IB-CAS  > 中科院北方资源植物重点实验室
Genome-wide association study reveals that different pathways contribute to grain quality variation in sorghum (Sorghum bicolor)
Kimani, Wilson; Zhang, Li-Min; Wu, Xiao-Yuan; Hao, Huai-Qing; Jing, Hai-Chun
2020
发表期刊BMC GENOMICS
ISSN1471-2164
卷号21期号:1
摘要Background In sorghum (Sorghum bicolor), one paramount breeding objective is to increase grain quality. The nutritional quality and end use value of sorghum grains are primarily influenced by the proportions of tannins, starch and proteins, but the genetic basis of these grain quality traits remains largely unknown. This study aimed to dissect the natural variation of sorghum grain quality traits and identify the underpinning genetic loci by genome-wide association study. Results Levels of starch, tannins and 17 amino acids were quantified in 196 diverse sorghum inbred lines, and 44 traits based on known metabolic pathways and biochemical interactions amongst the 17 amino acids calculated. A Genome-wide association study (GWAS) with 3,512,517 SNPs from re-sequencing data identified 14, 15 and 711 significant SNPs which represented 14, 14, 492 genetic loci associated with levels of tannins, starch and amino acids in sorghum grains, respectively. Amongst these significant SNPs, two SNPs were associated with tannin content on chromosome 4 and colocalized with three previously identified loci for Tannin1, and orthologs of Zm1 and TT16 genes. One SNP associated with starch content colocalized with sucrose phosphate synthase gene. Furthermore, homologues of opaque1 and opaque2 genes associated with amino acid content were identified. Using the KEGG pathway database, six and three candidate genes of tannins and starch were mapped into 12 and 3 metabolism pathways, respectively. Thirty-four candidate genes were mapped into 16 biosynthetic and catabolic pathways of amino acids. We finally reconstructed the biosynthetic pathways for aspartate and branched-chain amino acids based on 15 candidate genes identified in this study. Conclusion Promising candidate genes associated with grain quality traits have been identified in the present study. Some of them colocalized with previously identified genetic regions, but novel candidate genes involved in various metabolic pathways which influence grain quality traits have been dissected. Our study acts as an entry point for further validation studies to elucidate the complex mechanisms controlling grain quality traits such as tannins, starch and amino acids in sorghum.
关键词Sorghum Grain quality Genome-wide association study Amino acids Starch Tannins
学科领域Biotechnology & Applied Microbiology ; Genetics & Heredity
DOI10.1186/s12864-020-6538-8
收录类别SCI
语种英语
WOS关键词MAIZE KERNEL COMPOSITION ; SEED COAT DEVELOPMENT ; ARABIDOPSIS ; ENCODES ; PROTEIN ; GENE ; IDENTIFICATION ; DIGESTIBILITY ; INTEGRATION ; EXPRESSION
WOS研究方向Biotechnology & Applied Microbiology ; Genetics & Heredity
WOS记录号WOS:000513540400006
出版者BMC
文献子类Article
出版地LONDON
资助机构National Key R&D Program of China [2018YFD1000701, 2018YFD1000700] ; Ministry of Science and Technology of the People's Republic of ChinaMinistry of Science and Technology, China [2015BAD15B03] ; Science and Technology Service Network Initiative Project of Chinese Academy of Sciences [KFJ-FP-201809, KFJ-STS-ZDTP-056] ; National Natural Science Foundation of ChinaNational Natural Science Foundation of China (NSFC) [31461143023] ; SinoAfrica Joint Research Center, Chinese Academy of Sciences [SAJC201603] ; CAS-TWASChinese Academy of Sciences
作者邮箱hqhao@ibcas.ac.cn ; hcjing@ibcas.ac.cn
引用统计
被引频次:27[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/2S10CLM1/21910
专题中科院北方资源植物重点实验室
作者单位1.[Kimani, Wilson
2.Zhang, Li-Min
3.Wu, Xiao-Yuan
4.Hao, Huai-Qing
5.Chinese Acad Sci, Inst Bot, Key Lab Plant Resources, Beijing 100093, Peoples R China
6.Univ Chinese Acad Sci, Beijing 100049, Peoples R China
7.Chinese Acad Sci, Inst Bot, Engn Lab Grass Based Livestock Husb, Beijing 100093, Peoples R China
推荐引用方式
GB/T 7714
Kimani, Wilson,Zhang, Li-Min,Wu, Xiao-Yuan,et al. Genome-wide association study reveals that different pathways contribute to grain quality variation in sorghum (Sorghum bicolor)[J]. BMC GENOMICS,2020,21(1).
APA Kimani, Wilson,Zhang, Li-Min,Wu, Xiao-Yuan,Hao, Huai-Qing,&Jing, Hai-Chun.(2020).Genome-wide association study reveals that different pathways contribute to grain quality variation in sorghum (Sorghum bicolor).BMC GENOMICS,21(1).
MLA Kimani, Wilson,et al."Genome-wide association study reveals that different pathways contribute to grain quality variation in sorghum (Sorghum bicolor)".BMC GENOMICS 21.1(2020).
条目包含的文件
文件名称/大小 文献类型 版本类型 开放类型 使用许可
Kimani-2020-Genome-w(2456KB)期刊论文出版稿开放获取CC BY-NC-SA浏览 请求全文
个性服务
推荐该条目
保存到收藏夹
查看访问统计
导出为Endnote文件
谷歌学术
谷歌学术中相似的文章
[Kimani, Wilson]的文章
[Zhang, Li-Min]的文章
[Wu, Xiao-Yuan]的文章
百度学术
百度学术中相似的文章
[Kimani, Wilson]的文章
[Zhang, Li-Min]的文章
[Wu, Xiao-Yuan]的文章
必应学术
必应学术中相似的文章
[Kimani, Wilson]的文章
[Zhang, Li-Min]的文章
[Wu, Xiao-Yuan]的文章
相关权益政策
暂无数据
收藏/分享
文件名: Kimani-2020-Genome-wide association study reve.pdf
格式: Adobe PDF
此文件暂不支持浏览
所有评论 (0)
暂无评论
 

除非特别说明,本系统中所有内容都受版权保护,并保留所有权利。