Gonzali Silvia, Loreti Elena, Novi Giacomo, Poggi Alessandra, Alpi Amedeo, Perata Pierdomenico
Department of Crop Plant Biology, University of Pisa, Via Mariscoglio 34, 56124 Pisa, Italy.
Ann Bot. 2005 Sep;96(4):661-8. doi: 10.1093/aob/mci218. Epub 2005 Jul 20.
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.
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.
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.
Research on plant responses to anaerobiosis can enormously benefit from the microarray technology.
利用微阵列技术来描绘拟南芥在各种实验条件下的转录图谱的应用正在迅速扩展。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可行的假设。本研究的目的是通过评估微阵列数据集的可靠性以及查询微阵列数据库中一组缺氧诱导基因的表达数据，来检验这种方法用于研究拟南芥厌氧反应的有效性。
使用了用户驱动的软件工具，这些工具可将大型基因表达数据集展示在代谢途径图上。利用Genevestigator软件来探究缺氧诱导基因在拟南芥整个生命周期以及相对于植物器官的表达情况。在拟南芥插入数据库中搜索从我们的微阵列分析中鉴定出的选定基因的T-DNA标签突变体，寻找来自Salk文库的插入突变体。
结果表明，微阵列数据可为植物厌氧反应领域的新假设提供基础，也为有针对性地筛选拟南芥突变体提供知识。
植物厌氧反应的研究可从微阵列技术中极大受益。
