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Genome-Wide Association Study for Squalene Contents and Functional Haplotype Analysis in Rice.


ABSTRACT: Squalene is an isoprenoid compound that acts as the intermediate metabolite in cholesterol synthesis. Squalene is not very susceptible to peroxidation, and it quenches singlet oxygen in the skin, which is caused by UV exposure and other ionizing radiation sources. Squalene is a precursor to phytosterol synthesis, and it has been widely studied for its ability to reduce oxidation, cancer activity, and cholesterol levels. We performed a genome-wide association study for squalene in rice using 1.6 million high-quality SNPs extracted from 295 accessions' resequencing data. The candidate gene locus Os09g0319800-an orthologue of terpene synthase in Arabidopsis-showed up as the most likely candidate gene amongst the identified loci. Nucleotide variations in the promoter were associated with squalene content variations within the japonica group. The results of this study can provide clues for understanding the mechanisms of squalene biosynthesis in rice.

SUBMITTER: Wang XQ 

PROVIDER: S-EPMC6868895 | biostudies-literature | 2019 Nov

REPOSITORIES: biostudies-literature

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Genome-Wide Association Study for Squalene Contents and Functional Haplotype Analysis in Rice.

Wang Xiao-Qiang XQ   Kim Kyu-Won KW   Chu Sang-Ho SH   Phitaktansakul Rungnapa R   Park Sang-Won SW   Chung Ill-Min IM   Lee Young-Sang YS   Park Yong-Jin YJ  

ACS omega 20191107 21


Squalene is an isoprenoid compound that acts as the intermediate metabolite in cholesterol synthesis. Squalene is not very susceptible to peroxidation, and it quenches singlet oxygen in the skin, which is caused by UV exposure and other ionizing radiation sources. Squalene is a precursor to phytosterol synthesis, and it has been widely studied for its ability to reduce oxidation, cancer activity, and cholesterol levels. We performed a genome-wide association study for squalene in rice using 1.6  ...[more]

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