干旱区生态环境知识资源中心(Arid): Genome-Wide Association Analysis Reveals Trait-Linked Markers for Grain Nutrient and Agronomic Traits in Diverse Set of Chickpea Germplasm

Arid

DOI	10.3390/cells11152457
	Genome-Wide Association Analysis Reveals Trait-Linked Markers for Grain Nutrient and Agronomic Traits in Diverse Set of Chickpea Germplasm
	Srungarapu, Rajasekhar; Mahendrakar, Mahesh Damodhar; Mohammad, Lal Ahamed; Chand, Uttam; Jagarlamudi, Venkata Ramana; Kondamudi, Kiran Prakash; Kudapa, Himabindu; Samineni, Srinivasan
通讯作者	Samineni, S
来源期刊	CELLS
EISSN	2073-4409
出版年	2022
卷号	11 期号:15
英文摘要	Chickpea is an inexpensive source of protein, minerals, and vitamins to the poor people living in arid and semi-arid regions of Southern Asia and Sub-Saharan Africa. New chickpea cultivars with enhanced levels of protein, Fe and Zn content are a medium-term strategy for supplying essential nutrients for human health and reducing malnutrition. In the current study, a chickpea reference set of 280 accessions, including landraces, breeding lines, and advanced cultivars, was evaluated for grain protein, Fe, Zn content and agronomic traits over two seasons. Using a mid-density 5k SNP array, 4603 highly informative SNPs distributed across the chickpea genome were used for GWAS analysis. Population structure analysis revealed three subpopulations (K = 3). Linkage disequilibrium (LD) was extensive, and LD decay was relatively low. A total of 20 and 46 marker-trait associations (MTAs) were identified for grain nutrient and agronomic traits, respectively, using FarmCPU and BLINK models. Of which seven SNPs for grain protein, twelve for Fe, and one for Zn content were distributed on chromosomes 1, 4, 6, and 7. The marker S4_4477846 on chr4 was found to be co-associated with grain protein over seasons. The markers S1_11613376 and S1_2772537 co-associated with grain Fe content under NSII and pooled seasons and S7_9379786 marker under NSI and pooled seasons. The markers S4_31996956 co-associated with grain Fe and days to maturity. SNP annotation of associated markers were found to be related to gene functions of metal ion binding, transporters, protein kinases, transcription factors, and many more functions involved in plant metabolism along with Fe and protein homeostasis. The identified significant MTAs has potential use in marker-assisted selection for developing nutrient-rich chickpea cultivars after validation in the breeding populations.
英文关键词	chickpea reference set grain Fe Zn protein linkage disequilibrium population structure GWAS FarmCPU BLINK
类型	Article
语种	英语
开放获取类型	gold, Green Accepted, Green Published
收录类别	SCI-E
WOS记录号	WOS:000840170400001
WOS关键词	PROTEIN-CONTENT ; ACCESSIONS ; PREDICTION ; PROVIDES ; YIELD
WOS类目	Cell Biology
WOS研究方向	Cell Biology
资源类型	期刊论文
条目标识符	http://119.78.100.177/qdio/handle/2XILL650/392124
推荐引用方式 GB/T 7714	Srungarapu, Rajasekhar,Mahendrakar, Mahesh Damodhar,Mohammad, Lal Ahamed,et al. Genome-Wide Association Analysis Reveals Trait-Linked Markers for Grain Nutrient and Agronomic Traits in Diverse Set of Chickpea Germplasm[J],2022,11(15).
APA	Srungarapu, Rajasekhar.,Mahendrakar, Mahesh Damodhar.,Mohammad, Lal Ahamed.,Chand, Uttam.,Jagarlamudi, Venkata Ramana.,...&Samineni, Srinivasan.(2022).Genome-Wide Association Analysis Reveals Trait-Linked Markers for Grain Nutrient and Agronomic Traits in Diverse Set of Chickpea Germplasm.CELLS,11(15).
MLA	Srungarapu, Rajasekhar,et al."Genome-Wide Association Analysis Reveals Trait-Linked Markers for Grain Nutrient and Agronomic Traits in Diverse Set of Chickpea Germplasm".CELLS 11.15(2022).