Research in our lab is focused on unravelling phosphorylation-related signaling mechanisms associated with plant growth and development under abiotic stress conditions.
Uncovering the mechanisms by which abiotic stress is perceived, identifying key response components and exposing how this impacts on growth and differentiation processes during development remains a major challenge for plant biologists and for crop improvement. To fully understand this biological process, we need to identify novel components and require insight in the underlying signalling network. In the past, Arabidopsis research has mainly focused on transcriptional changes (Long et al. 2008 Annu Rev Cell Dev Biol 24:81); but, there is an urgent need to gain insight in protein changes on different levels, including protein-protein interactions and post-translational protein modifications. With respect to the latter, temporary and reversible phosphorylation of proteins is essential in regulating intra-cellular biological processes. While the knowledge on post-translational regulation through transient phosphorylation in plants is growing because of its crucial importance in plant molecular networks, it remains an underexplored and challenging area (Nakagami et al. 2012 Plant Cell Physiol 53:118; Bond et al. 2011 Phytochemistry 72:975; Kline-Jonakin et al. 2011 Curr Opin Plant Biol 14:507). In Arabidopsis and major crop species phosphorylation is controlled by a large number of protein kinases and phosphatase complexes (plantsp.genomics.purdue.edu/family/class.html; Dissmeyer and Schnittger 2011 Methods Mol Biol 779:7; Marshall et al. 2012 Plant Cell 24:2262). However, for the majority of cytoplasmic kinases, membrane-associated receptor kinases and phosphatases unraveling physiological and developmental roles and identifying substrates remains a challenge.
We apply a gel-free phospho-proteomics pipeline to different biological systems (Vu, Stes et al. 2016 J Proteome Res): liquid Arabidopsis
seedling cultures or Arabidopsis
and monocot organs (such as leaves or roots from wheat or corn). We combine these systems with loss- and gain-of-function approaches and specific stimuli to perform an untargeted mass spectrometric analysis of the phosphoproteome (Vu, Stes et al, 2016). To confirm the importance of key differentially phosphorylated proteins (ideally hubs controlling major switches in physiological and developmental processes) in a biological process, candidates are functionally characterized using kinase assays and phospho-specific antibodies to demonstrate functionality and in vivo phosphorylation, respectively, complemented with loss- and gain-of-function approaches and detailed analyses of expression/localization patterns.
PP2A-3 interacts with ACR4 and regulates formative cell division in the Arabidopsis rootYue K* Sandal P* Williams E* Murphy E Stes E Nikonorova N Ramakrishna P Czyzewicz N Montero-Morales L Kumpf R Lin Z Van De Cotte B Iqbal M Van Bel M Van De Slijke E Meyer M Gadeyne A Zipfel C De Jaeger G Van Montagu M Van Damme D Gevaert K Rao A* Beeckman T* De Smet I*PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 113, 1447-52, 2016* These authors contributed equally RALFL34 regulates formative cell divisions in Arabidopsis pericycle during lateral root initiationMurphy E, Vu L, Van den Broeck L, Lin Z, Ramakrishna P, Van De Cotte B, Gaudinier A, Goh T, Slane D, Beeckman T, Inzé D, Brady S, Fukaki H, De Smet IJOURNAL OF EXPERIMENTAL BOTANY, 67, 4863-75, 2016 Tackling Drought Stress: RECEPTOR-LIKE KINASES Present New ApproachesMarshall A, Aalen R, Audenaert D, Beeckman T, Broadley M, Butenko M, Cano-Delgado A, de Vries S, Dresselhaus T, Felix G, Graham N, Foulkes J, Granier C, Greb T, Grossniklaus U, Hammond J, Heidstra R, Hodgman C, Hothorn M, Inzé D, Ostergaard L, Russinova E, Simon R, Skirycz A, Stahl Y, Zipfel C, De Smet IPLANT CELL, 24, 2262-78, 2012
14/01/2017 - New research has shed light on what peptides mean for plants – not only in their growth and development, but also in how they regulate their reactions to stressors such as drought, heat and pathogens.
18/08/2016 - In a Special Issue of Journal of Experimental Botany, edited by Barbara De Coninck (VIB-KU Leuven) and Ive De Smet (VIB-UGent), plant peptides take central stage.
19/01/2016 - “Discovering a new interaction partner of ACR4 is exciting because we now have more insight in the action mechanism of this important plant growth regulator.”
Ive De Smet
PhD: University of Leeds, UK & Ghent University, Belgium, '06
Postdoc: Max Planck Institue for Developmental Biology, Germany, '06-'10
Postdoc: Ghent University/VIB, Belgium, '10
Group leader at VIB since May 2013