ATAC 测序和转录组学揭示了盐胁迫条件下染色质可及性对三尖杉基因表达的影响

IF 4.5 2区 生物学 Q2 ENVIRONMENTAL SCIENCES Environmental and Experimental Botany Pub Date : 2024-10-18 DOI:10.1016/j.envexpbot.2024.106014
Huaizhi Tian , Yuanhang Mu , Shasha Yang , Jv Zhang , Xiaolian Yang , Qingqin Zhang , Guangdong Geng , Suqin Zhang
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引用次数: 0

摘要

植物进化出了各种调节机制,通过调整基因表达水平来提高对盐的适应性。在本研究中,Tritipyrum 'Y1805' 的苗高、根长、植株鲜重、总根表面积和总根体积在盐胁迫和恢复条件下均显著增加。植物含水量在盐胁迫条件下变化有限。细胞分裂素、氨基酸、可溶性蛋白质和丙酮酸含量以及过氧化物酶活性在盐胁迫下增加,恢复后迅速下降。盐胁迫 5 小时后,MDA 含量和电导率增加,但随后迅速恢复到对照水平。Y1805'具有很强的耐盐性,能迅速适应盐胁迫条件。转座酶可访问染色质测序(ATAC-seq)分析表明,在盐胁迫和对照条件下,大多数峰位于远端基因间区。我们在 1776 个位置特异性峰中发现了 85 个基序,在盐胁迫条件下改变的信号峰中发现了 478 个基序。与这些基团结合的转录因子主要属于MYB家族,其次是AP2/EREBP、bZIP、bHLH和WRKY家族。根据 ATAC-seq 和转录组学的相关差异表达基因,基因本体论的主要术语有机酸分解过程、羧酸分解过程、细胞激素代谢过程、细胞分裂素代谢过程和细胞氨基酸分解过程被显著富集。根据转录调控网络和基因表达水平,筛选并克隆了Tritipyrum 'Y1805' HSF6-1基因。野生型植株的叶片在盐胁迫下出现严重萎蔫,但 TtHSF6-1 转基因品系的大部分叶片仍保持直立。在盐胁迫和恢复条件下,TtHSF6-1转基因品系的苗高、根长、植株鲜重和植株干重都比WT植株显著增加。在盐胁迫条件下,TtHSF6-1 转基因品系的 MDA 含量和电导率值明显低于 WT 植物。因此,TtHSF6-1有助于提高耐盐性。这些结果为小麦改良提供了有价值的基因,并为Tritipyrum耐盐性的转录调控机制提供了基本见解。
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ATAC sequencing and transcriptomics reveal the impact of chromatin accessibility on gene expression in Tritipyrum under salt-stress conditions
Plants have evolved various regulatory mechanisms that adjust gene expression levels to enhance their salt adaptability. Here, the seedling height, root length, plant fresh weight, total root surface area, and total root volume of Tritipyrum ‘Y1805’ increased significantly under salt-stress and recovery conditions. The plant water content showed limited changes under salt stress. The cytokinin, amino acid, soluble protein, and pyruvate contents, as well as the peroxidase activity, increased under salt stress and decreased quickly after recovery. The MDA content and electrical conductivity increased after 5 h of salt stress, but they returned rapidly to the control level afterwards. ‘Y1805’ had strong salt tolerance and could adapt quickly to salt-stress conditions. An assay of transposase-accessible chromatin with sequencing (ATAC-seq) indicated that most peaks were located in the distal intergenic regions under salt-stress and control conditions. We found 85 motifs in the 1776 location-specific peaks and 478 motifs in altered signal peaks under salt stress. The transcription factors binding to these motifs belonged mainly to the MYB family, followed by the AP2/EREBP, bZIP, bHLH, and WRKY families. The main Gene Ontology terms organic acid catabolic process, carboxylic acid catabolic process, cellular hormone metabolic process, cytokinin metabolic process, and cellular amino acid catabolic process were significantly enriched based on the associated differentially expressed genes between ATAC-seq and transcriptomics. Based on the transcriptional regulatory network and gene expression level, the Tritipyrum ‘Y1805’ HSF6–1 gene was selected and cloned. Leaves of the wild-type plants appeared seriously wilted under salt stress, but most leaves of the TtHSF6–1 transgenic line remained upright. The seedling height, root length, plant fresh weight, and plant dry weight of the TtHSF6–1 transgenic line increased significantly compared with those of the WT plant under salt-stress and recovery conditions. The MDA content and electrical conductivity values of the TtHSF6–1 transgenic line were significantly less than those of the WT plants under salt-stress conditions. Thus, TtHSF6–1 contributed to salt tolerance. These results provided valuable genes for wheat improvement and offer fundamental insights into the transcriptional regulatory mechanisms of salt tolerance in Tritipyrum.
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来源期刊
Environmental and Experimental Botany
Environmental and Experimental Botany 环境科学-环境科学
CiteScore
9.30
自引率
5.30%
发文量
342
审稿时长
26 days
期刊介绍: Environmental and Experimental Botany (EEB) publishes research papers on the physical, chemical, biological, molecular mechanisms and processes involved in the responses of plants to their environment. In addition to research papers, the journal includes review articles. Submission is in agreement with the Editors-in-Chief. The Journal also publishes special issues which are built by invited guest editors and are related to the main themes of EEB. The areas covered by the Journal include: (1) Responses of plants to heavy metals and pollutants (2) Plant/water interactions (salinity, drought, flooding) (3) Responses of plants to radiations ranging from UV-B to infrared (4) Plant/atmosphere relations (ozone, CO2 , temperature) (5) Global change impacts on plant ecophysiology (6) Biotic interactions involving environmental factors.
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