在207种棉花加入中以单核酸分辨率的全种群DNA甲基化多态性揭示了对复杂特征的表观遗传学贡献
Ting Zhao1, Xueying Guan1, Yan Hu1
1Zhejiang Provincial Key Laboratory of Crop Genetic Resources, the Advance Seed Institute, Key Laboratory of Plant FactoryGeneration-adding Breeding, Ministry of Agriculture and Rural Affairs, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou, Zhejiang, China.
Cell research
|October 17, 2024
概括
这项研究揭示了棉花中的DNA甲基化多态 (SMP),发现它们独立于遗传变异显著影响基因表达和作物特征. 这些表观遗传的见解为作物改进和育种提供了新的途径.
科学领域:
- 植物表观遗传学和基因组学
- 农作物遗传学和育种方法
- 分子生物学和遗传学 分子生物学和遗传学
背景情况:
- 基因甲基化对作物发育至关重要,但其与自然种群中的遗传变异和基因表达的相互作用尚不清楚.
- 与遗传和转录基因数据一起研究表观遗传变异对于全面了解作物特征至关重要.
研究的目的:
- 探索棉花中的DNA甲基化多态 (SMP) 景观及其与遗传多态 (SNP),基因表达和表型变异的关系.
- 将人口遗传学框架扩展到表观遗传学,使用来自棉纤维的多omics数据.
- 识别与作物特征相关的新型表观遗传位置,特别是产量和纤维质量.
主要方法:
- 调查了207个棉花加入20天后 (DPA) 的高质量的甲基组,转录组和基因组.
- 识别了超过2.87亿个单基甲基化多态 (SMP),并进行了关联分析,以检测cis-methylation定量特征位 (cis-meQTLs),cis-expression定量特征甲基化 (cis-eQTMs) 和表达定量特征位 (eQTLs).
- 通过基因编辑构建了多omics监管网络,并通过基因编辑验证了发现.
主要成果:
- 确定了超过2.87亿个SMP,比SNP更丰富,在基因内区域中丰富.
- 发现了许多cis-meQTLs,cis-eQTMs和eQTLs,其中很大一部分cis-eQTMs (36.39%) 显示独立于遗传变异.
- 发现,与产量和纤维质量特征相关的表观遗传位点中只有很小一部分 (2.10%) 与全基因组关联研究 (GWAS) 位点重叠.
- 确定了43个可能参与纤维发育的cis-eQTM基因,包括一种CBL相互作用的蛋白激酶10,其在纤维长度调节中的作用得到了验证.
结论:
- 基因组甲基化多态代表了一个巨大的,在很大程度上未开发的资源,以了解作物变异和改善作物特征.
- 表观遗传数据,独立于遗传变异,为基因调节和特征发展提供了新的见解,这些见解不能仅仅通过传统的GWAS捕获.
- 利用DNA甲基化数据可以增强和加速作物改进策略,提供新的育种机会.
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