Department of Botany and Plant Sciences, University of California, Riverside, CA 92521, USA.
New Phytol. 2011 Apr;190(2):457-71. doi: 10.1111/j.1469-8137.2010.03590.x. Epub 2011 Jan 13.
• A detailed description of the molecular response of Arabidopsis thaliana to submergence can aid the identification of genes that are critical to flooding survival. • Rosette-stage plants were fully submerged in complete darkness and shoot and root tissue was harvested separately after the O(2) partial pressure of the petiole and root had stabilized at c. 6 and 0.1 kPa, respectively. As controls, plants were untreated or exposed to darkness. Following quantitative profiling of cellular mRNAs with the Affymetrix ATH1 platform, changes in the transcriptome in response to submergence, early darkness, and O(2)-deprivation were evaluated by fuzzy k-means clustering. This identified genes co-regulated at the conditional, developmental or organ-specific level. Mutants for 10 differentially expressed HYPOXIA-RESPONSIVE UNKNOWN PROTEIN (HUP) genes were screened for altered submergence tolerance. • The analysis identified 34 genes that were ubiquitously co-regulated by submergence and O(2) deprivation. The biological functions of these include signaling, transcription, and anaerobic energy metabolism. HUPs comprised 40% of the co-regulated transcripts and mutants of seven of these genes were significantly altered in submergence tolerance. • The results define transcriptomic adjustments in response to submergence in the dark and demonstrate that the manipulation of HUPs can alter submergence tolerance.
• 详细描述拟南芥对淹水的分子反应有助于鉴定对洪水生存至关重要的基因。 • 将莲座期植物完全淹没在完全黑暗中，并在叶柄和根的 O(2)分压分别稳定在约 6 和 0.1 kPa 后，分别收获茎和根组织。作为对照，植物未经处理或暴露于黑暗中。在用 Affymetrix ATH1 平台对细胞 mRNA 进行定量分析后，通过模糊 k-均值聚类评估了淹水、早期黑暗和 O(2)剥夺对转录组的影响。这确定了在条件、发育或器官特异性水平上共同调控的基因。筛选了 10 个差异表达的 HYPOXIA-RESPONSIVE UNKNOWN PROTEIN (HUP) 基因的突变体，以研究其对淹水耐受性的影响。 • 分析鉴定了 34 个普遍受淹水和 O(2)剥夺共同调控的基因。这些基因的生物学功能包括信号转导、转录和无氧能量代谢。HUP 占共同调控转录物的 40%，其中 7 个基因的突变体在淹水耐受性方面有明显改变。 • 结果定义了黑暗中淹水的转录组调整，并证明了 HUP 的操纵可以改变淹水耐受性。
