ArticleFrontiers in plant science2013
Mathematical modeling of an oscillating gene circuit to unravel the circadian clock network of Arabidopsis thaliana.
Article in Frontiers in plant science, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
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Who cites it
25 citing papers in PubMed.
- Integrated circadian regulation in horticultural plants: light-environment mechanisms governing growth and development.Horticulture research · 2026Article
- Abundant clock proteins point to missing molecular regulation in the plant circadian clock.Molecular systems biology · 2025Article
- Article
- Universality in kinetic models of circadian rhythms inJournal of mathematical biology · 2021Article
- Early Detection of Daylengths with a Feedforward Circuit Coregulated by Circadian and Diurnal Cycles.Biophysical journal · 2020Article
- An Optimal Time for Treatment-Predicting Circadian Time by Machine Learning and Mathematical Modelling.Cancers · 2020Review
- Gene Regulatory Network Inference: Connecting Plant Biology and Mathematical Modeling.Frontiers in genetics · 2020Review
- Chemical Perturbation of Chloroplast-Related Processes Affects Circadian Rhythms of Gene Expression inFrontiers in physiology · 2020Article
- The ELF3-PIF7 Interaction Mediates the Circadian Gating of the Shade Response in Arabidopsis.iScience · 2019Article
- Heat the Clock: Entrainment and Compensation inJournal of circadian rhythms · 2019Article
- Article
- Measuring Phytochrome-Dependent Light Input to the Plant Circadian Clock.Methods in molecular biology (Clifton, N.J.) · 2019Article
- HSP90 Contributes to Entrainment of theGenetics · 2018Article
- AKIN10 activity as a cellular link between metabolism and circadian-clock entrainment in Arabidopsis thaliana.Plant signaling & behavior · 2018Article
- Making the clock tick: the transcriptional landscape of the plant circadian clock.F1000Research · 2017Review
- A matter of time - How transient transcription factor interactions create dynamic gene regulatory networks.Biochimica et biophysica acta. Gene regulatory mechanisms · 2017Review
- Comparative Transcriptomic Analysis Reveals Novel Insights into the Adaptive Response ofFrontiers in microbiology · 2016Article
- Modulation of copper deficiency responses by diurnal and circadian rhythms in Arabidopsis thaliana.Journal of experimental botany · 2016Article
- Defining the robust behaviour of the plant clock gene circuit with absolute RNA timeseries and open infrastructure.Open biology · 2015Article
- Light and circadian regulation of clock components aids flexible responses to environmental signals.The New phytologist · 2014Article
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2 authors.
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No grant is acknowledged in the PubMed record.
Abstract
The Arabidopsis thaliana circadian clock is an interconnected network highly tractable to systems approaches. Most elements in the transcriptional-translational oscillator were identified by genetic means and the expression of clock genes in various mutants led to the founding hypothesis of a positive-negative feedback loop being the core clock. The identification of additional clock genes beyond those defined in the core led to the use of systems approaches to decipher this angiosperm oscillator circuit. Kinetic modeling was first used to explain periodicity effects of various circadian mutants. This conformed in a flexible way to experimental details. Such observations allowed a recursive use of hypothesis generating from modeling, followed by experimental corroboration. More recently, the biochemical finding of new description of a DNA-binding activity for one class of clock components directed improvements in feature generation, one of which revealed that the core of the oscillator is a negative-negative feedback loop. The recursive use of modeling and experimental validation has thus revealed many essential transcriptional components that drive negative arms in the circadian oscillator. What awaits is to more fully describe the positive arms and an understanding of how additional pathways converge on the clock.
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