优异高产基因资源的发掘和分子利用是实现产量突破的基础。本研究利用我们已构建的超级稻两优培九RIL群体和重测序信息，进一步剖析水稻产量基因（qYP6, qYP3和qYP9）和杂种优势分子遗传机理；结合中国-IRRI籼稻资源和GWAS关联分析技术，挖掘IPA1,qyp9和Gn1等基因的等位基因；分子比较不同群体的优势性状之间的遗传异同；在已构建9311-DEP1,Gn1近等基因系的基础上，中方进一步构建IPA1, GW8等新克隆基因的导人系。IRRI方构建IR64背景的导入系，构建2-4个基因聚合系的基因型-表型值（G-P）数据库，利用合作方的QuLine和CrossPredictor预测程序，预测多基因多世代的基因型效应值和目标基因型概论，探讨分子设计育种理论；通过合作双方的“基因资源—设计育种软件和技术”优势联合，探索产量基因最佳聚合途径，选择最强优势的基因聚合系/品系，分子设计培育超级稻

Identification and molecular breeding of elite high-yield gene resources are the basis of production breakthroughs in rice. In this study, based on the constructed RILs of a pioneer super rice Liang-You-Pei-Jiu (LYP9, Peiai64×9311) and its resequencing information, map-based cloning strategy would be further used to isolate 2-3 high yield genes qYP6, qYP3 and qYP9, and to dissect the molecular mechanism of these genes. Using China-IRRI rice germplasm resources and GWAS (genome wide association study) mapping method, to identify allele genes of the key cloned high-yield genes such as IPA1, DEP1, Gn1, and GW8 etc, to compare the genetic differences between the weight/plant and other related heterosis traits in different populations in both China and IRRI. Two collaborative sides will further introgress these yield genes into the cultivars 9311 and IR64, respectively. To pyramid the functional genes controlling yield and grain quality in rice, to analyze the relationship between genotype and phenotype (G-P) effect from pyramiding lines with 2-4 genes, and to establish a G-P database for yield-related genes. Using IRRI simulating software of QuLine and CrossPredictor, we can predict effects and probability of target genotypes in different multi-gene generations for investigating of the breeding theory of gene design to select an optimal approach of multi-genes pyramiding. To the end, the increased-yield genes will be integrated into our super-rice creation program via the cooperation of “Gene resources --- Software and techniques of breeding by design” between the two sides. It is beneficial to molecular breeding by design for super rice.