拟南芥转录组分析预测干旱反应中的胁迫长度特异性调控网络

Q3 Agricultural and Biological Sciences
S. Akhtartavan, M. Talebi
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引用次数: 1

摘要

干旱胁迫是影响全球作物生产力的主要环境因素之一。植物利用各种调控基因对基因组活动进行重新编程,以应对这种压力。在调节基因中,转录因子(TF)作为末端转导子,直接调节广谱下游基因的表达。TF家族的多样性、TF与靶基因启动子上顺式元件之间的复杂相互作用以及TF之间对胁迫的串扰表明了参与植物胁迫反应的信号网络的复杂性。本研究旨在使用计算和统计方法分析拟南芥的微阵列数据集,该数据集涵盖了干旱胁迫的不同时间段。在对差异表达基因(DEGs)进行鉴定和功能分组后,基于基因集富集分析(GSE)确定并联网编码的TF基因。对每种条件下的分级调节网络进行了分配。之后,使用网络进行网络拓扑分析。结果表明,基因组活性明显倾向于对不同线索的反应;在干旱胁迫下发生能量稳态和光合作用稳定性。此外,在早期、中度和长期干旱胁迫下,分别有3787、2931和5115个基因差异表达,其中鉴定出169、140和261个TF。对每种干旱条件下构建的调控网络的分析表明,植物在很长一段时间内采用不同但有些重叠的策略来应对压力。在每个干旱期,特定或常见的信号通路都会通过多种转录因子激活。在所有已鉴定的TF中,ARR5、ARR6、ABF3、MYB29、MYB76和SIGs基因似乎是操纵植物抗逆性的良好候选基因。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
Transcriptome analysis of Arabidopsis to predict stress length-specific regulatory networks involved in drought response
Drought stress is one of the major environmental factors impairing crops productivity worldwide. Plants use various regulatory genes to reprogram genome activities to cope with such stresses. Among regulatory genes, transcription factors (TFs) function as terminal transducers and directly regulate the expression of wide spectrum of downstream genes. Multiplicity of the TF families and the complex interactions between TFs and cis-elements on the promoters of target genes as well as cross-talk between TFs in response to stress indicate the complexity of signaling networks involved in plant stress responses. This study aimed to use computational and statistical approaches to analyze a microarray dataset from Arabidopsis which covering different time periods of drought stress. After identifying and functional grouping of differentially expressed gens (DEGs), genes encoded TFs were determined and networked based on gene set enrichment analysis (GSE). Hierarchical regulatory network in each condition was assigned. After that, networks were used to conduct network topology analysis. Results indicated an obvious orientation in genome activity toward response to different cues; energy homeostasis and photosynthesis stability was occurred under drought stress. Also, 3787, 2931 and 5115 genes were differentially expressed under the early, moderate and prolonged drought stress, respectively, among them, 169, 140 and 261 TF were identified. Analysis of constructed regulatory networks of each drought condition revealed that plant recruits different but somewhat overlapping strategies to cope with stress in a long period of time. In each drought period, specific or common signaling pathways are activated using several numbers of transcription factors. It seems that among all identified TFs, ARR5, ARR6, ABF3, MYB29, MYB76 and SIGs genes are good candidate to manipulate plant stress tolerance.
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来源期刊
Plant Omics
Plant Omics 生物-植物科学
CiteScore
1.30
自引率
0.00%
发文量
0
审稿时长
6 months
期刊介绍: Plant OMICS is an international, peer-reviewed publication that gathers and disseminates fundamental and applied knowledge in almost all area of molecular plant and animal biology, particularly OMICS-es including: Coverage extends to the most corners of plant and animal biology, including molecular biology, genetics, functional and non-functional molecular breeding and physiology, developmental biology, and new technologies such as vaccines. This journal also covers the combination of many areas of molecular plant and animal biology. Plant Omics is also exteremely interested in molecular aspects of stress biology in plants and animals, including molecular physiology.
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