Transcriptional regulation of plant senescence: from functional genomics to systems biology

Breeze, Emily; Harrison, Elizabeth; Page, Tania; Warner, Nikita; Shen, Chia–Rui; Zhang, Cunjin; Buchanan‐Wollaston, Vicky

doi:10.1111/j.1438-8677.2008.00076.x

Cited by 23 publications

(20 citation statements)

References 36 publications

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“…In this analysis, we identified differentially expressed TFs mainly from the NAC, MYB, AP2-EREBP, HB and bZIP families ( Figure 5). Members of these TF families have been widely studied and reported as candidate genes activating the leaf senescence programme in different species (Balazadeh et al, 2008;Breeze et al, 2008). Genes with high sequence similarity to ANAC055, ANAC019 and ANAC029 from A. thaliana were highly expressed during sunflower senescence (AT3G15500, AT1G52890 and AT1G69490, respectively) (Table S3).…”

Section: Discussionmentioning

confidence: 99%

Integrating transcriptomic and metabolomic analysis to understand natural leaf senescence in sunflower

Moschen

Luoni

Rienzo

et al. 2015

Plant Biotechnology Journal

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SummaryLeaf senescence is a complex process, which has dramatic consequences on crop yield. In sunflower, gap between potential and actual yields reveals the economic impact of senescence. Indeed, sunflower plants are incapable of maintaining their green leaf area over sustained periods. This study characterizes the leaf senescence process in sunflower through a systems biology approach integrating transcriptomic and metabolomic analyses: plants being grown under both glasshouse and field conditions. Our results revealed a correspondence between profile changes detected at the molecular, biochemical and physiological level throughout the progression of leaf senescence measured at different plant developmental stages. Early metabolic changes were detected prior to anthesis and before the onset of the first senescence symptoms, with more pronounced changes observed when physiological and molecular variables were assessed under field conditions. During leaf development, photosynthetic activity and cell growth processes decreased, whereas sucrose, fatty acid, nucleotide and amino acid metabolisms increased. Pathways related to nutrient recycling processes were also up-regulated. Members of the NAC, AP2-EREBP, HB, bZIP and MYB transcription factor families showed high expression levels, and their expression level was highly correlated, suggesting their involvement in sunflower senescence. The results of this study thus contribute to the elucidation of the molecular mechanisms involved in the onset and progression of leaf senescence in sunflower leaves as well as to the identification of candidate genes involved in this process.

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Section: Discussionmentioning

confidence: 99%

Integrating transcriptomic and metabolomic analysis to understand natural leaf senescence in sunflower

Moschen

Luoni

Rienzo

et al. 2015

Plant Biotechnology Journal

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“…Other biochemical, cellular, integrative and adaptive systems became accreted on this armature as the evolving plant encountered new environmental and developmental contexts. Current systems biology approaches [ 184 ] are leading towards the idea of senescence as a complex of reticulated gene interactions with nodes and hubs and away from the older conception of a master switch from which subsequent events propagated [ 5 ]. The evolutionary perspective is entirely consistent with such a system network model of plant senescence and its control.…”

Section: Discussionmentioning

confidence: 99%

Evolution of plant senescence

et al. 2009

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Background: Senescence is integral to the flowering plant life-cycle. Senescence-like processes occur also in non-angiosperm land plants, algae and photosynthetic prokaryotes. Increasing numbers of genes have been assigned functions in the regulation and execution of angiosperm senescence. At the same time there has been a large expansion in the number and taxonomic spread of plant sequences in the genome databases. The present paper uses these resources to make a study of the evolutionary origins of angiosperm senescence based on a survey of the distribution, across plant and microbial taxa, and expression of senescence-related genes.

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“…Regulation by ANAC092 of several other TFs known to be stress related is also predicted in this network model. ANAC019, ANAC055, and RD26 (ANAC072) have all been shown to have a role in drought stress ; MYB2 has a role in ABA signaling and salt stress (Abe et al, 2003;Yoo et al, 2005), and PMZ, a zinc finger protein, has a role in stress-induced senescence (Breeze et al, 2008). The gene regulatory network model also predicts feedback and feed-forward connections between ANAC092, STZ, and TBP1-1, which encodes a telomere binding protein.…”

Section: Microarray Data Analysis Tools Used To Develop and Test Hypomentioning

confidence: 99%

“…Arabidopsis thaliana plants were grown as described in Breeze et al (2008). Leaf 7 was tagged with thread 18 DAS.…”

Section: Plant Growthmentioning

confidence: 99%

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

et al. 2011

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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.

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Transcriptional regulation of plant senescence: from functional genomics to systems biology

Cited by 23 publications

References 36 publications

Integrating transcriptomic and metabolomic analysis to understand natural leaf senescence in sunflower

Integrating transcriptomic and metabolomic analysis to understand natural leaf senescence in sunflower

Evolution of plant senescence

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

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