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TWAS揭示了Murrah水牛的乳生产和其成分的显著因果位点

Supriya Chhotaray^1,2, Vikas Vohra³, Vishakha Uttam²

¹Division of Animal Genetics and Breeding, ICAR-Central Institute for Research on Buffaloes, Hisar, Haryana, 125001, India.

Scientific reports

|December 16, 2023

概括

全转录组关联研究 (TWAS) 有效地确定了Murrah水牛的牛奶生产和成分的基因. 这种方法的错误发现率低于全基因组关联研究 (GWAS).

科学领域:

动物遗传学和动物基因组学
乳制品科学乳制品科学
生物信息学是一种生物信息学.

背景情况:

牛奶产量是乳制品动物的一个复杂的特征,难以用传统的全基因组关联研究 (GWAS) 绘制地图,特别是在小型畜牧业地区.
全转录组关联研究 (TWAS) 为精细映射表达量化特征位点 (eQTLs) 提供了可行的替代方案.

研究的目的:

在Murrah水牛 (Bubalus bubalis) 中使用TWAS.与牛奶生产和组成相关的基因的识别.
为了比较TWAS与GWAS在确定牛奶特征的显著遗传关联方面的有效性.

主要方法:

通过ddRAD测序对136只Murrah水牛进行了TWAS的基因定型.
用8只具有基因型和乳腺上皮细胞 (MEC) 转录组数据的动物参考组预测基因表达水平.
没有交叉验证的迪里克莱特过程回归 (DPR) 模型显示了最高的基因预测准确度 (80.92%).

主要成果:

在Bonferroni校正的值下,TWAS发现了一种影响脂肪%的基因和两种影响固体非脂肪 (SNF) %的基因的显著关联.
假发现率 (FDR) 纠正的TWAS的P值低于顶级SNP的GWAS.
基因本体学分析显示,TWAS识别的基因参与Relaxin,AMPK,JAK-STAT信号通路和关键代谢过程.

结论:

TWAS是一种强大的工具,用于识别Murrah水牛的牛奶生产和成分相关基因和cis-单核酸多态 (SNP).
与GWAS相比,TWAS在这些特征上显示了较低的虚假发现率和更高的显著命中率.
这些发现支持TWAS在开发基因组芯片的潜在用途,用于预测Murrah水牛的牛奶产量.

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