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Targeted Interactomics Reveals A Complex Core Cell Cycle Machinery In Arabidopsis Thaliana

Jelle Van Leene, Jens Hollunder, D. Eeckhout, G. Persiau, Eveline Van De Slijke, H. Stals, G. Van Isterdael, Aurine Verkest, S. Neirynck, Yelle Buffel, Stefanie De Bodt, Steven Maere, K. Laukens, A. Pharazyn, P. C. Ferreira, N. Eloy, C. Renne, C. Meyer, J. Faure, Jens Steinbrenner, J. Beynon, J. Larkin, Y. van de Peer, P. Hilson, M. Kuiper, L. De Veylder, H. V. Van Onckelen, D. Inzé, E. Witters, G. De Jaeger
Published 2010 · Medicine, Biology

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Cell proliferation is the main driving force for plant growth. Although genome sequence analysis revealed a high number of cell cycle genes in plants, little is known about the molecular complexes steering cell division. In a targeted proteomics approach, we mapped the core complex machinery at the heart of the Arabidopsis thaliana cell cycle control. Besides a central regulatory network of core complexes, we distinguished a peripheral network that links the core machinery to up‐ and downstream pathways. Over 100 new candidate cell cycle proteins were predicted and an in‐depth biological interpretation demonstrated the hypothesis‐generating power of the interaction data. The data set provided a comprehensive view on heterodimeric cyclin‐dependent kinase (CDK)–cyclin complexes in plants. For the first time, inhibitory proteins of plant‐specific B‐type CDKs were discovered and the anaphase‐promoting complex was characterized and extended. Important conclusions were that mitotic A‐ and B‐type cyclins form complexes with the plant‐specific B‐type CDKs and not with CDKA;1, and that D‐type cyclins and S‐phase‐specific A‐type cyclins seem to be associated exclusively with CDKA;1. Furthermore, we could show that plants have evolved a combinatorial toolkit consisting of at least 92 different CDK–cyclin complex variants, which strongly underscores the functional diversification among the large family of cyclins and reflects the pivotal role of cell cycle regulation in the developmental plasticity of plants.
This paper references
The ins and outs of the plant cell cycle
L. D. Veylder (2007)
IntAct—open source resource for molecular interaction data
S. Kerrien (2007)
EMBOSS: the European Molecular Biology Open Software Suite.
P. Rice (2000)
The Plant Microtubule-Associated Protein AtMAP65-3/PLE Is Essential for Cytokinetic Phragmoplast Function
S. Müller (2004)
Precise destruction: an emerging picture of the APC.
Brian R Thornton (2006)
Cytoscape: a software environment for integrated models of biomolecular interaction networks.
P. Shannon (2003)
Novel Plant-specific Cyclin-dependent Kinase Inhibitors Induced by Biotic and Abiotic Stresses*
A. Peres (2007)
Genome-Wide Analysis of Core Cell Cycle Genes in Arabidopsis Article, publication date, and citation information can be found at
K. Vandepoele (2002)
Identification of RFC(Ctf18p, Ctf8p, Dcc1p): an alternative RFC complex required for sister chromatid cohesion in S. cerevisiae.
M. Mayer (2001)
Predictive models of molecular machines involved in Caenorhabditis elegans early embryogenesis
Kristin C. Gunsalus (2005)
Systematic analysis of protein subcellular localization and interaction using high-throughput transient transformation of Arabidopsis seedlings.
J. Marion (2008)
TPR Subunits of the Anaphase-Promoting Complex Mediate Binding to the Activator Protein CDH1
Hartmut C. Vodermaier (2003)
AtPID: Arabidopsis thaliana protein interactome database—an integrative platform for plant systems biology
Jian Cui (2008)
Cell Cycle-Dependent Targeting of a Kinesin at the Plasma Membrane Demarcates the Division Site in Plant Cells
Marleen Vanstraelen (2006)
The Role of the Arabidopsis E2FB Transcription Factor in Regulating Auxin-Dependent Cell Divisionw⃞
Z. Magyar (2005)
Identification of proteins interacting with the Arabidopsis Cdc2aAt protein
L. D. Veylder (1997)
Genome-wide gene expression in an Arabidopsis cell suspension
M. Menges (2004)
Nucleotide sugar interconversions and cell wall biosynthesis: how to bring the inside to the outside.
G. Seifert (2004)
Boosting tandem affinity purification of plant protein complexes.
Jelle Van Leene (2008)
Protein-protein interactions of tandem affinity purification-tagged protein kinases in rice.
J. S. Rohila (2006)
Genome-Wide Identification of Potential Plant E2F Target Genes1[w]
K. Vandepoele (2005)
Recombinational Cloning with Plant Gateway Vectors1
M. Karimi (2007)
A mutation in the uvi4 gene promotes progression of endo-reduplication and confers increased tolerance towards ultraviolet B light.
Y. Hase (2006)
How many genes are there in plants (... and why are they there)?
L. Sterck (2007)
J Cell Sci
M Erhardt (2002)
Coordination of Growth and Cell Division in the Drosophila Wing
T. Neufeld (1998)
Identification of novel regulatory modules in dicotyledonous plants using expression data and comparative genomics
K. Vandepoele (2006)
Characterization of the genes encoding for MAD2 homologues in wheat
J. Kimbara (2004)
Molecular Control of Nuclear and Subnuclear Targeting of the Plant CDK Inhibitor ICK1 and ICK1-Mediated Nuclear Transport of CDKA
Y. Zhou (2006)
A Predicted Interactome for Arabidopsis1[C][W][OA]
J. Geisler-Lee (2007)
An efficient tandem affinity purification procedure for interaction proteomics in mammalian cells
T. Bürckstümmer (2006)
First glance at the plant APC/C, a highly conserved ubiquitin-protein ligase.
A. Capron (2003)
Gene Ontology: tool for the unification of biology
M. Ashburner (2000)
Expression of Arabidopsis SR-like splicing proteins confers salt tolerance to yeast and transgenic plants.
J. Forment (2002)
Role for E2F in Control of Both DNA Replication and Mitotic Functions as Revealed from DNA Microarray Analysis
S. Ishida (2001)
Coevolution of transcriptional and post-translational cell-cycle regulation
LJ Jensen (2006)
A Tandem Affinity Purification-based Technology Platform to Study the Cell Cycle Interactome in Arabidopsis thaliana*S
Jelle Van Leene (2007)
The plant Spc98p homologue colocalizes with gamma-tubulin at microtubule nucleation sites and is required for microtubule nucleation.
M. Erhardt (2002)
BiNGO: a Cytoscape plugin to assess overrepresentation of Gene Ontology categories in Biological Networks
Steven Maere (2005)
SIAMESE, a Plant-Specific Cell Cycle Regulator, Controls Endoreplication Onset in Arabidopsis thaliana[W]
Michelle L Churchman (2006)
Predicting protein-protein interactions in Arabidopsis thaliana through integration of orthology, gene ontology and co-expression
Stefanie De Bodt (2009)
Co-evolution of transcriptional and post-translational cell-cycle regulation
L. Jensen (2006)
The Plant-Specific Kinase CDKF;1 Is Involved in Activating Phosphorylation of Cyclin-Dependent Kinase-Activating Kinases in Arabidopsis
A. Shimotohno (2004)
Early mitotic degradation of Nek2A depends on Cdc20-independent interaction with the APC/C
Michelle J. Hayes (2006)
Genome-Wide Analysis of the Core DNA Replication Machinery in the Higher Plants Arabidopsis and Rice1[W][OA]
Randall W. Shultz (2007)
Y. Benjamini (2001)
Atypical E2Fs: new players in the E2F transcription factor family.
T. Lammens (2009)
Role for E 2 F in control of both DNA replication and mitotic functions as revealed from DNA microarray analysis
S Ishida (2001)
MAT1 (‘menage à trois’) a new RING finger protein subunit stabilizing cyclin H‐cdk7 complexes in starfish and Xenopus CAK.
A. Devault (1995)
Arabidopsis D-Type Cyclin CYCD4;1 Is a Novel Cyclin Partner of B2-Type Cyclin-Dependent Kinase1
A. Kono (2003)
The CCT chaperonin promotes activation of the anaphase-promoting complex through the generation of functional Cdc20.
A. Camasses (2003)
Global analysis of the core cell cycle regulators of Arabidopsis identifies novel genes, reveals multiple and highly specific profiles of expression and provides a coherent model for plant cell cycle control.
M. Menges (2005)
Firefly Luciferase Complementation Imaging Assay for Protein-Protein Interactions in Plants1[C][W][OA]
HuaMin Chen (2007)
Arabidopsis Reactome: A Foundation Knowledgebase for Plant Systems Biology[W]
N. Tsesmetzis (2008)
Core cell cycle machinery of Arabidopsis J Van Leene et al
Cell cycle regulation in plant development.
D. Inzé (2006)
The Arabidopsis Information Resource (TAIR): gene structure and function annotation
David Swarbreck (2008)
Reactome: a knowledge base of biologic pathways and processes
I. Vastrik (2006)
High-Quality Binary Protein Interaction Map of the Yeast Interactome Network
H. Yu (2008)

This paper is referenced by
In vivo interaction of PYL8 with clade A PP2Cs
Pedro Luis Rodríguez (2012)
AraNet v2: an improved database of co-functional gene networks for the study of Arabidopsis thaliana and 27 other nonmodel plant species
T. Lee (2015)
The cyclindependent kinase G group defines a thermosensitive alternative splicing circuit modulating the expression of Arabidopsis ATU 2 AF 65
N. Cavallari (2018)
Uso de ferramentas biotecnológicas para o controle de pragas agrícolas
R. R. Coelho (2013)
A TOR-YAK1 signaling axis controls cell cycle, meristem activity and plant growth in Arabidopsis
Adam Barrada (2019)
Protecting DNA from errors and damage: an overview of DNA repair mechanisms in plants compared to mammals
C. Spampinato (2016)
What Is Systems Biology? Seminal Papers Laying the Foundation for (plant) Systems Biology a Future Perspective
Alisdair R Fernie ()
The TPLATE Adaptor Complex Drives Clathrin-Mediated Endocytosis in Plants
Astrid Gadeyne (2014)
Use of phospho-site substitutions to analyze the biological relevance of phosphorylation events in regulatory networks.
Nico Dissmeyer (2011)
The Arabidopsis D-Type Cyclin CYCD2;1 and the Inhibitor ICK2/KRP2 Modulate Auxin-Induced Lateral Root Formation[C][W][OA]
L. Sanz (2011)
AtSKIP functions as a mediator between cytokinin and light signaling pathway in Arabidopsisthaliana
X. Zhang (2013)
Reciprocally Retained Genes in the Angiosperm Lineage Show the Hallmarks of Dosage Balance Sensitivity
Setareh Tasdighian (2017)
SIAMESE-RELATED1 Is Regulated Posttranslationally and Participates in Repression of Leaf Growth under Moderate Drought1[OPEN]
M. Dubois (2018)
A protein phosphatase 2A complex spatially controls plant cell division.
Lara Spinner (2013)
The Arabidopsis bHLH Transcription Factors MYC3 and MYC4 Are Targets of JAZ Repressors and Act Additively with MYC2 in the Activation of Jasmonate Responses[C][W]
Patricia Fernández-Calvo (2011)
Molecular control and function of endoreplication in development and physiology.
L. De Veylder (2011)
MTV 1 and MTV 4 Encode Plant-Speci fi c ENTH and ARF GAP Proteins That Mediate Clathrin-Dependent Traf fi cking of Vacuolar Cargo from the Trans-Golgi Network
M. Sauer (2013)
Research and applications: An integrated approach to identify causal network modules of complex diseases with application to colorectal cancer
Zhenshu Wen (2013)
SnRK1 Kinase and the NAC Transcription Factor SOG1 Are Components of a Novel Signaling Pathway Mediating the Low Energy Response Triggered by ATP Depletion
Hidefumi Hamasaki (2019)
The mutation nrpb1‐A325V in the largest subunit of RNA polymerase II suppresses compromised growth of Arabidopsis plants deficient in a function of the general transcription factor IIF
Elena Babiychuk (2017)
Topical Review on Drought Adjustment The Agony of Choice : How Plants Balance Growth and Survival under Water-Limiting Conditions 1
H. Claeys (2013)
Differential transcriptional profile through cell cycle progression in Arabidopsis cultures under simulated microgravity.
K. Kamal (2019)
Kinetic transcriptomic approach revealed metabolic pathways and genotoxic-related changes implied in the Arabidopsis response to ionising radiations.
Morgane Gicquel (2012)
Using Transcriptomics to Reveal Gene Networks of Seed Development in Arabidopsis
Richard C Macknight (2012)
Floral regulators FLC and SOC1 directly regulate expression of the B3-type transcription factor TARGET OF FLC AND SVP 1 at the Arabidopsis shoot apex via antagonistic chromatin modifications
R. Richter (2019)
Identifying the target genes of SUPPRESSOR OF GAMMA RESPONSE 1, a master transcription factor controlling DNA damage response in Arabidopsis
Nobuo Ogita (2018)
Cartographie des complexes multiprotéiques humains suite à la modification ciblée du génome
Jérémy Loehr (2017)
A pan-plant protein complex map reveals deep conservation and novel assemblies
Claire D. McWhite (2019)
Regulation of flowering transition by alternative splicing: the role of the U2 auxiliary factor.
Yu-Yi Wang (2019)
Proliferating cell nuclear antigen associates to protein complexes containing cyclins/cyclin dependent kinases susceptible of inhibition by KRPs during maize germination.
Sara M Garza-Aguilar (2019)
Tools of the trade: studying molecular networks in plants.
Sebastian Proost (2016)
bHLH003, bHLH013 and bHLH017 Are New Targets of JAZ Repressors Negatively Regulating JA Responses
S. Fonseca (2014)
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