Integration of growth and patterning during vascular tissue formation in
            <i>Arabidopsis</i>

Rybel, Bert De; Adibi, Milad; Breda, Alice S.; Wendrich, Jos R.; Smit, Margot E.; Novák, Ondřej; Yamaguchi, Nobutoshi; Yoshida, Saiko; Isterdael, Gert Van; Palovaara, Joakim; Nijsse, Bart; Boekschoten, Mark V.; Hooiveld, Guido; Beeckman, Tom; Wagner, Doris; Ljung, Karin; Fleck, Christian; Weijers, Dolf

doi:10.1126/science.1255215

Cited by 296 publications

(387 citation statements)

References 52 publications

(65 reference statements)

Supporting

Mentioning

346

Contrasting

Unclassified

Order By: Relevance

“…The second (De Rybel et al, 2014) builds upon this patterning mechanism to explore how the root vascular pattern is established and develops during embryogenesis. Importantly, it considers both cell growth and division and provides new data showing how auxin and cytokinin interact.…”

Section: Modeling Root Vascular Patterningmentioning

confidence: 99%

“…The final publication (el-Showk et al, 2015) focuses on auxin transport in a spatially realistic model incorporating hormonal regulation of the auxin transporters. Hereafter, the three models are referred to as the Minimal Framework model (Muraro et al, 2014), the Growing Root model (De Rybel et al 2014), and the Auxin Flux model (el-Showk et al 2015). A summary of the network configurations in the different models is given in Fig.…”

Section: Modeling Root Vascular Patterningmentioning

confidence: 99%

“…This question was addressed in the Growing Root model (De Rybel et al 2014) by investigating how the xylem axis was specified during embryogenesis. The model incorporated both growth and patterning within a dynamic array of cells.…”

Section: Early Events Specifying the Xylem Axismentioning

confidence: 99%

“…The model incorporated both growth and patterning within a dynamic array of cells. This study identified a crucial new interaction through which auxin promotes the transcription of the LONELY GUY 4 (LOG4) gene via the TMO5/LHW dimer (De Rybel et al, 2014). LOG4 is a crucial enzyme involved in the final stages of the cytokinin biosynthesis pathway and is believed to be the rate-limiting step controlling cytokinin homeostasis (Kuroha et al, 2009).…”

Section: Early Events Specifying the Xylem Axismentioning

confidence: 99%

See 3 more Smart Citations

Theoretical approaches to understanding root vascular patterning: a consensus between recent models

Mellor

Adibi

El‐Showk

et al. 2016

EXBOTJ

Self Cite

View full text Add to dashboard Cite

A note on versions:The version presented here may differ from the published version or from the version of record. If you wish to cite this item you are advised to consult the publisher's version. Please see the repository url above for details on accessing the published version and note that access may require a subscription. AbstractThe root vascular tissues provide an excellent system for studying organ patterning, as the specification of these tissues signals a transition from radial symmetry to bisymmetric patterns. The patterning process is controlled by the combined action of hormonal signaling/transport pathways, transcription factors, and miRNA that operate through a series of non-linear pathways to drive pattern formation collectively. With the discovery of multiple components and feedback loops controlling patterning, it has become increasingly difficult to understand how these interactions act in unison to determine pattern formation in multicellular tissues. Three independent mathematical models of root vascular patterning have been formulated in the last few years, providing an excellent example of how theoretical approaches can complement experimental studies to provide new insights into complex systems. In many aspects these models support each other; however, each study also provides its own novel findings and unique viewpoints. Here we reconcile these models by identifying the commonalities and exploring the differences between them by testing how transferable findings are between models. New simulations herein support the hypothesis that an asymmetry in auxin input can direct the formation of vascular pattern. We show that the xylem axis can act as a sole source of cytokinin and specify the correct pattern, but also that broader patterns of cytokinin production are also able to pattern the root. By comparing the three modeling approaches, we gain further insight into vascular patterning and identify several key areas for experimental investigation.

show abstract

Section: Modeling Root Vascular Patterningmentioning

confidence: 99%

Section: Modeling Root Vascular Patterningmentioning

confidence: 99%

Section: Early Events Specifying the Xylem Axismentioning

confidence: 99%

Section: Early Events Specifying the Xylem Axismentioning

confidence: 99%

See 2 more Smart Citations

Theoretical approaches to understanding root vascular patterning: a consensus between recent models

Mellor

Adibi

El‐Showk

et al. 2016

EXBOTJ

Self Cite

View full text Add to dashboard Cite

show abstract

“…What are the roles of growth in hormonal crosstalk? 25 How can we parameterise a hormonal crosstalk model? 26,27 The modeling approach with careful consideration of the above questions is likely to prove powerful for dissecting complex regulatory pathways in a range of cell signaling problems.…”

Section: Kinetics Of Auxin Biosynthesis and Degradationmentioning

confidence: 99%

Some fundamental aspects of modeling auxin patterning in the context of auxin-ethylene-cytokinin crosstalk

Moore

Zhang

Liu

et al. 2015

Plant Signaling & Behavior

View full text Add to dashboard Cite

Modelling Plant Hormone Gradients

Moore

Zhang

Lindsey

2015

Encyclopedia of Life Sciences

View full text Add to dashboard Cite

Cellular patterning in the Arabidopsis root is coordinated via a localised auxin concentration maximum in the root tip, requiring the regulated expression of specific genes. The activities of plant hormones such as auxin, ethylene and cytokinin depend on cellular context and exhibit either synergistic or antagonistic interactions. Due to the complexity and nonlinearity of spatiotemporal interactions between both hormones and gene expression in root development, modelling plant hormone gradients requires a systems approach in which experimental data and modelling analysis are closely combined. Modelling therefore allows a predictive interrogation of highly complex and nonintuitive interactions between components in the system. Important factors to be considered when modelling hormone gradients include the construction of a hormonal crosstalk network, the formulation of kinetic equations and the construction of an in silico root map. A modelling approach enables the analysis of relationships between multiple hormone gradients, predictions on how hormone gradients emerge under the action of hormonal crosstalk, and the prediction and elucidation of experimental results from mutant roots. Key Concepts Patterning in Arabidopsis root development is coordinated via a localised auxin concentration maximum in the root tip, requiring the regulated expression of specific genes. The activities of plant hormones such as auxin, ethylene, cytokinin, abscisic acid, gibberellin and brassinosteroids depend on cellular context and exhibit either synergistic or antagonistic interactions. Auxin concentration and the associated regulatory and target genes are regulated by diverse interacting hormones and gene expression and therefore cannot change independently of the various crosstalk components in space and time. Other hormone concentrations, such as ethylene and cytokinin concentrations, and expression of the associated regulatory and target genes are also interlinked. Modelling plant hormone gradients requires a systems approach where experimental data and modelling analysis are closely combined. A hormonal crosstalk network describes the regulatory relationships between hormones and their associated genes. A kinetic equation can be formulated for any regulatory relationship following thermodynamic and kinetic principles. Construction of an in silico root map enables the study of multicellular cell–cell communications in Arabidopsis root development. Modelling hormone gradients enables the analysis of relationships between multiple hormone gradients, predictions on how hormone gradients emerge under the action of hormonal crosstalk, and the prediction and elucidation of experimental results from mutant roots. Modelling auxin gradients can also incorporate different mechanisms of polar auxin transport and the interaction of hormone gradients and root growth.

show abstract

Integration of growth and patterning during vascular tissue formation in Arabidopsis

Cited by 296 publications

References 52 publications

Theoretical approaches to understanding root vascular patterning: a consensus between recent models

Theoretical approaches to understanding root vascular patterning: a consensus between recent models

Some fundamental aspects of modeling auxin patterning in the context of auxin-ethylene-cytokinin crosstalk

Modelling Plant Hormone Gradients

Contact Info

Product

Resources

About