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Genome wide association study on development and evolution of glutinous rice

文献类型： 外文期刊

作者： Jiang, Conghui 3 ; Rashid, Muhammad Abdul Rehman 4 ; Zhang, Yanhong 6 ; Zhao, Yan 2 ; Pan, Yinghua 1 ;

作者机构： 1.Guangxi Acad Agr Sci, Rice Res Inst, Guangxi Key Lab Rice Genet & Breeding, Nanning 530007, Peoples R China

2.Shandong Agr Univ, Coll Agron, State Key Lab Crop Biol, Shandong Key Lab Crop Biol, Tai An 271018, Shandong, Peoples R China

3.Shandong Acad Agr Sci, Shandong Rice Engn Technol Res Ctr, Shandong Rice Res Inst, Jinan 250100, Peoples R China

4.Govt Coll Univ, Dept Bioinformat & Biotechnol, Faisalabad 38000, Pakistan

5.Yunnan Univ, Res Ctr Perennial Rice Engn & Technol Yunnan, Sch Agr, State Key Lab Conservat & Utilizat Bioresources Y, Kunming 650500, Yunnan, Peoples R China

6.Xinjiang Acad Agr Sci, Inst Nucl & Biol Technol, Urumqi 830091, Peoples R China

关键词： Glutinous rice; Genome-wide association study; Oryza Sativa L; Haplotype analysis; Evolution

期刊名称：BMC GENOMIC DATA

ISSN：

年卷期： 2022 年 23 卷 1 期

页码：

收录情况： SCI

摘要： Background Glutinous rice as a special endosperm type is consumed as a staple food in East Asian countries by consumers' preference. Genetic studies on glutinous rice could be conducive to improve rice quality and understand its development and evolution. Therefor, we sought to explore more genes related to glutinous by genome wide association study and research the formation history for glutinous. Results Here, genome-wide association study was performed to explore the associated loci/genes underlying glutinous rice by using 2108 rice accessions. Combining the expression patterns analysis, 127, 81, and 48 candidate genes were identified to be associated with endosperm type in whole rice panel, indica, and japonica sub-populations. There were 32 genes, including three starch synthesis-related genes Wx, SSG6, and OsSSIIa, detected simultaneously in the whole rice panel and subpopulations, playing important role in determining glutinous rice. The combined haplotype analyses revealed that the waxy haplotypes combination of three genes mainly distributed in Southeast Asia (SEA), SEA islands (SER) and East Asia islands (EAR). Through population structure and genetic differentiation, we suggest that waxy haplotypes of the three genes firstly evolved or were directly inherited from wild rice in japonica, and then introgressed into indica in SER, SEA and EAR. Conclusions The cloning and natural variation analysis of waxy-related genes are of great significance for the genetic improvement of quality breeding and comprehend the history in glutinous rice. This work provides valuable information for further gene discovery and understanding the evolution and formation for glutinous rice in SEA, SER and EAR.

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