The circadian clock plays a vital role in the health and fitness of organisms by regulating cellular activities to specific times of the day and night. The long-term goal of this proposal is to understand how circadian clocks function within eukaryotic cells. Forward genetic approaches have been instrumental to initially identify many molecular components of the circadian clock in plants and animals revealing a shared molecular architecture. Recent progress in the circadian field has been focused on the characterization of the precise molecular wiring that builds the clock circuitry which ultimately will uncover how the circadian clocks control daily rhythms in physiology, metabolism and behavior in different species. By developing a complete transcription factor (TF) collection for the model organism Arabidopsis thaliana we have recently implemented a reverse genomic strategy that allowed us refine the transcriptional circuits that build the circadian clock in plants. Based on our initial discoveries we will continue using our TF collection to determine direct regulators of clock genes and implement the discovery of new transcriptional mechanisms by TF-focused gain-of-function screens. In addition, we propose computational approaches to build a map that connects identified clock components with clock-output genes and the genome-wide identification of mechanisms for the non-transcriptional circadian regulation of mRNA and protein levels. In sum, we propose a suite of genomic approaches to expand our transcriptional discovery program and extend our discovery pipeline to the post-transcriptional and post-translational levels. Given the ubiquity and relevance of the circadian clock, the identification of common clock mechanisms will help us understand how alterations in the circadian pacemaker have such a tremendous impact on human well- being.

Public Health Relevance

Almost all organisms possess circadian clocks that control daily rhythms in physiology, metabolism and behavior. The molecular architecture of these clocks appears similar amongst all organisms. Thus the advances learned in model systems such as Arabidopsis will be broadly applicable to understanding rhythms in humans and the known pathologies associated with their dysfunction in a wide range of diseases to impact the treatment of human circadian disorders such as diabetes, SAD, insomnia and jet- lag.

Agency
National Institute of Health (NIH)
Institute
National Institute of General Medical Sciences (NIGMS)
Type
Research Project (R01)
Project #
5R01GM056006-18
Application #
8651921
Study Section
Cellular Signaling and Regulatory Systems Study Section (CSRS)
Program Officer
Sesma, Michael A
Project Start
1996-09-01
Project End
2017-03-31
Budget Start
2014-04-01
Budget End
2015-03-31
Support Year
18
Fiscal Year
2014
Total Cost
$364,135
Indirect Cost
$85,832
Name
University of Southern California
Department
Biology
Type
Schools of Arts and Sciences
DUNS #
072933393
City
Los Angeles
State
CA
Country
United States
Zip Code
90089
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Chow, Brenda Y; Sanchez, Sabrina E; Breton, Ghislain et al. (2014) Transcriptional regulation of LUX by CBF1 mediates cold input to the circadian clock in Arabidopsis. Curr Biol 24:1518-24
Kolmos, Elsebeth; Chow, Brenda Y; Pruneda-Paz, Jose L et al. (2014) HsfB2b-mediated repression of PRR7 directs abiotic stress responses of the circadian clock. Proc Natl Acad Sci U S A 111:16172-7
Endo, Motomu; Shimizu, Hanako; Nohales, Maria A et al. (2014) Tissue-specific clocks in Arabidopsis show asymmetric coupling. Nature 515:419-22
Nagel, Dawn H; Pruneda-Paz, Jose L; Kay, Steve A (2014) FBH1 affects warm temperature responses in the Arabidopsis circadian clock. Proc Natl Acad Sci U S A 111:14595-600
Guan, Peizhu; Wang, Rongchen; Nacry, Philippe et al. (2014) Nitrate foraging by Arabidopsis roots is mediated by the transcription factor TCP20 through the systemic signaling pathway. Proc Natl Acad Sci U S A 111:15267-72
Pruneda-Paz, Jose L; Breton, Ghislain; Nagel, Dawn H et al. (2014) A genome-scale resource for the functional characterization of Arabidopsis transcription factors. Cell Rep 8:622-32
Chow, Brenda Y; Kay, Steve A (2013) Global approaches for telling time: omics and the Arabidopsis circadian clock. Semin Cell Dev Biol 24:383-92
Gendron, Joshua M; Pruneda-Paz, Jose L; Doherty, Colleen J et al. (2012) Arabidopsis circadian clock protein, TOC1, is a DNA-binding transcription factor. Proc Natl Acad Sci U S A 109:3167-72
Li, Lin; Ljung, Karin; Breton, Ghislain et al. (2012) Linking photoreceptor excitation to changes in plant architecture. Genes Dev 26:785-90

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