traits was carried out using a core collection of rice consisting of 150 landraces (Panel 1) with 274 simple sequence repeat (SSR) markers, and the mapping results were further verified using a Chinese national rice micro-core collection (Panel 2) and a collection from a global molecular breeding program (Panel 3). Our results showed that (1) 76 significant (P<0.05) trait-marker associations were detected using mixed linear model (MLM) within Panel 1 in two years, among which 32% were identical with previously mapped QTLs, and 11 significant associations had >10% explained ratio of genetic variation; (2) A total of seven aforementioned trait-marker associations were verified within Panel 2 and 3 when using a general linear model (GLM) and 55 SSR markers of the 76 significant trait-marker associations. However, no significant trait-marker association was found to be identical within three panels when using the MLM model; (3) several desirable alleles of the loci which showed significant trait-marker associations were identified. The research provided important information for further mining these elite genes within rice landraces and using them for rice breeding.
authors.affiliation: State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou, China; State Key Laboratory of Rice Biology, China National Rice Research Institute, Hangzhou, China.
authors.forename: Peng
authors.initials: P
authors.lastname: Zhang
authors.affiliation: State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou, China.
authors.forename: Xiangdong
authors.initials: X
authors.lastname: Liu
authors.affiliation: State Key Laboratory of Rice Biology, China National Rice Research Institute, Hangzhou, China.
authors.forename: Hanhua
authors.initials: H
authors.lastname: Tong
authors.affiliation: State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou, China.
authors.forename: Yonggen
authors.initials: Y
authors.lastname: Lu
authors.affiliation: State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou, China; Department of Plant Breeding and Genetics, Max Planck Institute for Plant Breeding Research, Cologne, Germany.
authors.forename: Jinquan
authors.initials: J
authors.lastname: Li
mesh_terms: D000383:Agriculture; D000483:Alleles; D002874:Chromosome Mapping; D005787:Gene Frequency / Q000235:genetics; D005819:Genetic Markers; D040582:Inheritance Patterns / Q000235:genetics; D016014:Linear Models; D018895:Microsatellite Repeats / Q000235:genetics*; D008957:Models, Genetic; D012275:Oryza / Q000235:genetics*; D010641:Phenotype; D040641:Quantitative Trait Loci / Q000235:genetics; D019655:Quantitative Trait, Heritable; D015203:Reproducibility of Results
chemical_list: D005819:Genetic Markers