Mapping QTLs for improving grain yield using the USDA rice mini-core collection |
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Authors: | Xiaobai Li Wengui Yan Hesham Agrama Limeng Jia Xihong Shen Aaron Jackson Karen Moldenhauer Kathleen Yeater Anna McClung Dianxing Wu |
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Institution: | (1) State Key Lab of Rice Biology, IAEA Collaborating Center, Zhejiang University, Hangzhou, China;(2) Rice Research and Extension Center, University of Arkansas, Stuttgart, AR, USA;(3) Dale Bumpers National Rice Research Center, USDA-ARS, Stuttgart, AR, USA;(4) China National Rice Research Institute, Hangzhou, China;(5) Southern Plains Area, USDA-ARS, College Station, TX, USA |
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Abstract: | Yield is the most important and complex trait for genetic improvement in crops, and marker-assisted selection enhances the
improvement efficiency. The USDA rice mini-core collection derived from over 18,000 accessions of global origins is an ideal
panel for association mapping. We phenotyped 203 O. sativa accessions for 14 agronomic traits and identified 5 that were highly and significantly correlated with grain yield per plant:
plant height, plant weight, tillers, panicle length, and kernels/branch. Genotyping with 155 genome-wide molecular markers
demonstrated 5 main cluster groups. Linkage disequilibrium (LD) decayed at least 20 cM and marker pairs with significant LD
ranged from 4.64 to 6.06% in four main groups. Model comparisons revealed that different dimensions of principal component
analysis affected yield and its correlated traits for mapping accuracy, and kinship did not improve the mapping in this collection.
Thirty marker–trait associations were highly significant, 4 for yield, 3 for plant height, 6 for plant weight, 9 for tillers,
5 for panicle length and 3 for kernels/branch. Twenty-one markers contributed to the 30 associations, because 8 markers were
co-associated with 2 or more traits. Allelic analysis of OSR13, RM471 and RM7003 for their co-associations with yield traits
demonstrated that allele 126 bp of RM471 and 108 bp of RM7003 should receive greater attention, because they had the greatest
positive effect on yield traits. Tagging the QTLs responsible for multiple yield traits may simultaneously help dissect the
complex yield traits and elevate the efficiency to improve grain yield using marker-assisted selection in rice. |
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