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基因组参数化和SNP标记者置换对自动四叶复合的基因组选择的影响

Nelson Nazzicari¹, Nicolò Franguelli¹, Barbara Ferrari¹

¹Council for Agricultural Research and Economics (CREA), Research Center for Animal Production and Aquaculture, Viale Piacenza 29, 26900 Lodi, Italy.

|April 27, 2024

概括

作为一个关键的料作物 - - 草的基因组选择,从使用等位基因比率和所有单核酸多态 (SNP) 标志物中获益,以提高预测能力. 这项研究还介绍了Legpipe2,一个SNP调用管道,用于通过测序数据进行基因类型.

科学领域:

植物遗传学植物遗传学
农业科学农业科学
生物信息学是一种生物信息学.

背景情况:

(Medicago sativa) 是一个重要的全球料豆类,由于长时间的繁殖周期和复杂的自主四叶复合基因,其遗传收益有限.
非添加的遗传变异显著影响了的遗传改进.

研究的目的:

为了提高的基因组选择效率.
评估基因组参数化和SNP标记子设置对基因组预测模型的影响.
开发和发布一个专门的SNP调用管道,通过测序数据进行基因定型.

主要方法:

探索了基因组参数化 (四倍体,二倍体,等位基因比率) 和SNP标记子集 (所有,基因,非基因).
通过测序 (GBS) 的基因定型利用了143种植物的数据.
评估了包括干生物质产量 (FE和SE),叶子大小和开花时间在内的特征的预测能力.

主要成果:

对等位基因比率的参数化表现优于四体和双体剂量 (平均改善分别为+7.9%和+12.6%).
使用所有SNP优于子集 (基因区域和非基因区域的平均改善分别为3.7%和7.6%).
最佳性能根据特定的特征和参数化和子设置的组合而有所不同.

结论:

代基因比率参数化和所有SNP的使用通常提高了的基因组选择预测能力.
开发的Legpipe2管道为SNP从GBS数据中调用中型基因型化实验提供了一个定制的解决方案.
对基因组参数和标记子集的特征特定组合进行进一步的研究是有必要的,以最大限度地提高子育种效率.

关键词:

在SNP呼叫管道时,SNP呼叫管道.在SNP中进行子设置.阿尔法萨法 (Alfalfa) 是一种植物.自动地地地地.基因组参数化的基因组参数化基因组选择基因组选择豆类豆类豆类豆类多重积分多样性多重积分多样性

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Frequency-dependent Selection

Frequency-dependent Selection

When the fitness of a trait is influenced by how common it is (i.e., its frequency) relative to different traits within a population, this is referred to as frequency-dependent selection. Frequency-dependent selection may occur between species or within a single species. This type of selection can either be positive—with more common phenotypes having higher fitness—or negative, with rarer phenotypes conferring increased fitness.

Trihybrid Crosses

Trihybrid Crosses

Trihybrid Crosses
Some of Mendel’s crosses examined three pairs of contrasting characteristics. Such a cross is called a trihybrid cross. A trihybrid cross is a combination of three individual monohybrid crosses. For example, plant height (tall vs. short), seed shape (round vs. wrinkled), and seed color (yellow vs. green).
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