Signal Transduction Networks During Stress Responses in Arabidopsis High Throughput Analysis and Modelling

Alessandra Devoto1 (K) • Alberto Paccanaro2

1 School of Biological Sciences, Royal Holloway University of London, Egham Hill, Egham, London TW20 0EX, UK [email protected] 2Department of Computer Science, Royal Holloway University of London, Egham Hill, Egham, London TW20 0EX, UK

Abstract Plants ability to adapt to developmental phase transitions as well as changing environmental conditions is inherent to the existence of complex signalling networks that are activated by different types of exogenous and endogenous signals. Ultimately, the activation of signalling pathways leads to extensive transcriptional, proteomic and metabolic re-programming determining a specific plant response to the initial signalling input(s). This chapter presents the general basic concepts of signalling pathways and crosstalk as well as the high-throughput and bioinformatics methods which have been used for both inferring and modelling Arabidopsis thaliana signalling networks from gene expression data. Due to the large amount of data available, the discussion will focus on the latest published work in the field with particular emphasis to stress and defence related responses where excellent studies in this direction have been performed in recent times. The information provided will complement that from other chapters of this book where plant growth responses to environmental changes are considered (in particular see chapters from: Anderson GH, TOR signalling in plants; Doerner P, Signals and mechanisms in the control of plant growth; Durgardeyn J and Van Der Straeten D, Ethylene: inhibitor and stimulator of plant growth)

The authors will also discuss recent approaches that have been developed for inferring and modelling protein networks in other model organisms, with the aim of highlighting how integrating this information with gene expression data may lead to better inference of signalling networks. It is reasonable to think that, once large scale protein interaction data will be available, similar methods will be applicable to infer and model signalling networks in Arabidopsis.

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