Multi-level Modulation of Light Signaling by GIGANTEA Regulates Both the Output and Pace of the Circadian Clock.

[1]  D. Alabadí,et al.  Circadian Waves of Transcriptional Repression Shape PIF-Regulated Photoperiod-Responsive Growth in Arabidopsis , 2018, Current Biology.

[2]  Yong Ding,et al.  MLK1 and MLK2 Coordinate RGA and CCA1 Activity to Regulate Hypocotyl Elongation in Arabidopsis thaliana[OPEN] , 2017, Plant Cell.

[3]  A. Burlingame,et al.  PPKs mediate direct signal transfer from phytochrome photoreceptors to transcription factor PIF3 , 2017, Nature Communications.

[4]  S. Prat,et al.  Perception and signalling of light and temperature cues in plants , 2017, The Plant journal : for cell and molecular biology.

[5]  E. Huq,et al.  PHYTOCHROME INTERACTING FACTORS mediate metabolic control of the circadian system in Arabidopsis. , 2017, The New phytologist.

[6]  Lei Wang,et al.  GIGANTEA is a co-chaperone which facilitates maturation of ZEITLUPE in the Arabidopsis circadian clock , 2017, Nature Communications.

[7]  Eunkyoo Oh,et al.  TOC1–PIF4 interaction mediates the circadian gating of thermoresponsive growth in Arabidopsis , 2016, Nature Communications.

[8]  S. Kay,et al.  Molecular mechanisms at the core of the plant circadian oscillator , 2016, Nature Structural &Molecular Biology.

[9]  S. Kay,et al.  The Plant Circadian Clock: From a Simple Timekeeper to a Complex Developmental Manager. , 2016, Cold Spring Harbor perspectives in biology.

[10]  X. Deng,et al.  DELLA-mediated PIF degradation contributes to coordination of light and gibberellin signalling in Arabidopsis , 2016, Nature Communications.

[11]  A. Millar.  The Intracellular Dynamics of Circadian Clocks Reach for the Light of Ecology and Evolution. , 2016, Annual review of plant biology.

[12]  P. Quail,et al.  Molecular convergence of clock and photosensory pathways through PIF3–TOC1 interaction and co-occupancy of target promoters , 2016, Proceedings of the National Academy of Sciences.

[13]  T. Kinoshita,et al.  Direct Repression of Evening Genes by CIRCADIAN CLOCK-ASSOCIATED1 in the Arabidopsis Circadian Clock[OPEN] , 2016, Plant Cell.

[14]  J. Ecker,et al.  Cryptochromes Interact Directly with PIFs to Control Plant Growth in Limiting Blue Light , 2016, Cell.

[15]  P. Achard,et al.  A Pivotal Role of DELLAs in Regulating Multiple Hormone Signals. , 2016, Molecular plant.

[16]  Ling Zhu,et al.  Illuminating Progress in Phytochrome-Mediated Light Signaling Pathways. , 2015, Trends in plant science.

[17]  Kathleen Greenham,et al.  Integrating circadian dynamics with physiological processes in plants , 2015, Nature Reviews Genetics.

[18]  G. Dubin,et al.  A systematic investigation of the stability of green fluorescent protein fusion proteins. , 2015, Acta biochimica Polonica.

[19]  G. Coupland,et al.  The GI–CDF module of Arabidopsis affects freezing tolerance and growth as well as flowering , 2015, The Plant journal : for cell and molecular biology.

[20]  Priyanka Mishra,et al.  GIGANTEA – an emerging story , 2015, Front. Plant Sci..

[21]  Salomé Prat,et al.  ELF3-PIF4 Interaction Regulates Plant Growth Independently of the Evening Complex , 2015, Current Biology.

[22]  G. Coupland,et al.  Natural diversity in daily rhythms of gene expression contributes to phenotypic variation , 2014, Proceedings of the National Academy of Sciences.

[23]  H. Nam,et al.  How do phytochromes transmit the light quality information to the circadian clock in Arabidopsis? , 2014, Molecular plant.

[24]  Qian Liu,et al.  Shedding light on integrative GA signaling. , 2014, Current opinion in plant biology.

[25]  K. Nordström,et al.  Evening Expression of Arabidopsis GIGANTEA Is Controlled by Combinatorial Interactions among Evolutionarily Conserved Regulatory Motifs[C][W][OPEN] , 2014, Plant Cell.

[26]  Dawn H. Nagel,et al.  A genome-scale resource for the functional characterization of Arabidopsis transcription factors. , 2014, Cell reports.

[27]  K. Halliday,et al.  The HY5-PIF Regulatory Module Coordinates Light and Temperature Control of Photosynthetic Gene Transcription , 2014, PLoS genetics.

[28]  Andrew J. Millar,et al.  Strengths and Limitations of Period Estimation Methods for Circadian Data , 2014, PloS one.

[29]  Eric Nestler,et al.  ngs.plot: Quick mining and visualization of next-generation sequencing data by integrating genomic databases , 2014, BMC Genomics.

[30]  A. Millar,et al.  Online period estimation and determination of rhythmicity in circadian data, using the BioDare data infrastructure. , 2014, Methods in molecular biology.

[31]  Christopher J. Hale,et al.  SRA/SET domain-containing proteins link RNA polymerase V occupancy to DNA methylation , 2014, Nature.

[32]  P. Leivar,et al.  PIFs: Systems Integrators in Plant Development[W] , 2014, Plant Cell.

[33]  S. Guan,et al.  Multisite Light-Induced Phosphorylation of the Transcription Factor PIF3 Is Necessary for Both Its Rapid Degradation and Concomitant Negative Feedback Modulation of Photoreceptor phyB Levels in Arabidopsis[C][W] , 2013, Plant Cell.

[34]  J. Yates,et al.  Tyrosine phosphorylation regulates the activity of phytochrome photoreceptors. , 2013, Cell reports.

[35]  D. E. Somers,et al.  ELF4 regulates GIGANTEA chromatin access through subnuclear sequestration. , 2013, Cell reports.

[36]  H. Bohnert,et al.  Release of SOS2 kinase from sequestration with GIGANTEA determines salt tolerance in Arabidopsis , 2013, Nature Communications.

[37]  T. Speed,et al.  A Quartet of PIF bHLH Factors Provides a Transcriptionally Centered Signaling Hub That Regulates Seedling Morphogenesis through Differential Expression-Patterning of Shared Target Genes in Arabidopsis , 2013, PLoS genetics.

[38]  P. Quail,et al.  Phytochrome-imposed oscillations in PIF3 protein abundance regulate hypocotyl growth under diurnal light/dark conditions in Arabidopsis. , 2012, The Plant journal : for cell and molecular biology.

[39]  Eunkyoo Oh,et al.  Interaction between BZR1 and PIF4 integrates brassinosteroid and environmental responses , 2012, Nature Cell Biology.

[40]  Kevin W Eliceiri,et al.  NIH Image to ImageJ: 25 years of image analysis , 2012, Nature Methods.

[41]  D. Hwang,et al.  GIGANTEA and EARLY FLOWERING 4 in Arabidopsis exhibit differential phase-specific genetic influences over a diurnal cycle. , 2012, Molecular plant.

[42]  Steve A. Kay,et al.  The ELF4-ELF3-LUX Complex Links the Circadian Clock to Diurnal Control of Hypocotyl Growth , 2011, Nature.

[43]  Mariko Sawa,et al.  GIGANTEA directly activates Flowering Locus T in Arabidopsis thaliana , 2011, Proceedings of the National Academy of Sciences.

[44]  C. Glass,et al.  Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities. , 2010, Molecular cell.

[45]  Rebecca A. Ayers,et al.  Structure and function of plant photoreceptors. , 2010, Annual review of plant biology.

[46]  Olivier Michielin,et al.  Inhibition of the shade avoidance response by formation of non‐DNA binding bHLH heterodimers , 2009, The EMBO journal.

[47]  Hadley Wickham,et al.  ggplot2 - Elegant Graphics for Data Analysis (2nd Edition) , 2017 .

[48]  Ghislain Breton,et al.  A Functional Genomics Approach Reveals CHE as a Component of the Arabidopsis Circadian Clock , 2009, Science.

[49]  Cole Trapnell,et al.  Ultrafast and memory-efficient alignment of short DNA sequences to the human genome , 2009, Genome Biology.

[50]  E. Huq,et al.  Multiple Phytochrome-Interacting bHLH Transcription Factors Repress Premature Seedling Photomorphogenesis in Darkness , 2008, Current Biology.

[51]  Clifford A. Meyer,et al.  Model-based Analysis of ChIP-Seq (MACS) , 2008, Genome Biology.

[52]  Michael F. Covington,et al.  Global transcriptome analysis reveals circadian regulation of key pathways in plant growth and development , 2008, Genome Biology.

[53]  Ling Zhu,et al.  Light-Induced Phosphorylation and Degradation of the Negative Regulator PHYTOCHROME-INTERACTING FACTOR1 from Arabidopsis Depend upon Its Direct Physical Interactions with Photoactivated Phytochromes[W] , 2008, The Plant Cell Online.

[54]  C. Fankhauser,et al.  A molecular framework for light and gibberellin control of cell elongation , 2008, Nature.

[55]  X. Deng,et al.  Coordinated regulation of Arabidopsis thaliana development by light and gibberellins , 2008, Nature.

[56]  Hui Shen,et al.  Phytochrome Interacting Factors: central players in phytochrome-mediated light signaling networks. , 2007, Trends in plant science.

[57]  C. Fankhauser,et al.  Phytochrome-mediated inhibition of shade avoidance involves degradation of growth-promoting bHLH transcription factors. , 2007, The Plant journal : for cell and molecular biology.

[58]  Dmitri A. Nusinow,et al.  FKF1 and GIGANTEA Complex Formation Is Required for Day-Length Measurement in Arabidopsis , 2007, Science.

[59]  Karine David,et al.  ZEITLUPE is a circadian photoreceptor stabilized by GIGANTEA in blue light. , 2007, Nature.

[60]  Stacey L. Harmer,et al.  Rhythmic growth explained by coincidence between internal and external cues , 2007, Nature.

[61]  M. Yanovsky,et al.  GIGANTEA Regulates Phytochrome A-Mediated Photomorphogenesis Independently of Its Role in the Circadian Clock1[W][OA] , 2007, Plant Physiology.

[62]  L. Kozma-Bognár,et al.  Experimental validation of a predicted feedback loop in the multi-oscillator clock of Arabidopsis thaliana , 2006, Molecular systems biology.

[63]  S. Harmer,et al.  GIGANTEA Acts in Blue Light Signaling and Has Biochemically Separable Roles in Circadian Clock and Flowering Time Regulation1[C][W][OA] , 2006, Plant Physiology.

[64]  Anthony Hall,et al.  The Molecular Basis of Temperature Compensation in the Arabidopsis Circadian Clock[W] , 2006, The Plant Cell Online.

[65]  K. David,et al.  Arabidopsis GIGANTEA protein is post‐transcriptionally regulated by light and dark , 2006, FEBS letters.

[66]  C. Pikaard,et al.  Gateway-compatible vectors for plant functional genomics and proteomics. , 2006, The Plant journal : for cell and molecular biology.

[67]  R. Hellens,et al.  Transient expression vectors for functional genomics, quantification of promoter activity and RNA silencing in plants , 2005, Plant Methods.

[68]  Shaotong Jiang,et al.  Involvement of GIGANTEA gene in the regulation of the cold stress response in Arabidopsis , 2005, Plant Cell Reports.

[69]  E. Schäfer,et al.  Functional characterization of phytochrome interacting factor 3 for the Arabidopsis thaliana circadian clockwork. , 2005, Plant & cell physiology.

[70]  G. Coupland,et al.  Distinct Roles of GIGANTEA in Promoting Flowering and Regulating Circadian Rhythms in Arabidopsis , 2005, The Plant Cell Online.

[71]  C Robertson McClung,et al.  PSEUDO-RESPONSE REGULATOR 7 and 9 Are Partially Redundant Genes Essential for the Temperature Responsiveness of the Arabidopsis Circadian Clock , 2005, The Plant Cell Online.

[72]  T. Mizuno,et al.  Circadian-controlled basic/helix-loop-helix factor, PIL6, implicated in light-signal transduction in Arabidopsis thaliana. , 2004, Plant & cell physiology.

[73]  G. Choi,et al.  Functional Characterization of Phytochrome Interacting Factor 3 in Phytochrome-Mediated Light Signal Transduction Article, publication date, and citation information can be found at www.plantcell.org/cgi/doi/10.1105/tpc.014498. , 2003, The Plant Cell Online.

[74]  M. Campbell,et al.  PANTHER: a library of protein families and subfamilies indexed by function. , 2003, Genome research.

[75]  E. Huq,et al.  PIF4, a phytochrome‐interacting bHLH factor, functions as a negative regulator of phytochrome B signaling in Arabidopsis , 2002, The EMBO journal.

[76]  Tsuyoshi Mizoguchi,et al.  LHY and CCA1 are partially redundant genes required to maintain circadian rhythms in Arabidopsis. , 2002, Developmental cell.

[77]  Steve A. Kay,et al.  Reciprocal Regulation Between TOC1 and LHY/CCA1 Within the Arabidopsis Circadian Clock , 2001, Science.

[78]  Hitoshi Onouchi,et al.  CONSTANS mediates between the circadian clock and the control of flowering in Arabidopsis , 2001, Nature.

[79]  S. Kay,et al.  Orchestrated transcription of key pathways in Arabidopsis by the circadian clock. , 2000, Science.

[80]  E. Huq,et al.  GIGANTEA is a nuclear protein involved in phytochrome signaling in Arabidopsis. , 2000, Proceedings of the National Academy of Sciences of the United States of America.

[81]  E. Huq,et al.  Direct targeting of light signals to a promoter element-bound transcription factor. , 2000, Science.

[82]  D. E. Somers,et al.  Control of circadian rhythms and photoperiodic flowering by the Arabidopsis GIGANTEA gene. , 1999, Science.

[83]  G. Coupland,et al.  GIGANTEA: a circadian clock‐controlled gene that regulates photoperiodic flowering in Arabidopsis and encodes a protein with several possible membrane‐spanning domains , 1999, The EMBO journal.

[84]  R Core Team,et al.  R: A language and environment for statistical computing. , 2014 .

[85]  P. Quail,et al.  PIFs: pivotal components in a cellular signaling hub. , 2011, Trends in plant science.

[86]  Connor W. McEntee,et al.  The DIURNAL project: DIURNAL and circadian expression profiling, model-based pattern matching, and promoter analysis. , 2007, Cold Spring Harbor symposia on quantitative biology.