ArticleGenome biology2008
Global transcriptome analysis reveals circadian regulation of key pathways in plant growth and development.
Article in Genome biology, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 393 papers.
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Who cites it
393 citing papers in PubMed, 761 citations in OpenAlex.
- The Core Circadian Clock GenePlants (Basel, Switzerland) · 2026Article
- SPIRAL: A versatile online single time-point circadian analysis platform for rice.Science advances · 2026Article
- Unveiling previously undescribed circadian clock regulators and action mechanisms via TurboID-based profiling of the LWD1 interactome inProceedings of the National Academy of Sciences of the United States of America · 2026Article
- Genome-Wide Characterization of theBiology · 2026Article
- The Circadian Oscillator Affects Both Glutathione Homeostasis and Its Response to Salt Stress in Arabidopsis thaliana.Plant, cell & environment · 2026Article
- Vernalisation-induced changes to the Arabidopsis circadian clock require Polycomb Repressive Complex 2 and are FLC-independent.Plant & cell physiology · 2026Article
- XAP5 CIRCADIAN TIMEKEEPER coordinates circadian rhythms and anthocyanin biosynthesis independently of splicing.Plant physiology · 2026Article
- Integrated circadian regulation in horticultural plants: light-environment mechanisms governing growth and development.Horticulture research · 2026Article
- Allele frequency and gene expression differences under key winter stresses in temporal populations of two timothy cultivars.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Fine scale gene expression dynamics at the foliar level reveal grapevine strategies to cope with recurrent drought stress.BMC plant biology · 2026Article
- Effects of continuous light and skeleton photoperiods on photosynthesis and circadian rhythm in celery.Biotechnology letters · 2026Article
- Time after time: a quarter century of progress in plant circadian biology.Npj biological timing and sleep · 2026Review
- The core clock transcription factor TOC1 binds directly to defence gene promoters regulating immunity in Arabidopsis.Communications biology · 2026Article
- The Dark Side of Stress Response: Night Temperature Regimes Drive Distinct Abiotic Pathways in Legumes.Plant, cell & environment · 2026Review
- Rhythmic Mechanisms Governing CAM Photosynthesis inInternational journal of molecular sciences · 2026Article
- Review
- Magnesium: An overlooked signalling ion in plant physiology and circadian regulation.Quantitative plant biology · 2026Review
- Comparative transcriptomic insights into iron deficiency response in contrasting rice varieties at the seedling stage reveal distinct response strategies and identify novel candidate genes.Frontiers in plant science · 2026Article
- Microclimate-Controlled Smart Growth Cabinets for High-Throughput Plant Phenotyping.Sensors (Basel, Switzerland) · 2025Article
- Cryptic CAM photosynthesis in Joshua tree (Yucca brevifolia, Y. jaegeriana).The New phytologist · 2025Article
333 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
5 authors at 3 institutions in 1 country.
Funding
Abstract
backgroundAs nonmotile organisms, plants must rapidly adapt to ever-changing environmental conditions, including those caused by daily light/dark cycles. One important mechanism for anticipating and preparing for such predictable changes is the circadian clock. Nearly all organisms have circadian oscillators that, when they are in phase with the Earth's rotation, provide a competitive advantage. In order to understand how circadian clocks benefit plants, it is necessary to identify the pathways and processes that are clock controlled.
resultsWe have integrated information from multiple circadian microarray experiments performed on Arabidopsis thaliana in order to better estimate the fraction of the plant transcriptome that is circadian regulated. Analyzing the promoters of clock-controlled genes, we identified circadian clock regulatory elements correlated with phase-specific transcript accumulation. We have also identified several physiological pathways enriched for clock-regulated changes in transcript abundance, suggesting they may be modulated by the circadian clock.
conclusionOur analysis suggests that transcript abundance of roughly one-third of expressed A. thaliana genes is circadian regulated. We found four promoter elements, enriched in the promoters of genes with four discrete phases, which may contribute to the time-of-day specific changes in the transcript abundance of these genes. Clock-regulated genes are over-represented among all of the classical plant hormone and multiple stress response pathways, suggesting that all of these pathways are influenced by the circadian clock. Further exploration of the links between the clock and these pathways will lead to a better understanding of how the circadian clock affects plant growth and leads to improved fitness.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.