Pokhilko2012_CircClock_RepressilatorFeedbackloop

Model Identifier
BIOMD0000000412
Short description

This model is from the article:
The clock gene circuit in Arabidopsis includes a repressilator with additional feedback loops
Pokhilko A, Fernández AP, Edwards KD, Southern MM, Halliday KJ, Millar AJ. Mol Syst Biol.2012 Mar 6;8:574. 22395476,
Abstract:
Circadian clocks synchronise biological processes with the day/night cycle, using molecular mechanisms that include interlocked, transcriptional feedback loops. Recent experiments identified the evening complex (EC) as a repressor that can be essential for gene expression rhythms in plants. Integrating the EC components in this role significantly alters our mechanistic, mathematical model of the clock gene circuit. Negative autoregulation of the EC genes constitutes the clock's evening loop, replacing the hypothetical component Y. The EC explains our earlier conjecture that the morning gene PSEUDO-RESPONSE REGULATOR 9 was repressed by an evening gene, previously identified with TIMING OF CAB EXPRESSION1 (TOC1). Our computational analysis suggests that TOC1 is a repressor of the morning genes LATE ELONGATED HYPOCOTYL and CIRCADIAN CLOCK ASSOCIATED1 rather than an activator as first conceived. This removes the necessity for the unknown component X (or TOC1mod) from previous clock models. As well as matching timeseries and phase-response data, the model provides a new conceptual framework for the plant clock that includes a three-component repressilator circuit in its complex structure.

Format
SBML (L2V4)
Related Publication
  • The clock gene circuit in Arabidopsis includes a repressilator with additional feedback loops.
  • Alexandra Pokhilko, Aurora Piñas Fernández, Kieron D Edwards, Megan M Southern, Karen J Halliday, Andrew J Millar
  • Molecular systems biology , 3/ 2012 , Volume 8 , pages: 574 , PubMed ID: 22395476
Contributors
Submitter of the first revision: Alexandra Pokhilko
Submitter of this revision: Lucian Smith
Curator: Lucian Smith
Modeller: Alexandra Pokhilko

Metadata information

is (2 statements)
BioModels Database BIOMD0000000412
BioModels Database MODEL1109200000

isDerivedFrom (1 statement)
BioModels Database BIOMD0000000273

isDescribedBy (1 statement)
PubMed 22395476

hasTaxon (1 statement)
isVersionOf (1 statement)
hasProperty (1 statement)
Mathematical Modelling Ontology Ordinary differential equation model


Curation status
Curated


Connected external resources