Xiang Daoquan, Venglat Prakash, Tibiche Chabane, Yang Hui, Risseeuw Eddy, Cao Yongguo, Babic Vivijan, Cloutier Mathieu, Keller Wilf, Wang Edwin, Selvaraj Gopalan, Datla Raju
Plant Biotechnology Institute, National Research Council, Saskatoon, Saskatchewan, Canada S7N 0W9.
Plant Physiol. 2011 May;156(1):346-56. doi: 10.1104/pp.110.171702. Epub 2011 Mar 14.
Embryogenesis is central to the life cycle of most plant species. Despite its importance, because of the difficulty associated with embryo isolation, global gene expression programs involved in plant embryogenesis, especially the early events following fertilization, are largely unknown. To address this gap, we have developed methods to isolate whole live Arabidopsis (Arabidopsis thaliana) embryos as young as zygote and performed genome-wide profiling of gene expression. These studies revealed insights into patterns of gene expression relating to: maternal and paternal contributions to zygote development, chromosomal level clustering of temporal expression in embryogenesis, and embryo-specific functions. Functional analysis of some of the modulated transcription factor encoding genes from our data sets confirmed that they are critical for embryogenesis. Furthermore, we constructed stage-specific metabolic networks mapped with differentially regulated genes by combining the microarray data with the available Kyoto Encyclopedia of Genes and Genomes metabolic data sets. Comparative analysis of these networks revealed the network-associated structural and topological features, pathway interactions, and gene expression with reference to the metabolic activities during embryogenesis. Together, these studies have generated comprehensive gene expression data sets for embryo development in Arabidopsis and may serve as an important foundational resource for other seed plants.
胚胎发生是大多数植物物种生命周期的核心。尽管其很重要，但由于胚胎分离存在困难，参与植物胚胎发生的全球基因表达程序，尤其是受精后的早期事件，在很大程度上仍不为人知。为了填补这一空白，我们开发了方法来分离如合子一样年幼的完整活拟南芥胚胎，并对基因表达进行全基因组分析。这些研究揭示了与以下方面相关的基因表达模式：合子发育中母本和父本的贡献、胚胎发生中时间表达的染色体水平聚类以及胚胎特异性功能。对我们数据集中一些受调控的转录因子编码基因的功能分析证实，它们对胚胎发生至关重要。此外，通过将微阵列数据与可用的京都基因与基因组百科全书代谢数据集相结合，我们构建了用差异调控基因绘制的阶段特异性代谢网络。这些网络的比较分析揭示了与胚胎发生期间代谢活动相关的网络相关结构和拓扑特征、途径相互作用以及基因表达。总之，这些研究为拟南芥胚胎发育生成了全面的基因表达数据集，并可能作为其他种子植物的重要基础资源。
