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Genome-wide association study for starch content and constitution in sorghum (Sorghum bicolor (L.) Moench)

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文摘 Starch 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<4.452×10~(–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.
来源 Journal of Integrative Agriculture ,2019,18(11):2446-2456 【核心库】
DOI 10.1016/S2095-3119(19)62631-6
关键词 sorghum ; genome-wide association mapping (GWAS) ; starch content ; amylose (AM) ; candidate genes ; KASP
地址

1. College of Agronomy, Shenyang Agricultural University, Shenyang, 110866  

2. Institute of Crop Germplasm Resources, Jilin Academy of Agricultural Sciences, Gongzhuling, 136100  

3. Molecular Improvement of Agricultural Crops Lab, Liaoning Academy of Agricultural Sciences, Shenyang, 110161

语种 英文
文献类型 研究性论文
ISSN 2095-3119
基金 supported by the earmarked fund for China Agriculture Research System
文献收藏号 CSCD:6614235

参考文献 共 52 共3页

1.  de Alencar Figueiredo L F. Variability of grain quality in sorghum: Association with polymorphism in Sh2, Bt2, SssI, Ae1, Wx and O_2. Theoretical and Applied Genetics,2010,121:1171-1185 被引 2 次    
2.  Aluko G. QTL mapping of grain quality traits from the interspecific cross Oryza sativa×O. glaberrima. Theoretical and Applied Genetics,2004,109:630-639 被引 61 次    
3.  Atwell S. Genomewide association study of 107 phenotypes in Arabidopsis thaliana inbred lines. Nature,2010,465:627-631 被引 64 次    
4.  Ayres N M. Microsatellites and a single-nucleotide polymorphism differentiate apparent amylose classes in an extended rice pedigree of US rice germplasm. Theoretical and Applied Genetics,1997,94:773-781 被引 70 次    
5.  Boyles R E. Genetic dissection of sorghum grain quality traits using diverse and segregating populations. Theoretical and Applied Genetics,2017,130:697-716 被引 2 次    
6.  Bradbury P J. TASSEL: Software for association mapping of complex traits in diver samples. Bioinformatics,2007,23:2633-2635 被引 311 次    
7.  Cook J P. Genetic architecture of maize kernel composition in the nested association mapping and inbred association panels. Plant Physiology,2012,158:824-834 被引 14 次    
8.  Cui Z H. Genome-wide association study (GWAS) reveals the genetic architecture of four husk traits in maize. BMC Genomics,2016,17:946-960 被引 5 次    
9.  Denyer K. The control of amylose synthesis. Journal of Plant Physiology,2001,158:479-487 被引 23 次    
10.  Fang Q. Functional properties of polylactic acid starch-based loose-fill packaging foams. Cereal Chemistry,2000,77:779-783 被引 2 次    
11.  Flint J. Genome-wide association studies in mice. Nature Reviews Genetics,2012,13:807-817 被引 3 次    
12.  Fukunaga K. Structural variation in the Waxy gene and differentiation in foxtail millet [Setariaitalica (L.) P. Beauv.]: implication for multiple origins of the waxy phenotye. Molecular Genetics Genomics,2002,268:214-222 被引 18 次    
13.  Hamblin M T. Sequence variation at candidate loci in the starch metabolism pathway in sorghum: prospects for linkage disequilibrium mapping. Crop Science,2007,47:S125-S134 被引 2 次    
14.  Han Y. Domestication footprints anchogenomic regions of agronomic importance in soybeans. New Phytologist,2016,209:871-884 被引 9 次    
15.  Holm S. A simple sequentially rejective multiple test procedure. Scandinavian Journal of Statistics,1979,6:65-70 被引 39 次    
16.  Huang X H. Genome-wide association studies of 14 agronomic traits in rice landraces. Nature Genetics,2010,42:961-967 被引 100 次    
17.  Huang X H. Genome-wide association study of flowering time and grain yield traits in a worldwide collection of rice germplasm. Nature Genetics,2012,44:32-39 被引 38 次    
18.  Huang X Q. Molecular detectionof QTLs for agronomic and quality traits in a doubled haploid population derived from two Canadian wheats (Triticum aestivum L.). Theoretical and Applied Genetics,2006,113:753-766 被引 82 次    
19.  Jeon J S. Starch biosynthesis in cereal endosperm. Plant Physiology and Biochemistry,2010,48:383-392 被引 62 次    
20.  Jia G Q. A haplotype map of genomic variations and genome-wide association studies of agronomic traits in foxtailmillet (Setaria italica). Nature Genetics,2013,45:957-961 被引 55 次    
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