活动和稳定性的差异推动了热带和温带玉米中可转移元素的变化
Shujun Ou1,2,3,4, Armin Scheben5, Tyler Collins3
1Department of Ecology, Evolution, and Organismal Biology, Iowa State University, Ames, Iowa 50011, USA.
Genome research
|September 9, 2024
概括
可转移元素 (TE) 驱动热带和温带玉米之间的基因组差异. 年轻,活跃的LTR逆转移体对这种变异有显著的贡献,可能会影响疾病耐药性.
科学领域:
- 基因组学就是基因组学.
- 植物科学 植物科学
- 生物信息学是一种生物信息学.
背景情况:
- 可转移元素 (TE) 是跨物种基因组变异的主要驱动因素.
- 了解物种内部的TE变异对于作物改进至关重要.
研究的目的:
- 开发和应用一个算法,以在 pangenome 环境中进行 de novo 可转换元素注释.
- 调查玉米物种内TE变化的程度和驱动因素.
主要方法:
- 开发了panEDTA,这是一个开源算法,用于新的TE注释.
- 使用26个高质量的基因组生成了玉米大基因组的统一TE注释.
- 分析了甲基组,转录组,LTR年龄和插入多态数据.
主要成果:
- 在热带玉米中,与温带玉米相比,确定了每基因组超过35.1Mb的TE序列.
- 发现年轻,甲基化程度较低,表达较高的LTR逆转移素家族驱动了64.7%的这种变异.
- 在核酸结合和氨酸丰富的重复 (NLR) 集群附近观察到年轻的LTR家族的丰富.
结论:
- 转基因,特别是LTR逆转基因,对玉米种群之间的基因组含量变异作出了重大贡献.
- TE活动,特别是年轻LTR家族的TE活动,与甲基化和表达的差异有关,可能在玉米疾病耐药性中发挥作用.
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