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      Modelling hormonal response and development

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          Highlights

          • Modelling has helped to understand the complex network structure of single hormonal pathways, but has also provided insights into hormone activity at many levels.

          • We describe how multiple hormones have been incorporated into new models.

          • We explore future challenges in integrating different models.

          • We propose that future models need to be more realistic by capturing more geometrical, mechanical as well as biological data.

          Abstract

          As our knowledge of the complexity of hormone homeostasis, transport, perception, and response increases, and their outputs become less intuitive, modelling is set to become more important. Initial modelling efforts have focused on hormone transport and response pathways. However, we now need to move beyond the network scales and use multicellular and multiscale modelling approaches to predict emergent properties at different scales. Here we review some examples where such approaches have been successful, for example, auxin–cytokinin crosstalk regulating root vascular development or a study of lateral root emergence where an iterative cycle of modelling and experiments lead to the identification of an overlooked role for PIN3. Finally, we discuss some of the remaining biological and technical challenges.

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          Most cited references78

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          Different plant hormones regulate similar processes through largely nonoverlapping transcriptional responses.

          Small-molecule hormones govern every aspect of the biology of plants. Many processes, such as growth, are regulated in similar ways by multiple hormones, and recent studies have revealed extensive crosstalk among different hormonal signaling pathways. These results have led to the proposal that a common set of signaling components may integrate inputs from multiple hormones to regulate growth. In this study, we tested this proposal by asking whether different hormones converge on a common set of transcriptional targets in Arabidopsis seedlings. Using publicly available microarray data, we analyzed the transcriptional effects of seven hormones, including abscisic acid, gibberellin, auxin, ethylene, cytokinin, brassinosteroid, and jasmonate. A high-sensitivity analysis revealed a surprisingly low number of common target genes. Instead, different hormones appear to regulate distinct members of protein families. We conclude that there is not a core transcriptional growth-regulatory module in young Arabidopsis seedlings.
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            Cell signalling by microRNA165/6 directs gene dose-dependent root cell fate.

            A key question in developmental biology is how cells exchange positional information for proper patterning during organ development. In plant roots the radial tissue organization is highly conserved with a central vascular cylinder in which two water conducting cell types, protoxylem and metaxylem, are patterned centripetally. We show that this patterning occurs through crosstalk between the vascular cylinder and the surrounding endodermis mediated by cell-to-cell movement of a transcription factor in one direction and microRNAs in the other. SHORT ROOT, produced in the vascular cylinder, moves into the endodermis to activate SCARECROW. Together these transcription factors activate MIR165a and MIR166b. Endodermally produced microRNA165/6 then acts to degrade its target mRNAs encoding class III homeodomain-leucine zipper transcription factors in the endodermis and stele periphery. The resulting differential distribution of target mRNA in the vascular cylinder determines xylem cell types in a dosage-dependent manner.
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              Arabidopsis AUX1 gene: a permease-like regulator of root gravitropism.

              The plant hormone auxin regulates various developmental processes including root formation, vascular development, and gravitropism. Mutations within the AUX1 gene confer an auxin-resistant root growth phenotype and abolish root gravitropic curvature. Polypeptide sequence similarity to amino acid permeases suggests that AUX1 mediates the transport of an amino acid-like signaling molecule. Indole-3-acetic acid, the major form of auxin in higher plants, is structurally similar to tryptophan and is a likely substrate for the AUX1 gene product. The cloned AUX1 gene can restore the auxin-responsiveness of transgenic aux1 roots. Spatially, AUX1 is expressed in root apical tissues that regulate root gravitropic curvature.
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                Author and article information

                Contributors
                Journal
                Trends Plant Sci
                Trends Plant Sci
                Trends in Plant Science
                Elsevier Science, Ltd
                1360-1385
                1878-4372
                1 May 2014
                May 2014
                : 19
                : 5
                : 311-319
                Affiliations
                [1 ]Centre for Plant Integrative Biology, University of Nottingham, Nottingham, LE12 5RD, UK
                [2 ]School of Mathematical Sciences, University of Nottingham, Nottingham, NG7 2RD, UK
                Article
                S1360-1385(14)00044-2
                10.1016/j.tplants.2014.02.004
                4013931
                24630843
                49524ebf-2d95-4a74-bcde-949cdf4f7817
                © 2014 The Authors

                This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/3.0/).

                History
                Categories
                Review
                Special Issue: Systems Biology

                Plant science & Botany
                modelling,hormone signalling,systems biology,multiscale modelling
                Plant science & Botany
                modelling, hormone signalling, systems biology, multiscale modelling

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