The use of microarrays to study the anaerobic response in Arabidopsis
The use of microarrays to study the anaerobic response in Arabidopsis
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DOI：
10.1093/aob/mci218
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发表时间：
2005-09-01
期刊：
影响因子：
4.2
通讯作者：
Perata, P
中科院分区：
文献类型：
--
作者：
Gonzali, S;Loreti, E;Perata, P
背景和目的利用微阵列技术来表征拟南芥在各种实验条件下的转录谱正在迅速扩大。这项技术提供了大量的表达数据，需要生物信息学工具来提出工作假设。本研究的目的是测试这种方法的有用性，通过评估微阵列数据集的可靠性，并通过询问一组缺氧诱导基因的表达数据的微阵列数据库来检查拟南芥的厌氧反应。方法使用用户驱动的软件工具，显示大的基因表达数据集的代谢途径的图表。Genevestigator软件被用来探索在拟南芥的整个生命周期以及相对于植物器官的缺氧诱导基因的表达。在拟南芥插入数据库中搜索从我们的微阵列分析中鉴定的所选基因的T-DNA标记的突变体，结果表明，基因芯片数据可以为植物对厌氧反应领域的新假说提供依据，也为拟南芥突变体的靶向筛选提供知识。结论植物对厌氧反应的研究可以从微阵列技术中获益匪浅。
Background and Aims The use of microarrays to characterize the transcript profile of Arabidopsis under various experimental conditions is rapidly expanding. This technique provides a huge amount of expression data, requiring bioinformatics tools to allow the proposal of working hypotheses. The aim of this study was to test the usefulness of this approach to examine the anaerobic response of Arabidopsis by evaluating the reliability of microarray data sets and by interrogation of microarray databases for the expression data of a set of anoxia-inducible genes.Methods User-driven software tools that display large gene expression datasets onto diagrams of metabolic pathways were used. The Genevestigator software was used to explore the expression of anoxia-inducible genes throughout the life cycle of Arabidopsis as well as relative to plant organs. T-DNA tagged mutants for selected genes identified from our microarray analysis were searched in the Arabidopsis thaliana Insertion Database, looking for insertional mutants from the Salk collection.Key Results The results indicate that microarray data can provide the basis for new hypotheses in the field of plant responses to anaerobiosis and also provide knowledge for a targeted screening of Arabidopsis mutants.Conclusions Research on plant responses to anaerobiosis can enormously benefit from the microarray technology.