The LEAFY target LMI1 is a meristem identity regulator and acts together with LEAFY to regulate expression of<i>CAULIFLOWER</i>

Saddic, Louis A.; Huvermann, Bärbel; Bezhani, Staver; Su, Yanhui; Winter, Cara M.; Kwon, Chang Seob; Collum, Richard P.; Wagner, Doris

doi:10.1242/dev.02331

Cited by 179 publications

(168 citation statements)

References 66 publications

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“…Different qualitative dynamics can emerge from these motifs such as delay after stimulus addition, pulses in expression levels of gene B and response acceleration [48]. Such a feedforward loop has been shown to control the timing of the switch from vegetative to reproductive development in Arabidopsis [51]. This switch is controlled by the transcription factor and meristem identity regulator LEAFY (LFY) in part via the direct activation of the gene CAULIFLOWER (CAL), which acts together with the transcription factor LMI1 to activate CAL expression.…”

Section: Location Of Figurementioning

confidence: 99%

Mathematical Modelling Plant Signalling Networks

Muraro

Byrne

King

et al. 2013

Math. Model. Nat. Phenom.

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Abstract. During the last two decades, molecular genetic studies and the completion of the sequencing of the Arabidopsis thaliana genome have increased knowledge of hormonal regulation in plants. These signal transduction pathways act in concert through gene regulatory and signalling networks whose main components have begun to be elucidated. Our understanding of the resulting cellular processes is hindered by the complex, and sometimes counter-intuitive, dynamics of the networks, which may be interconnected through feedback controls and crossregulation. Mathematical modelling provides a valuable tool to investigate such dynamics and to perform in silico experiments that may not be easily carried out in a laboratory. In this article, we firstly review general methods for modelling gene and signalling networks and their application in plants. We then describe specific models of hormonal perception and cross-talk in plants. This sub-cellular analysis paves the way for more comprehensive mathematical studies of hormonal transport and signalling in a multi-scale setting.

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Section: Location Of Figurementioning

confidence: 99%

Mathematical Modelling Plant Signalling Networks

Muraro

Byrne

King

et al. 2013

Math. Model. Nat. Phenom.

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“…This implies that the divergence in the roles that APO1/RFL and UFO/LFY play in the control of meristem identity may be achieved by differences in regulatory sequences in the downstream target genes rather than in the activity of RFL as a transcription factor. To reveal the molecular basis of the divergence in the function of APO1/RFL from that of UFO/LFY and their homologs, analysis of genes working downstream of APO1/RFL and comparison with downstream components of LFY pathway is needed (Busch et al, 1999;William et al, 2004;Saddic et al, 2006). It is also necessary to study interactions between APO1/ RFL and other putative orthologs of known meristem identity genes to gain a comprehensive view of mechanisms controlling rice inflorescence development.…”

Section: Genetic Network Controlling Rice Inflorescence Branchingmentioning

confidence: 99%

Expression Level ofABERRANT PANICLE ORGANIZATION1Determines Rice Inflorescence Form through Control of Cell Proliferation in the Meristem

et al. 2009

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Two types of branches, rachis branches (i.e. nonfloral) and spikelets (i.e. floral), are produced during rice (Oryza sativa) inflorescence development. We previously reported that the ABERRANT PANICLE ORGANIZATION1 (APO1) gene, encoding an F-box-containing protein orthologous to Arabidopsis (Arabidopsis thaliana) UNUSUAL FLORAL ORGANS, suppresses precocious conversion of rachis branch meristems to spikelets to ensure generation of certain number of spikelets. Here, we identified four dominant mutants producing an increased number of spikelets and found that they are gain-of-function alleles of APO1. The APO1 expression levels are elevated in all four mutants, suggesting that an increase of APO1 activity caused the delay in the program shift to spikelet formation. In agreement with this result, ectopic overexpression of APO1 accentuated the APO1 gain-of-function phenotypes. In the apo1-D dominant alleles, the inflorescence meristem starts to increase in size more vigorously than the wild type when switching to the reproductive development phase. This alteration in growth rate is opposite to what is observed with the apo1 mutants that have a smaller inflorescence meristem. The difference in meristem size is caused by different rates of cell proliferation. Collectively, these results suggest that the level of APO1 activity regulates the inflorescence form through control of cell proliferation in the meristem.

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“…These motifs were first systematically defined in Escherichia coli, in which they were detected as patterns that occurred in the transcription network much more often than would be expected in random networks. The same motifs have since been found across a range of cell types, from bacteria and yeast to plants and animals [Eichenberger et al, 2004, Lee et al, 2002, Saddic et al, 2006, Boyer et al, 2005.…”

Section: Introductionmentioning

confidence: 54%

Mean field analysis of a spatial stochastic model of a gene regulatory network

et al. 2014

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A gene regulatory network may be defined as a collection of DNA segments which interact with each other indirectly through their RNA and protein products. Such a network is said to contain a negative feedback loop if its products inhibit gene transcription, and a positive feedback loop if a gene product promotes its own production. Negative feedback loops can create oscillations in mRNA and protein levels while positive feedback loops are primarily responsible for signal amplification. It is often the case in real biological systems that both negative and positive feedback loops operate in parameter regimes that result in low copy numbers of gene products.In this paper we investigate the spatio-temporal dynamics of a single feedback loop in a eukaryotic cell. We first develop a simplified spatial stochastic model of a canonical feedback system (either positive or negative). Using a Gillespie's algorithm, we compute sample trajectories and analyse their corresponding statistics. We then derive a system of equations that describe the spatio-temporal evolution of the stochastic means. Subsequently, we examine the spatially homogeneous case and compare the results of numerical simulations with the spatially explicit case. Finally, using a combination of steady-state analysis and data clustering techniques, we explore model behaviour across a subregion of the parameter space that is difficult to access experimentally and compare the parameter landscape of our spatio-temporal and spatially-homogeneous models.

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The LEAFY target LMI1 is a meristem identity regulator and acts together with LEAFY to regulate expression ofCAULIFLOWER

Cited by 179 publications

References 66 publications

Mathematical Modelling Plant Signalling Networks

Mathematical Modelling Plant Signalling Networks

Expression Level ofABERRANT PANICLE ORGANIZATION1Determines Rice Inflorescence Form through Control of Cell Proliferation in the Meristem

Mean field analysis of a spatial stochastic model of a gene regulatory network

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