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Genome-wide association study for starch content and constitution in sorghum (Sorghum bicolor (L.) Moench)
Alternative TitleGenome-wide association study for starch content and constitution in sorghum (Sorghum bicolor (L.) Moench)
Chen Bingru1; Wang Chunyu1; Wang Ping1; Zhu Zhenxing1; Xu Ning2; Shi Guishan2; Yu Miao2; Wang Nai2; Li Jihong2; Hou Jiaming2; Li Shujie2; Zhou Yufei1; Gao Shijie2; Lu Xiaochun1; Huang Ruidong1
2019
Source PublicationJOURNAL OF INTEGRATIVE AGRICULTURE
ISSN2095-3119
Volume18Issue:11Pages:2446-2456
AbstractStarch is the most important component in endosperm of sorghum grain. Usually, two types of starch are present: amylose (AM) and amylopectin (AP). The levels of AM and AP contents play a significant role in the appearance, structure, and quality of sorghum grains and in marketing applications. In the present study, a panel of 634 sorghum (Sorghum bicolor (L.) Moench) accessions were evaluated for starch, AM, and AP contents of grain, which included a mini core collection of 242 accessions from the International Crops Research Institute for the Semi-Arid Tropics (ICRISAT) in India, and 252 landraces and 140 cultivars from China. The average starch content was 67.64% and the average AM and AP contents were 20.19 and 79.81%, respectively. We developed a total of 260 000 high-confidence single nucleotide polymorphism (SNP) markers in the panel of 634 accessions of S. bicolor using specific locus amplified fragment sequencing (SLAF-seq). We performed genome-wide association studies (GWAS) of starch, AM, and AM/AP of grain and SNP markers based on a mixed linear model (MLM). In total, 70 significant association signals were detected for starch, AM, and AM/AP ratio of grain with P<4.452x10(-7), of which 10 SNPs were identified with significant starch, 51 SNPs were associated with AM, and nine SNPs were associated with the AM/AP ratio. The Gene Ontology (GO) analysis identified 12 candidate genes at five QTLs associated with starch metabolism within the 200-kb intervals, located on chromosomes 1, 5, 6, and 9. Of these genes, Sobic.006G036500.1 encodes peptidyl-prolyl cis-trans-isomerase CYP38 responsible for hexose monophosphate shunt (HMS) and Sobic.009G071800 encodes 6-phospho-fructokinase (PFK), which is involved in the embden-meyerhof pathway (EMP). Kompetitive allele specific PCR (KASP) markers were developed to validate the GWAS results. The C allele is correlated with a high starch content, while the T allele is linked with a low level of starch content, and provides reliable haplotypes for MAS in sorghum quality improvement.
KeywordMAIZE KERNEL COMPOSITION QUANTITATIVE TRAIT LOCI GRAIN QUALITY TRAITS AGRONOMIC TRAITS RICE DIGESTIBILITY POLYMORPHISM EVOLUTION GENE sorghum genome-wide association mapping (GWAS) starch content amylose (AM) candidate genes KASP
Indexed ByCSCD
Language英语
Funding Project[earmarked fund for China Agriculture Research System]
CSCD IDCSCD:6614235
Citation statistics
Document Type期刊论文
Identifierhttp://ir.imr.ac.cn/handle/321006/151532
Collection中国科学院金属研究所
Affiliation1.中国科学院金属研究所
2.Jilin Acad Agr Sci, Institute Crop Germplasm Resources, Gongzhuling 136100, Peoples R China
Recommended Citation
GB/T 7714
Chen Bingru,Wang Chunyu,Wang Ping,et al. Genome-wide association study for starch content and constitution in sorghum (Sorghum bicolor (L.) Moench)[J]. JOURNAL OF INTEGRATIVE AGRICULTURE,2019,18(11):2446-2456.
APA Chen Bingru.,Wang Chunyu.,Wang Ping.,Zhu Zhenxing.,Xu Ning.,...&Huang Ruidong.(2019).Genome-wide association study for starch content and constitution in sorghum (Sorghum bicolor (L.) Moench).JOURNAL OF INTEGRATIVE AGRICULTURE,18(11),2446-2456.
MLA Chen Bingru,et al."Genome-wide association study for starch content and constitution in sorghum (Sorghum bicolor (L.) Moench)".JOURNAL OF INTEGRATIVE AGRICULTURE 18.11(2019):2446-2456.
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