通过 GWAS 确定牧草高粱 [Sorghum bicolor (Moench)] 适应性的遗传决定因素。

IF 4.3 2区 生物学 Q1 PLANT SCIENCES BMC Plant Biology Pub Date : 2024-11-05 DOI:10.1186/s12870-024-05754-6
Partha Pratim Behera, Avinash Singode, B Venkatesh Bhat, Nayanmoni Borah, Harendra Verma, Patel Supriya, Ramendra Nath Sarma
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引用次数: 0

摘要

背景:饲用高粱因其用途广泛、适应性强、产量高以及在不利环境条件下的恢复能力强而成为牲畜饲料生产中备受重视的作物,是可持续饲草生产的重要选择。本研究旨在调查 95 个饲用高粱基因型,并通过全基因组关联研究(GWAS)确定产量和开花等适应性性状的标记-性状关联(MTAs):利用 41,854 个多态 SNPs,采用 GLM、MLM 和 FarmCPU 模型进行了全基因组关联研究,分析了 14 个适应性性状。种群结构显示存在两个亚种群组。连锁不平衡(LD)图显示,各染色体上的 LD 有不同程度的衰减,平均 LD 衰减为 19.49 kbp。通过至少两种或两种以上的 GWAS 方法,同时共同检测和研究了 12 个常见的重要 QTNs,它们编码 17 个推测候选基因。3个QTN与50%开花天数有关;2个QTN与叶茎比和每株节数有关;1个QTN与株高、叶宽、每株叶片数、茎围和节间长度有关。6个候选基因与50%开花天数有关,2个候选基因与叶宽、茎围、叶茎比和每株节数有关,1个候选基因与株高、每株叶片数和节间长度有关:结论:在所有模型中,FarmCPU 被认为是最合适、最有效的假阳性和假阴性控制模型。对新发现的 QTN 进一步深入分析,可能会发现相关性状的新候选基因。这些研究阐明了基因功能,可通过标记辅助选择和转基因方法改变饲用高粱育种,加速优良饲用高粱品种的开发,提高全球粮食安全。
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Identifying genetic determinants of forage sorghum [Sorghum bicolor (Moench)] adaptation through GWAS.

Background: Forage sorghum is a highly valued crop in livestock feed production due to its versatility, adaptability, high productivity, and resilience under adverse environmental conditions, making it a crucial option for sustainable forage production. This study aimed to investigate ninety-five forage sorghum genotypes and identify the marker - trait associations (MTAs) in adaptive traits, including yield and flowering through genome-wide association studies (GWAS).

Results: Using 41,854 polymorphic SNPs, a GWAS involving the GLM, MLM, and FarmCPU models was performed to analyse fourteen adaptive traits. The population structure revealed the presence of two subpopulation groups. Linkage disequilibrium (LD) plots showed varying degrees of LD decay across the chromosomes, with an average LD decay of 19.49 kbp. Twelve common significant QTNs, encoding 17 putative candidate genes, were simultaneously co-detected and studied by at least two or more GWAS methods. Three QTNs were associated to days to 50% flowering; two each to leaf-to-stem ratio and number of nodes per plant; and one each to plant height, leaf width, number of leaves per plant, stem girth, and internodal length. Six candidate genes were associated with days to 50% flowering, two each with leaf width, stem girth, leaf-to-stem ratio, and number of nodes per plant, and one each with plant height, number of leaves per plant, and internodal length.

Conclusion: FarmCPU was identified as the most suitable and effective among all the models for controlling both false positives and false negatives. Further in-depth analysis of the newly discovered QTNs may lead to the identification of new candidate genes for the trait of interest. These studies elucidate gene functions and could transform forage sorghum breeding through marker-assisted selection and transgenic approaches, accelerating the development of superior forage sorghum varieties and enhancing global food security.

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来源期刊
BMC Plant Biology
BMC Plant Biology 生物-植物科学
CiteScore
8.40
自引率
3.80%
发文量
539
审稿时长
3.8 months
期刊介绍: BMC Plant Biology is an open access, peer-reviewed journal that considers articles on all aspects of plant biology, including molecular, cellular, tissue, organ and whole organism research.
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