转录因子KANADI 1,MYB DOMAIN PROTEIN 44和植物染色体相互作用因子4调节长跨基因非编码RNAs,表达在阿拉比多普西斯根
Li Liu1,2, Michel Heidecker3,4, Thomas Depuydt1,2
1Department of Plant Biotechnology and Bioinformatics, Ghent University, Technologiepark 71, 9052 Ghent, Belgium.
Plant physiology
|June 22, 2023
概括
研究人员绘制了成千上万种植物长跨基因非编码RNA (lincRNAs) 的地图,并建立了一个调节网络. 他们确定了控制根特异性lincRNA表达的关键转录因子,揭示了植物发育的洞察力.
科学领域:
- 植物基因组学 植物基因组学
- 非编码RNA生物学
- 转录法规 转录法规
背景情况:
- 在植物基因组中存在数以千计的长跨基因非编码RNA (lincRNA),但它们的转录调节在很大程度上是未知的.
- 了解lincRNA调节对于破译植物中复杂的生物过程至关重要.
研究的目的:
- 在Arabidopsis thaliana中定义高可信度的lincRNA位点.
- 构建一个全面的转录因子 (TF) -lincRNA监管网络.
- 研究植物lincRNAs的调控机制,特别是在根部发育过程中.
主要方法:
- 整合了8个注释资源来识别lincRNA的位置.
- 在整个进化年龄类别中分析了序列,染色质特征,保存和净化选择.
- 将时空基因表达特征与TF染色体免疫沉 (ChIP) 数据结合起来,构建一个TF-lincRNA网络.
- 对关键TF进行实验验证,并确定了目标lincRNAs.
主要成果:
- 在Arabidopsis中定义了6,599个高可信度的lincRNA位点.
- 构建了一个TF-lincRNA调节网络,包含2659个lincRNA和15686个相互作用.
- 在植物和动物之间的lincRNA特性中发现了显著的差异.
- 验证了KANADI 1,MYB DOMAIN PROTEIN 44和植物染色体相互作用因子4作为根特异性lincRNA表达的调节剂.
- 发现了58种根特异性lincRNAs,与GWAS发现有关于根系发育.
结论:
- 这项研究提供了包括Arabidopsis lincRNAs及其调节网络在内的全基因组综合性表征.
- 鉴定的TF-lincRNA相互作用为控制根特异性基因表达提供了宝贵的见解.
- 这项工作增强了我们对lincRNA功能和植物生长和发育中的相关性的理解.
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