Journal Article

High-Resolution Temporal Profiling of Transcripts during Arabidopsis Leaf Senescence Reveals a Distinct Chronology of Processes and Regulation

Jackson, Stephen, Legaie, Roxane, Mead, Andrew, Tabrett, Alexandra, Hickman, Richard, Beynon, Jim, Jenner, Carol, Denby, Katherine, Morris, Karl, McHattie, Stuart, Kiddle, Steven, Zhang, Cunjin, Penfold, Christopher A., Wild, David L., Moore, Jonathan D., Hughes, Linda, Breeze, Emily, Harrison, Elizabeth, Jenkins, Dafyd, Rand, David, Buchanan-Wollaston, Vicky, Hill, Claire, Kim, Youn-sung, Ott, Sascha, Thomas, Brian

2011

Overview

Leaf senescence is an essential developmental process that impacts dramatically on crop yields and involves altered regulation of thousands of genes and many metabolic and signaling pathways, resulting in major changes in the leaf. The regulation of senescence is complex, and although senescence regulatory genes have been characterized, there is little information on how these function in the global control of the process. We used microarray analysis to obtain a highresolution time-course profile of gene expression during development of a single leaf over a 3-week period to senescence. A complex experimental design approach and a combination of methods were used to extract high-quality replicated data and to identify differentially expressed genes. The multiple time points enable the use of highly informative clustering to reveal distinct time points at which signaling and metabolic pathways change. Analysis of motif enrichment, as well as comparison of transcription factor (TF) families showing altered expression over the time course, identify clear groups of TFs active at different stages of leaf development and senescence. These data enable connection of metabolic processes, signaling pathways, and specific TF activity, which will underpin the development of network models to elucidate the process of senescence.

• Publisher: American Society of Plant Biologists
• Subject: analysis / Analysis of Variance / Arabidopsis / Arabidopsis - genetics / Arabidopsis - growth & development / Arabidopsis - metabolism / Arabidopsis Proteins / Arabidopsis Proteins - analysis / Arabidopsis Proteins - genetics / biochemical pathways / Biosynthesis / Cellular senescence / Chlorophyll / Chlorophyll - analysis / Chlorophylls / Cluster Analysis / Crop yield / Datasets / developmental stages / Experimental design / gene expression / Gene Expression Profiling / Gene expression regulation / Gene Expression Regulation, Plant / Genes / genetics / growth & development / Hormones / Large-Scale Biology / LARGE-SCALE BIOLOGY ARTICLES / leaf development / leaves / metabolism / methods / Microarray Analysis / Microarray Analysis - methods / Models, Biological / Multigene Family / Plant cells / Plant Growth Regulators / Plant Growth Regulators - analysis / Plant Leaves / Plant Leaves - genetics / Plant Leaves - growth & development / Plant Leaves - metabolism / Plants / process control / Promoter Regions, Genetic / regulator genes / RNA, Plant / RNA, Plant - genetics / Transcription factors / Transcription Factors - metabolism