猪基因组中的年轻SINE影响基因调节,遗传多样性和复杂的特征
Pengju Zhao1,2, Lihong Gu3, Yahui Gao4
1Hainan Institute, Zhejiang University, Yongyou Industry Park, Yazhou Bay Sci-Tech City, Sanya, 572000, China.
Communications biology
|August 31, 2023
概括
可转移元素 (TE),特别是猪中的年轻SINEs,影响基因调节和复杂的特征. 这项研究对TEs进行了目录,揭示了它们在当地适应中的作用以及通过基因型与表型的关联与养猪的潜在联系.
科学领域:
- 基因组学就是基因组学.
- 分子生物学分子生物学
- 动物遗传学动物遗传学
背景情况:
- 可转移元素 (TE) 是遗传变异的重要驱动因素,并影响基因组结构和进化.
- 试验体的功能影响,特别是对猪的功能影响,以及它们对复杂特征的贡献,在很大程度上仍未被探索.
研究的目的:
- 创建一个可转移到猪体内的可转移元素的综合目录.
- 研究年轻SINE在猪基因组中的调控机制和功能作用.
- 为了确定二形SINEs与复杂特征之间的关联,以改善养猪.
主要方法:
- 在猪基因组中目录了300多万个TEs.
- 分析基因组修饰,DNA甲基化和染色质可访问性,以评估TE沉默.
- 利用3570个RNA-seq样本来识别活跃的年轻SINEs的组织特异性转录.
- 在374个个体中检测到211,067个二态SINE,包括特定种群的变异.
- 将二态SINEs映射到97个复杂特征的全基因组关联研究.
主要成果:
- 建立了一个3,087,929 TEs的目录.
- 年轻的SINE通常由表观遗传机制使之沉默,但有些人表现出组织特异性的表达.
- 确定了211,067个二态SINE,其中340个与当地适应有关.
- 54个候选基因,包括ANK2和VRTN,在复杂特征方面可能受到TEs的影响.
结论:
- 年轻的SINE在猪基因组进化,基因调节和适应中起着至关重要的作用.
- 基因组特异,特别是二态SINEs,为基因型与表型的关联提供了宝贵的见解.
- 这项研究为利用TE信息在现代养猪策略中提供了基础.
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