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ineation of condition specific C/s- and Trans-acting elements in plant promoters under various Endo- and exogenous stimuli

机译：在各种内源和外源刺激下植入植物启动子中的条件特异性C / S和反式作用元件

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Background: Transcription factors (TFs) play essential roles during plant development and response to environmental stresses. However, the relationships among transcription factors, c/s-acting elements and target gene expression under endo- and exogenousstimuli have not been systematically characterized.Results: Here, we developed a series of bioinformatics analysis methods to infer transcriptional regulation by using numerous gene expression data from abiotic stresses and hormones treatments. After filtering the expression profiles of TF-encoding genes, 291 condition specific transcription factors (CsTFs) were obtained. Differentially expressed genes were then classified into various co-expressed gene groups based on each CsTFs. In the case studies of heat stress and ABA treatment, several known and novel c/s-acting elements were identified following our bioinformatics approach. Significantly, a palindromic sequence of heat-responsive elements is recognized, and also obtaine'd from a 3D protein structure of heat-shock protein-DNA complex. Notably, overrepresented 3- and 4-mer motifs in an enriched 8-mer motif could be a core ds-element for a CsTF. In addition, the results suggest DNA binding preferences of the same CsTFs are different according to various conditions.Conclusions: The overall results illustrate this study may be useful in identifying condition specific c/'s- and tran's-regulatory elements and facilitate our understanding of the relationships among TFs, c/s-acting elements and target gene expression.
机译：背景：转录因子（TFS）在植物开发期间起着基本作用和对环境压力的反应。然而，转录因子，C / S作用元件和靶基因表达下的关系尚未系统地表征了以下情况：在此，我们开发了一系列生物信息学分析方法，通过使用许多基因表达来推断转录调控来自非生物应激和激素治疗的数据。过滤TF编码基因的表达谱后，获得291个病症特异性转录因子（CSTF）。然后将差异表达基因分为基于每个CSTF的各种共表达基因组。在对热应激和ABA处理的情况下，遵循我们的生物信息学方法后鉴定了几种已知的和新的C / S作用元件。显着地，识别出热响应元件的回文序列，也可以从热休克蛋白-DNA复合物的3D蛋白质结构中获得。值得注意的是，富集的8-MER主题中的超人级3和4-MER主题可以是CSTF的核心DS元素。此外，结果表明，根据各种条件，同一CSTF的DNA结合偏好是不同的。结论：整体结果说明该研究可用于识别特定条件的C /'S-和TRAN的监管元素，并促进我们对其的理解TFS，C / S作用元素与靶基因表达的关系。

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