Association study of crude seed protein and fat concentration in a USDA pea diversity panel.

IF 3.9 2区 生物学 Q1 GENETICS & HEREDITY Plant Genome Pub Date : 2024-07-31 DOI:10.1002/tpg2.20485
Renan Uhdre, Clarice J Coyne, Britton Bourland, Julia Piaskowski, Ping Zheng, Girish M Ganjyal, Zhiwu Zhang, Rebecca J McGee, Dorrie Main, Nonoy Bandillo, Mario Morales, Yu Ma, Chengci Chen, William Franck, Adam Thrash, Marilyn L Warburton
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Abstract

Pea (Pisum sativum L.) is a key rotational crop and is increasingly important in the food processing sector for its protein. This study focused on identifying diverse high seed protein concentration (SPC) lines in pea plant genetic resources. Objectives included identifying high-protein pea lines, exploring genetic architecture across environments, pinpointing genes and metabolic pathways associated with high protein, and documenting information for single nucleotide polymorphism (SNP)-based marker-assisted selection. From 2019 to 2021, a 487-accession pea diversity panel, More protein, More pea, More profit, was evaluated in a randomized complete block design. DNA was extracted for genomic analysis via genotype-by-sequencing. Phenotypic analysis included protein and fat measurements in seeds and flower color. Genome-wide association study (GWAS) used multiple models, and the Pathways Association Study Tool was used for metabolic pathway analysis. Significant associations were found between SNPs and pea seed protein and fat concentration. Gene Psat7g216440 on chromosome 7, which targets proteins to cellular destinations, including seed storage proteins, was identified as associated with SPC. Genes Psat4g009200, Psat1g199800, Psat1g199960, and Psat1g033960, all involved in lipid metabolism, were associated with fat concentration. GWAS also identified genes annotated for storage proteins associated with fat concentration, indicating a complex relationship between fat and protein. Metabolic pathway analysis identified 20 pathways related to fat and seven to protein concentration, involving fatty acids, amino acid and protein metabolism, and the tricarboxylic acid cycle. These findings will assist in breeding of high-protein, diverse pea cultivars, and SNPs that can be converted to breeder-friendly molecular marker assays are identified for genes associated with high protein.

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美国农业部豌豆多样性面板中粗籽粒蛋白和脂肪浓度的关联研究。
豌豆(Pisum sativum L.)是一种重要的轮作作物,其蛋白质在食品加工领域的重要性与日俱增。这项研究的重点是在豌豆植物遗传资源中鉴定多样化的高种子蛋白浓度(SPC)品系。目标包括鉴定高蛋白豌豆品系、探索不同环境下的遗传结构、确定与高蛋白相关的基因和代谢途径,以及记录基于单核苷酸多态性(SNP)标记辅助选择的信息。从 2019 年到 2021 年,在随机完全区组设计中对 487 个品种的豌豆多样性面板 "更多蛋白质、更多豌豆、更多利润 "进行了评估。通过逐基因型测序提取 DNA 进行基因组分析。表型分析包括种子中蛋白质和脂肪的测量以及花的颜色。全基因组关联研究(GWAS)使用了多种模型,代谢途径分析使用了途径关联研究工具。结果发现,SNP 与豌豆种子蛋白质和脂肪浓度之间存在显著关联。第 7 号染色体上的基因 Psat7g216440 被确定与 SPC 有关,该基因将蛋白质(包括种子贮藏蛋白质)靶向到细胞目的地。参与脂质代谢的基因 Psat4g009200、Psat1g199800、Psat1g199960 和 Psat1g033960 与脂肪浓度有关。GWAS 还发现了与脂肪浓度相关的储存蛋白注释基因,这表明脂肪与蛋白质之间存在复杂的关系。代谢通路分析确定了 20 条与脂肪有关的通路和 7 条与蛋白质浓度有关的通路,涉及脂肪酸、氨基酸和蛋白质代谢以及三羧酸循环。这些发现将有助于培育高蛋白、多样化的豌豆栽培品种,并确定了与高蛋白相关基因的 SNPs,这些 SNPs 可转化为便于育种的分子标记检测方法。
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来源期刊
Plant Genome
Plant Genome PLANT SCIENCES-GENETICS & HEREDITY
CiteScore
6.00
自引率
4.80%
发文量
93
审稿时长
>12 weeks
期刊介绍: The Plant Genome publishes original research investigating all aspects of plant genomics. Technical breakthroughs reporting improvements in the efficiency and speed of acquiring and interpreting plant genomics data are welcome. The editorial board gives preference to novel reports that use innovative genomic applications that advance our understanding of plant biology that may have applications to crop improvement. The journal also publishes invited review articles and perspectives that offer insight and commentary on recent advances in genomics and their potential for agronomic improvement.
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