<i>FLOWERING LOCUS C</i>Mediates Natural Variation in the High-Temperature Response of the<i>Arabidopsis</i>Circadian Clock

Edwards, Kieron D.; Anderson, Paul E.; Hall, Anthony; Salathia, Neeraj; Locke, James; Lynn, James R.; Straume, Martin; Smith, Jean A.; Millar, Andrew J.

doi:10.1105/tpc.105.038315

Cited by 285 publications

(359 citation statements)

References 52 publications

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“…In plants, leaf movements, stomata opening, hypocotyl elongation, and the expression of a large number of genes show circadian rhythms (Harmer and Kay, 2000;Edwards et al, 2006;Yakir et al, 2007;Michael et al, 2008). Although circadian clock components are divergent across the kingdoms, most organisms share a conserved mechanism of generating rhythmicity: a central oscillator based on transcriptional negative feedback loops (Dunlap, 1999).…”

mentioning

confidence: 99%

“…CCA1 and LHY bind directly to the promoter of TOC1, negatively regulating TOC1 expression, and TOC1 participates in the positive regulation of CCA1 and LHY expression through an unknown mechanism (Alabadí et al, 2001). Other genes, such as LUX ARRHYTHMO, also known as PHYTOCLOCK1, GI-GANTEA (GI), EARLY FLOWERING3 (ELF3), ELF4, TIME FOR COFFEE, and PSEUDORESPONSE REGU-LATOR3/5/7/9 (PRR3/5/7/9), have also been suggested to function in or close to the central oscillator (Doyle et al, 2002;Hazen et al, 2005;Locke et al, 2005;Nakamichi et al, 2005;Edwards et al, 2006;Gould et al, 2006;Ding et al, 2007;McWatters et al, 2007).…”

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confidence: 99%

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CIRCADIAN CLOCK ASSOCIATED1 and LATE ELONGATED HYPOCOTYL Function Synergistically in the Circadian Clock of Arabidopsis

Knowles

Andronis³

et al. 2009

Plant Physiology

179

144

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The circadian clock is an endogenous mechanism that coordinates biological processes with daily and seasonal changes in the environment. Heterodimerization of central clock components is an important way of controlling clock function in several different circadian systems. CIRCADIAN CLOCK ASSOCIATED1 (CCA1) and LATE ELONGATED HYPOCOTYL (LHY) are Myb-related proteins that function in or close to the central oscillator in Arabidopsis (Arabidopsis thaliana). Single mutants of cca1 and lhy have a phenotype of short-period rhythms. cca1 lhy double mutants show an even shorter period phenotype than the cca1 single mutant, suggesting that CCA1 and LHY are only partially functionally redundant. To determine whether CCA1 and LHY act in parallel or synergistically in the circadian clock, we examined their expression in both light-grown and etiolated seedlings. We have shown that LHY and CCA1 bind to the same region of the promoter of a Light-harvesting chlorophyll a/b protein (Lhcb, also known as CAB). CCA1 and LHY can form homodimers, and they also colocalize in the nucleus and heterodimerize in vitro and in vivo. In Arabidopsis, CCA1 and LHY physically interact in a manner independent of photoperiod. Moreover, results from gel filtration chromatography indicate that CCA1 and LHY are present in the same large complex in plants. Taken together, these results imply that CCA1 and LHY function synergistically in regulating circadian rhythms of Arabidopsis.

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confidence: 99%

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confidence: 99%

CIRCADIAN CLOCK ASSOCIATED1 and LATE ELONGATED HYPOCOTYL Function Synergistically in the Circadian Clock of Arabidopsis

Knowles

Andronis³

et al. 2009

Plant Physiology

179

144

View full text Add to dashboard Cite

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“…The first consisted of analyzing loss-of-function alleles of genes whose expression levels were oscillating. Since genes that play an important role in circadian clock control commonly show robust diurnal expression patterns, we selected candidate genes that showed a diurnal expression pattern similar to those of core oscillator genes (TOC1, LHY, CCA1, and PCL1) from publicly available microarrays (Edwards et al, 2006). The loss-of-function alleles of these genes were isolated from the Salk T-DNA library (Alonso et al, 2003) and their leaf movement phenotypes were analyzed.…”

Section: Resultsmentioning

confidence: 99%

“…The oscillator is the pacemaker that is responsible for generating self-sustained rhythmicity (Barak et al, 2000;McClung, 2008). In Arabidopsis, the central oscillator is proposed to consist of elements in multiple feedback loops (Edwards et al, 2006). The two proteins CIRCADIAN CLOCK ASSOCIATED1 (CCA1) and LATE ELONGATED HYPOCOTYL (LHY), which belong to the superfamily of MYB transcription factors, play a central role in one loop by repressing TIMING OF CAB EX-PRESSION1 (TOC1), which subsequently induces CCA1 and LHY transcription.…”

Section: Introductionmentioning

confidence: 99%

A Genetic Screen for Leaf Movement Mutants Identifies a Potential Role for AGAMOUS-LIKE 6 (AGL6) in Circadian-Clock Control

Yoo

Hong²,

Lee

et al. 2011

Molecules and Cells

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The circadian clock in plants regulates many important physiological and biological processes, including leaf movement. We have used an imaging system to genetically screen Arabidopsis seedlings for altered leaf movement with the aim of identifying a circadian clock gene. A total of 285 genes were selected from publicly available microarrays that showed an expression pattern similar to those of the Arabidopsis core oscillator genes. We subsequently isolated 42 homozygous recessive mutants and analyzed their leaf movements. We also analyzed leaf movements of activation tagging mutants that showed altered flowering time. We found that agl6-1D plants, in which AGAMOUS-LIKE 6 (AGL6) was activated by the 35S enhancer, showed a shortened period of leaf movement as well as a high level of ZEITLUPE (ZTL) expression, reduced amplitude of LATE ELONGATED HYPOCOTYL (LHY) expression, and arrhythmic TIMING OF CAB EXPRES-SION1 (TOC1)/CIRCADIAN CLOCK ASSOCIATED1 (CCA1) expression. A shortened period of leaf movement was also seen in 35S-AGL6-myc plants, although 35S-amiRAGL6 plants, transgenic plants overexpressing an artificial miRNA (amiR) targeting AGL6, showed unaltered leaf movement. The amplitude of CHLOROPHYLL A/B BINDING PROTEIN 2 (CAB2) expression, a circadian output gene, was also reduced in agl6-1D plants. Taken together, these results suggest that AGL6 plays a potential role in the regulation of the circadian clock by regulating ZTL mRNA level in Arabidopsis.

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“…Our analysis is based on four independent gene expression profiling experiments described in Mockler et al (2007), Edwards et al (2006) and Grzegorczyk et al (2008). In these studies, wild-type Col-0 seedlings of Arabidopsis thaliana were grown for 7 days under artificially controlled light-dark cycles.…”

Section: Arabidopsis Datamentioning

confidence: 99%

Dynamic Bayesian networks in molecular plant science: inferring gene regulatory networks from multiple gene expression time series

2011

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To understand the processes of growth and biomass production in plants, we ultimately need to elucidate the structure of the underlying regulatory networks at the molecular level. The advent of high-throughput postgenomic technologies has spurred substantial interest in reverse engineering these networks from data, and several techniques from machine learning and multivariate statistics have recently been proposed. The present article discusses the problem of inferring gene regulatory networks from gene expression time series, and we focus our exposition on the methodology of Bayesian networks. We describe dynamic Bayesian networks and explain their advantages over other statistical methods. We introduce a novel information sharing scheme, which allows us to infer gene regulatory networks from multiple sources of gene expression data more accurately. We illustrate and test this method on a set of synthetic data, using three different measures to quantify the network reconstruction accuracy. The main application of our method is related to the problem of circadian regulation in plants, where we aim to reconstruct the regulatory networks of nine circadian genes

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FLOWERING LOCUS CMediates Natural Variation in the High-Temperature Response of theArabidopsisCircadian Clock

Cited by 285 publications

References 52 publications

CIRCADIAN CLOCK ASSOCIATED1 and LATE ELONGATED HYPOCOTYL Function Synergistically in the Circadian Clock of Arabidopsis

CIRCADIAN CLOCK ASSOCIATED1 and LATE ELONGATED HYPOCOTYL Function Synergistically in the Circadian Clock of Arabidopsis

A Genetic Screen for Leaf Movement Mutants Identifies a Potential Role for AGAMOUS-LIKE 6 (AGL6) in Circadian-Clock Control

Dynamic Bayesian networks in molecular plant science: inferring gene regulatory networks from multiple gene expression time series

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