Identification and Investigation of the Genetic Variations and Candidate Genes Responsible for Seed Weight via GWAS in Paper Mulberry

doi:10.3390/ijms232012520

	Identification and Investigation of the Genetic Variations and Candidate Genes Responsible for Seed Weight via GWAS in Paper Mulberry
	Hu, Yanmin; Peng, Xianjun; Shen, Shihua
	2022
发表期刊	INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
卷号	23 期号:20
摘要	Seeds directly determine the survival and population size of woody plants, but the genetic basis of seed weight in woody plants remain poorly explored. To identify genetic variations and candidate genes responsible for seed weight in natural woody populations, we investigated the hundred-seed weight of 198 paper mulberry individuals from different areas. Our results showed that the hundred-seed weight of paper mulberry was significantly associated with the bioclimatic variables of sampling sites, which increased from south to north along the latitudinal-temperature gradient. Using 2,414,978 high-quality SNPs from re-sequencing data, the genome-wide association analysis of the hundred-seed weight was performed under three models, which identified 148, 19 and 12 associated genes, respectively. Among them, 25 candidate genes were directly hit by the significant SNPs, including the WRKY transcription factor, fatty acid desaturase, F-box protein, etc. Most importantly, we identified three crucial genetic variations in the coding regions of candidate genes (Bp02g2123, Bp01g3291 and Bp10g1642), and significant differences in the hundred-seed weight were detected among the individuals carrying different genotypes. Further analysis revealed that Bp02g2123 encoding a fatty acid desaturase (FAD) might be a key factor affecting the seed weight and local climate adaptation of woody plants. Furthermore, the genome-wide investigation and expression analysis of FAD genes were performed, and the results suggested that BpFADs widely expressed in various tissues and responded to multiple phytohormone and stress treatments. Overall, our study identifies valuable genetic variations and candidate genes, and provides a better understanding of the genetic basis of seed weight in woody plants.
关键词	genome-wide association study seed weight woody plant genetic variation candidate gene fatty acid desaturase
学科领域	Biochemistry & Molecular Biology ; Chemistry, Multidisciplinary
DOI	10.3390/ijms232012520
收录类别	SCI
语种	英语
WOS关键词	RARE ALLELE ; GEOGRAPHIC PATTERNS ; GRAIN WEIGHT ; ORGAN SIZE ; PROTEIN ; YIELD ; MASS ; EXPRESSION ; BINDING ; GERMINATION
WOS研究方向	Science Citation Index Expanded (SCI-EXPANDED)
WOS记录号	WOS:000872805200001
出版者	MDPI
文献子类	Article
出版地	BASEL
EISSN	1422-0067
资助机构	National Key Research and Development Program of China [2021YFD1000100] ; National Natural Science Foundation of China [32070358] ; Beijing Natural Science Foundation [6202026]
作者邮箱	pengxianjun@ibcas.ac.cn ; shshen@ibcas.ac.cn
作品OA属性	gold, Green Published
引用统计	被引频次：1[WOS] [WOS记录] [WOS相关记录]
文献类型	期刊论文
条目标识符	http://ir.ibcas.ac.cn/handle/2S10CLM1/28860
专题	中科院北方资源植物重点实验室
作者单位	Chinese Acad Sci, Inst Bot, Key Lab Plant Resources, Beijing 100093, Peoples R China
推荐引用方式 GB/T 7714	Hu, Yanmin,Peng, Xianjun,Shen, Shihua. Identification and Investigation of the Genetic Variations and Candidate Genes Responsible for Seed Weight via GWAS in Paper Mulberry[J]. INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES,2022,23(20).
APA	Hu, Yanmin,Peng, Xianjun,&Shen, Shihua.(2022).Identification and Investigation of the Genetic Variations and Candidate Genes Responsible for Seed Weight via GWAS in Paper Mulberry.INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES,23(20).
MLA	Hu, Yanmin,et al."Identification and Investigation of the Genetic Variations and Candidate Genes Responsible for Seed Weight via GWAS in Paper Mulberry".INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES 23.20(2022).

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