39 results on '"De Veylder, Lieven"'
Search Results
2. CDKB1;1 forms a functional complex with CYCA2;3 to suppress endocycle onset
- Author
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Boudolf, Veronique, Lammens, Tim, Boruc, Joanna, van Leene, Jelle, van Den Daele, Hilde, Maes, Sara, Van Isterdael, Gert, Russinova, Eugenia, Kondorosi, Eva, Witters, Erwin, de Jaeger, Geert, Inze, Dirk, and de Veylder, Lieven
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Cell cycle -- Research ,Protein kinases -- Physiological aspects ,Biological sciences ,Science and technology - Published
- 2009
3. Unraveling transcriptional control in Arabidopsis using cis-regulatory elements and coexpression networks
- Author
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Vandepoele, Klaas, Quimbaya, Mauricio, Casneuf, Tine, De Veylder, Lieven, and Van de Peer, Yves
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Plant molecular genetics -- Research ,Arabidopsis thaliana -- Genetic aspects ,Genetic transcription -- Research ,Genetic regulation -- Research ,Biological sciences ,Science and technology - Published
- 2009
4. Eternal youth, the fate of developing Arabidopsis leaves upon Rhodococcus fascians infection
- Author
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Depuydt, Stephen, De Veylder, Lieven, Holsters, Marcelle, and Vereecke, Danny
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Arabidopsis thaliana -- Properties ,Gene expression -- Evaluation ,Leaves -- Observations ,Bacteria, Phytopathogenic -- Influence ,Plant physiology -- Research ,Biological sciences ,Science and technology - Published
- 2009
5. Physiological and transcriptomic evidence for a close coupling between chloroplast ontogeny and cell cycle progression in the pennate diatom Seminavis robusta
- Author
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Gillard, Jeroen, Devos, Valerie, Huysman, Marie J.J., De Veylder, Lieven, D'Hondt, Sofie, Martens, Cindy, Vanormelingen, Pieter, Vannerum, Katrijn, Sabbe, Koen, Chepurnov, Victor A., Inze, Dirk, Vuylsteke, Marnik, and Vyverman, Wim
- Subjects
Genomics ,Cell cycle ,Gene expression ,Biological sciences ,Science and technology - Published
- 2008
6. The PRA1 gene family in Arabidopsis
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Kamei, Claire Lessa Alvim, Boruc, Joanna, Vandepoele, Klaas, Van den Daele, Hilde, Maes, Sara, Russinova, Eugenia, Inze, Dirk, and De Veylder, Lieven
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Membrane proteins ,Arabidopsis thaliana ,G proteins ,Biological sciences ,Science and technology - Published
- 2008
7. Arabidopsis WEE1 kinase controls cell cycle arrest in response to activation of the DNA integrity checkpoint ([W])([OA])
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de Schutter, Kristof, Joubes, Jerome, Cools, Toon, Verkest, Aurine, Corellou, Florence, Babiychuk, Elena, van der Schueren, els, Beeckman, Tom, Kushnir, Sergei, Inze, Dirk, and de Veylder, Lieven
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Arabidopsis -- Physiological aspects ,Arabidopsis -- Genetic aspects ,Cell cycle -- Research ,DNA repair -- Research ,Biological sciences ,Science and technology - Published
- 2007
8. SIAMESE, a plant-specific cell cycle regulator, controls endoreplication onset in Arabidopsis thaliana [W]
- Author
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Churchman, Michelle L., Brown, Matthew L., Kato, Naohiro, Kirik, Viktor, Hulskamp, Martin, Inze, Dirk, De Veylder, Lieven, Walker, Jason D., Zheng, Zhengui, Oppenheimer, David G., Gwin, Taylor, Churchman, Jason, and Larkin, John C.
- Subjects
Arabidopsis thaliana -- Genetic aspects ,Cell cycle -- Research ,Plant cellular control mechanisms -- Research ,Biological sciences ,Science and technology - Published
- 2006
9. The cyclin-dependent kinase inhibitor Orysa;KRP1 plays an important role in seed development of rice (1)[W]
- Author
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Barroco, Rosa Maria, Peres, Adrian, Droual, Anne-Marie, De Veylder, Lieven, Nguyen, Le Son Long, De Wolf, Joris, Mironov, Vladimir, Peerbolte, Rindert, Beemster, Gerrit T.S., Inze, Dirk, Broekaert, Willem F., and Frankard, Valerie
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Rice -- Physiological aspects ,Rice -- Genetic aspects ,Cell division -- Research ,Plant proteins -- Research ,Biological sciences ,Science and technology - Published
- 2006
10. Arabidopsis PASTICCINO2 is an antiphosphatase involved in regulation of cyclin-dependent kinase A ([W])
- Author
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Costa, Marco Da, Bach, Lien, Landrieu, Isabelle, Bellec, Yannick, Catrice, Olivier, Brown, Spencer, De Veylder, Lieven, Lippens, Guy, Inze, Dirk, and Faurea, Jean-Denis
- Subjects
Arabidopsis -- Genetic aspects ,Protein tyrosine kinase -- Research ,Cellular control mechanisms -- Research ,Phosphatases -- Research ,Biological sciences ,Science and technology - Published
- 2006
11. Switching the cell cycle. Kip-related proteins in plant cell cycle control (1)
- Author
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Verkest, Aurine, Weinl, Christina, Inze, Dirk, De Veylder, Lieven, and Schnittger, Arp
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Cell cycle -- Research ,DNA replication -- Research ,Genetics -- Research ,Biological sciences ,Science and technology - Published
- 2005
12. The role of the Arabidopsis E2FB transcription factor in regulating auxin-dependent cell division ([W])
- Author
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Magyar, Zoltan, De Veylder, Lieven, Atanassova, Ana, Bako, Laszlo, Inze, Dirk, and Bogre, Laszlo
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Plant cells and tissues -- Research ,Plants -- Research ,Arabidopsis thaliana -- Research ,Biological sciences ,Science and technology - Published
- 2005
13. Genome-wide identification of potential plant E2F target genes (1)[w]
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Vandepoele, Klaas, Vlieghe, Kobe, Florquin, Kobe, Hennig, Lars, Beemster, Gerrit T.S., Gruissem, Wilhelm, Van de Peer, Yves, Inze, Dirk, and De Veylder, Lieven
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Arabidopsis -- Research ,Arabidopsis -- Genetic aspects ,Genetic transcription -- Research ,Plant genetics -- Research ,Plant physiology -- Research ,Biological sciences ,Science and technology - Published
- 2005
14. The cyclin-dependent kinase inhibitor KRP2 controls the onset of the endoreduplication cycle during Arabidopsis leaf development through inhibition of mitotic CDKA;1 kinase complexes ([W])
- Author
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Verkest, Aurine, Manes, Carmem-Lara de O., Vercruysse, Steven, Maes, Sara, Van Der Schueren, Els, Beeckman, Tom, Genschik, Pascal, Kuiper, Martin, Inze, Dirk, and De Veylder, Lieven
- Subjects
Phanerogams ,Plant cells and tissues ,Cell differentiation ,Cell cycle ,Biological rhythms ,Arabidopsis ,Biological sciences ,Science and technology - Published
- 2005
15. The role of the cell cycle machinery in resumption of postembryonic development (1)
- Author
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Barroco, Rosa Maria, Van Poucke, Kris, Bergervoet, Jan H.W., De Veylder, Lieven, Groot, Steven P.C., Inze, Dirk, and Engler, Gilbert
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Cell cycle -- Research ,Germination -- Research ,Plants -- Development ,Plants -- Research ,Biological sciences ,Science and technology - Published
- 2005
16. The plant-specific cyclin-dependent kinase CDKB1;1 and transcription factor E2Fa-DPa control the balance of mitotically dividing and endoreduplicating cells in Arabidopsis
- Author
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Boudolf, Veronique, Vlieghe, Kobe, Beemster, Gerrit T.S., Magyar, Zoltan, Torres Acosta, Juan Antonio, Maes, Sara, Van Der Schueren, Els, Inze, Dirk, and De Veylder, Lieven
- Subjects
Arabidopsis thaliana -- Genetic aspects ,Arabidopsis thaliana -- Research ,Genetic transcription -- Research ,Plant cells and tissues -- Research ,Biological sciences ,Science and technology - Published
- 2004
17. A plant-specific subclass of C-terminal kinesins contains a conserved A-Type cyclin-dependent kinase site implicated in folding and dimerization (1)
- Author
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Vanstraelen, Marleen, Acosta, Juan Antonio Torres, De Veylder, Lieven, Inze, Dirk, and Geelen, Danny
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Kinesin -- Structure ,Phosphorylation -- Analysis ,Tobacco (Plant) -- Physiological aspects ,Tobacco (Plant) -- Growth ,Cytokinesis -- Research ,Company growth ,Biological sciences ,Science and technology - Published
- 2004
18. B1-type cyclin-dependent kinases are essential for the formation of stomatal complexes in Arabidopsis thaliana
- Author
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Boudolf, Veronique, Barroco, Rosa, Engler, Janice de Almeida, Verkest, Aurine, Beeckman, Tom, Naudts, Mirande, Inze, Dirk, and De Veylder, Lieven
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Arabidopsis thaliana -- Physiological aspects ,Protein kinases -- Research ,Eukaryotes -- Physiological aspects ,Plant cell differentiation -- Research ,Biological sciences ,Science and technology - Published
- 2004
19. Genome-wide analysis of core cell cycle genes in Arabidopsis
- Author
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Vandepoele, Klaas, Raes, Jeroen, De Veylder, Lieven, Rouze, Pierre, Rombauts, Stephane, and Inze, Dirk
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Arabidopsis thaliana -- Genetic aspects ,Cell cycle -- Research ,Plant cells and tissues -- Research ,Biological sciences ,Science and technology - Published
- 2002
20. Functional Analysis of cyclin-Dependent kinase inhibitors of Arabidopsis
- Author
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De Veylder, Lieven, Beeckman, Tom, Beemster, Gerrit T.S., Krols, Luc, Terras, Franky, Landrieu, Isabelle, Van Der Schueren, Els, Maes, Sara, Naudts, Mirande, and Inze, Dirk
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Arabidopsis -- Genetic aspects ,Arabidopsis -- Physiological aspects ,Growth (Plants) -- Genetic aspects ,Cell cycle -- Research ,Biological sciences ,Science and technology - Published
- 2001
21. Cyclin-dependent kinases and cell division in plants--the nexus
- Author
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Mironov, Vladimir, De Veylder, Lieven, Van Montagu, Marc, and Inze, Dirk
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Protein kinases -- Research ,Cell division -- Research ,Plant cells and tissues -- Research ,Eukaryotes -- Research ,Biological sciences ,Science and technology - Published
- 1999
22. The ASH1-RELATED3 SET-Domain Protein Controls Cell Division Competence of the Meristem and the Quiescent Center of the Arabidopsis Primary Root1[W][OPEN]
- Author
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Kumpf, Robert, Thorstensen, Tage, Rahman, Mohummad Aminur, Heyman, Jefri, Nenseth, H. Zeynep, Lammens, Tim, Herrmann, Ullrich, Swarup, Ranjan, Veiseth, Silje Veie, Emberland, Gitika, Bennett, Malcolm J., De Veylder, Lieven, and Aalen, Reidunn B.
- Subjects
DNA Replication ,DNA, Plant ,Arabidopsis Proteins ,Research Articles - Focus Issue ,Meristem ,Mutation ,Arabidopsis ,Plant Roots ,Cell Division ,S Phase - Abstract
The stem cell niche of the Arabidopsis (Arabidopsis thaliana) primary root apical meristem is composed of the quiescent (or organizing) center surrounded by stem (initial) cells for the different tissues. Initial cells generate a population of transit-amplifying cells that undergo a limited number of cell divisions before elongating and differentiating. It is unclear whether these divisions occur stochastically or in an orderly manner. Using the thymidine analog 5-ethynyl-2'-deoxyuridine to monitor DNA replication of cells of Arabidopsis root meristems, we identified a pattern of two, four, and eight neighboring cells with synchronized replication along the cortical, epidermal, and endodermal cell files, suggested to be daughters, granddaughters, and great-granddaughters of the direct progeny of each stem cell. Markers of mitosis and cytokinesis were not present in the region closest to the transition zone where the cells start to elongate, suggesting that great-granddaughter cells switch synchronously from the mitotic cell cycle to endoreduplication. Mutations in the stem cell niche-expressed ASH1-RELATED3 (ASHR3) gene, encoding a SET-domain protein conferring histone H3 lysine-36 methylation, disrupted this pattern of coordinated DNA replication and cell division and increased the cell division rate in the quiescent center. E2Fa/E2Fb transcription factors controlling the G1-to-S-phase transition regulate ASHR3 expression and bind to the ASHR3 promoter, substantiating a role for ASHR3 in cell division control. The reduced length of the root apical meristem and primary root of the mutant ashr3-1 indicate that synchronization of replication and cell divisions is required for normal root growth and development.
- Published
- 2014
23. The PRA1 Gene Family in Arabidopsis1[W]
- Author
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Alvim Kamei, Claire Lessa, Boruc, Joanna, Vandepoele, Klaas, Van den Daele, Hilde, Maes, Sara, Russinova, Eugenia, Inzé, Dirk, and De Veylder, Lieven
- Subjects
Arabidopsis Proteins ,Recombinant Fusion Proteins ,Amino Acid Motifs ,Arabidopsis ,Vesicular Transport Proteins ,Golgi Apparatus ,Biological Transport ,Endosomes ,Endoplasmic Reticulum ,Protein Structure, Tertiary ,Sequence Analysis, Protein ,rab GTP-Binding Proteins ,Multigene Family ,Vacuoles ,Transport Vesicles ,Dimerization ,Phylogeny ,Focus Issue on Membrane Trafficking ,Glucuronidase - Abstract
Prenylated Rab acceptor 1 (PRA1) domain proteins are small transmembrane proteins that regulate vesicle trafficking as receptors of Rab GTPases and the vacuolar soluble N-ethylmaleimide-sensitive factor attachment receptor protein VAMP2. However, little is known about PRA1 family members in plants. Sequence analysis revealed that higher plants, compared with animals and primitive plants, possess an expanded family of PRA1 domain-containing proteins. The Arabidopsis (Arabidopsis thaliana) PRA1 (AtPRA1) proteins were found to homodimerize and heterodimerize in a manner corresponding to their phylogenetic distribution. Different AtPRA1 family members displayed distinct expression patterns, with a preference for vascular cells and expanding or developing tissues. AtPRA1 genes were significantly coexpressed with Rab GTPases and genes encoding vesicle transport proteins, suggesting an involvement in the vesicle trafficking process similar to that of their animal counterparts. Correspondingly, AtPRA1 proteins were localized in the endoplasmic reticulum, Golgi apparatus, and endosomes/prevacuolar compartments, hinting at a function in both secretory and endocytic intracellular trafficking pathways. Taken together, our data reveal a high functional diversity of AtPRA1 proteins, probably dealing with the various demands of the complex trafficking system.
- Published
- 2008
24. The Cyclin-Dependent Kinase Inhibitor Orysa;KRP1 Plays an Important Role in Seed Development of Rice1[W]
- Author
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Barrôco, Rosa Maria, Peres, Adrian, Droual, Anne-Marie, De Veylder, Lieven, Nguyen, Le Son Long, De Wolf, Joris, Mironov, Vladimir, Peerbolte, Rindert, Beemster, Gerrit T.S., Inzé, Dirk, Broekaert, Willem F., and Frankard, Valerie
- Subjects
Gene Expression Regulation, Plant ,fungi ,Molecular Sequence Data ,Seeds ,food and beverages ,Oryza ,Amino Acid Sequence ,Plants, Genetically Modified ,Cyclin-Dependent Kinases ,Phylogeny ,Research Article ,Plant Proteins - Abstract
Kip-related proteins (KRPs) play a major role in the regulation of the plant cell cycle. We report the identification of five putative rice (Oryza sativa) proteins that share characteristic motifs with previously described plant KRPs. To investigate the function of KRPs in rice development, we generated transgenic plants overexpressing the Orysa;KRP1 gene. Phenotypic analysis revealed that overexpressed KRP1 reduced cell production during leaf development. The reduced cell production in the leaf meristem was partly compensated by an increased cell size, demonstrating the existence of a compensatory mechanism in monocot species by which growth rate is less reduced than cell production, through cell expansion. Furthermore, Orysa;KRP1 overexpression dramatically reduced seed filling. Sectioning through the overexpressed KRP1 seeds showed that KRP overproduction disturbed the production of endosperm cells. The decrease in the number of fully formed seeds was accompanied by a drop in the endoreduplication of endosperm cells, pointing toward a role of KRP1 in connecting endocycle with endosperm development. Also, spatial and temporal transcript detection in developing seeds suggests that Orysa;KRP1 plays an important role in the exit from the mitotic cell cycle during rice grain formation.
- Published
- 2006
25. Genome-Wide Identification of Potential Plant E2F Target Genes1[w]
- Author
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Vandepoele, Klaas, Vlieghe, Kobe, Florquin, Kobe, Hennig, Lars, Beemster, Gerrit T.S., Gruissem, Wilhelm, Van de Peer, Yves, Inzé, Dirk, and De Veylder, Lieven
- Subjects
Base Sequence ,Arabidopsis Proteins ,Gene Expression Profiling ,Cell Cycle ,Arabidopsis ,Oryza ,Genes, Plant ,Response Elements ,E2F Transcription Factors ,Gene Expression Regulation, Plant ,Consensus Sequence ,biological phenomena, cell phenomena, and immunity ,Promoter Regions, Genetic ,Genome, Plant ,Research Article ,Oligonucleotide Array Sequence Analysis ,Plant Proteins ,Transcription Factors - Abstract
Entry into the S phase of the cell cycle is controlled by E2F transcription factors that induce the transcription of genes required for cell cycle progression and DNA replication. Although the E2F pathway is highly conserved in higher eukaryotes, only a few E2F target genes have been experimentally validated in plants. We have combined microarray analysis and bioinformatics tools to identify plant E2F-responsive genes. Promoter regions of genes that were induced at the transcriptional level in Arabidopsis (Arabidopsis thaliana) seedlings ectopically expressing genes for the E2Fa and DPa transcription factors were searched for the presence of E2F-binding sites, resulting in the identification of 181 putative E2F target genes. In most cases, the E2F-binding element was located close to the transcription start site, but occasionally could also be localized in the 5' untranslated region. Comparison of our results with available microarray data sets from synchronized cell suspensions revealed that the E2F target genes were expressed almost exclusively during G1 and S phases and activated upon reentry of quiescent cells into the cell cycle. To test the robustness of the data for the Arabidopsis E2F target genes, we also searched for the presence of E2F-cis-acting elements in the promoters of the putative orthologous rice (Oryza sativa) genes. Using this approach, we identified 70 potential conserved plant E2F target genes. These genes encode proteins involved in cell cycle regulation, DNA replication, and chromatin dynamics. In addition, we identified several genes for potentially novel S phase regulatory proteins.
- Published
- 2005
26. Plant lineage-specific PIKMIN1 drives APC/CCCS52A2 E3-ligase activity-dependent cell division.
- Author
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Willems A, Liang Y, Heyman J, Depuydt T, Eekhout T, Canher B, Van den Daele H, Vercauteren I, Vandepoele K, and De Veylder L
- Subjects
- Cell Division genetics, Cell Cycle genetics, Cell Cycle Proteins metabolism, Anaphase-Promoting Complex-Cyclosome genetics, Anaphase-Promoting Complex-Cyclosome metabolism, Plant Proteins metabolism, Mitosis, Arabidopsis Proteins metabolism, Arabidopsis metabolism
- Abstract
The anaphase-promoting complex/cyclosome (APC/C) marks key cell cycle proteins for proteasomal breakdown, thereby ensuring unidirectional progression through the cell cycle. Its target recognition is temporally regulated by activating subunits, one of which is called CELL CYCLE SWITCH 52 A2 (CCS52A2). We sought to expand the knowledge on the APC/C by using the severe growth phenotypes of CCS52A2-deficient Arabidopsis (Arabidopsis thaliana) plants as a readout in a suppressor mutagenesis screen, resulting in the identification of the previously undescribed gene called PIKMIN1 (PKN1). PKN1 deficiency rescues the disorganized root stem cell phenotype of the ccs52a2-1 mutant, whereas an excess of PKN1 inhibits the growth of ccs52a2-1 plants, indicating the need for control of PKN1 abundance for proper development. Accordingly, the lack of PKN1 in a wild-type background negatively impacts cell division, while its systemic overexpression promotes proliferation. PKN1 shows a cell cycle phase-dependent accumulation pattern, localizing to microtubular structures, including the preprophase band, the mitotic spindle, and the phragmoplast. PKN1 is conserved throughout the plant kingdom, with its function in cell division being evolutionarily conserved in the liverwort Marchantia polymorpha. Our data thus demonstrate that PKN1 represents a novel, plant-specific protein with a role in cell division that is likely proteolytically controlled by the CCS52A2-activated APC/C., Competing Interests: Conflict of interest statement. The authors have no conflict of interest., (© American Society of Plant Biologists 2022. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.)
- Published
- 2023
- Full Text
- View/download PDF
27. Single-cell transcriptomics sheds light on the identity and metabolism of developing leaf cells.
- Author
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Tenorio Berrío R, Verstaen K, Vandamme N, Pevernagie J, Achon I, Van Duyse J, Van Isterdael G, Saeys Y, De Veylder L, Inzé D, and Dubois M
- Subjects
- Gene Expression Profiling, Arabidopsis metabolism, Plant Cells metabolism, Plant Leaves metabolism, Single-Cell Analysis, Transcriptome
- Abstract
As the main photosynthetic instruments of vascular plants, leaves are crucial and complex plant organs. A strict organization of leaf mesophyll and epidermal cell layers orchestrates photosynthesis and gas exchange. In addition, water and nutrients for leaf growth are transported through the vascular tissue. To establish the single-cell transcriptomic landscape of these different leaf tissues, we performed high-throughput transcriptome sequencing of individual cells isolated from young leaves of Arabidopsis (Arabidopsis thaliana) seedlings grown in two different environmental conditions. The detection of approximately 19,000 different transcripts in over 1,800 high-quality leaf cells revealed 14 cell populations composing the young, differentiating leaf. Besides the cell populations comprising the core leaf tissues, we identified subpopulations with a distinct identity or metabolic activity. In addition, we proposed cell-type-specific markers for each of these populations. Finally, an intuitive web tool allows for browsing the presented dataset. Our data present insights on how the different cell populations constituting a developing leaf are connected via developmental, metabolic, or stress-related trajectories., (© American Society of Plant Biologists 2021. All rights reserved. For permissions, please email: journals.permissions@oup.com.)
- Published
- 2022
- Full Text
- View/download PDF
28. G2/M-checkpoint activation in fasciata1 rescues an aberrant S-phase checkpoint but causes genome instability.
- Author
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Eekhout T, Dvorackova M, Pedroza Garcia JA, Nespor Dadejova M, Kalhorzadeh P, Van den Daele H, Vercauteren I, Fajkus J, and De Veylder L
- Subjects
- Arabidopsis genetics, Arabidopsis Proteins metabolism, Ataxia Telangiectasia Mutated Proteins genetics, Ataxia Telangiectasia Mutated Proteins metabolism, Genome, Plant, Genomic Instability, Protein Serine-Threonine Kinases metabolism, Proto-Oncogene Proteins c-myb metabolism, Stress, Physiological, Transcription Factors genetics, Transcription Factors metabolism, Arabidopsis physiology, Arabidopsis Proteins genetics, DNA Replication, Protein Serine-Threonine Kinases genetics, Proto-Oncogene Proteins c-myb genetics, Signal Transduction
- Abstract
The WEE1 and ATM AND RAD3-RELATED (ATR) kinases are important regulators of the plant intra-S-phase checkpoint; consequently, WEE1KO and ATRKO roots are hypersensitive to replication-inhibitory drugs. Here, we report on a loss-of-function mutant allele of the FASCIATA1 (FAS1) subunit of the chromatin assembly factor 1 (CAF-1) complex that suppresses the phenotype of WEE1- or ATR-deficient Arabidopsis (Arabidopsis thaliana) plants. We demonstrate that lack of FAS1 activity results in the activation of an ATAXIA TELANGIECTASIA MUTATED (ATM)- and SUPPRESSOR OF GAMMA-RESPONSE 1 (SOG1)-mediated G2/M-arrest that renders the ATR and WEE1 checkpoint regulators redundant. This ATM activation accounts for the telomere erosion and loss of ribosomal DNA that are described for fas1 plants. Knocking out SOG1 in the fas1 wee1 background restores replication stress sensitivity, demonstrating that SOG1 is an important secondary checkpoint regulator in plants that fail to activate the intra-S-phase checkpoint., (© American Society of Plant Biologists 2021. All rights reserved. For permissions, please email: journals.permissions@oup.com.)
- Published
- 2021
- Full Text
- View/download PDF
29. Genome Editing-Based Engineering of CESA3 Dual Cellulose-Inhibitor-Resistant Plants.
- Author
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Hu Z, Zhang T, Rombaut D, Decaestecker W, Xing A, D'Haeyer S, Höfer R, Vercauteren I, Karimi M, Jacobs T, and De Veylder L
- Subjects
- Benzamides pharmacology, Cell Membrane metabolism, Cellulose metabolism, Indenes pharmacology, Plant Weeds drug effects, Plant Weeds growth & development, Point Mutation genetics, Structure-Activity Relationship, Triazines pharmacology, Arabidopsis genetics, Arabidopsis Proteins genetics, Cellulose antagonists & inhibitors, Enzyme Inhibitors pharmacology, Gene Editing, Glucosyltransferases genetics
- Abstract
The rapid appearance of herbicide-resistant weeds combined with a lack of novel herbicides being brought to market reduces crop production, thereby threatening food security worldwide. Here, we report on the use of the previously identified cellulose biosynthesis-inhibiting chemical compound C17 as a potential herbicide. Toxicity tests showed that C17 efficiently inhibits the growth of various weeds and widely cultivated dicotyledonous crops, whereas only slight or no growth inhibition was observed for monocotyledonous crops. Surprisingly, when exposed to a mixture of C17 and one of two well-known cellulose biosynthesis inhibitors (CBIs), isoxaben and indaziflam, an additive growth inhibition was observed, demonstrating that C17 has a different mode of action that can be used to sensitize plants toward known CBIs. Moreover, we demonstrate that a C17-resistant CESA3 allele can be used as a positive transformation selection marker and that C17 resistance can be obtained through genome engineering of the wild-type CESA3 allele using clustered regularly interspaced short palindromic repeats-mediated base editing. This editing system allowed us to engineer C17 tolerance in an isoxaben-resistant line, resulting in double herbicide-resistant plants., (© 2019 American Society of Plant Biologists. All Rights Reserved.)
- Published
- 2019
- Full Text
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30. Wounding Triggers Callus Formation via Dynamic Hormonal and Transcriptional Changes.
- Author
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Ikeuchi M, Iwase A, Rymen B, Lambolez A, Kojima M, Takebayashi Y, Heyman J, Watanabe S, Seo M, De Veylder L, Sakakibara H, and Sugimoto K
- Subjects
- Abscisic Acid metabolism, Arabidopsis genetics, Biosynthetic Pathways genetics, Cell Cycle genetics, Chromatin metabolism, Cluster Analysis, Cyclopentanes metabolism, Gene Expression Regulation, Plant, Genes, Plant, Indoleacetic Acids metabolism, Models, Biological, Oxylipins metabolism, Stress, Physiological genetics, Time Factors, Transcription Factors metabolism, Arabidopsis physiology, Plant Growth Regulators metabolism, Transcription, Genetic
- Abstract
Wounding is a primary trigger of organ regeneration, but how wound stress reactivates cell proliferation and promotes cellular reprogramming remains elusive. In this study, we combined transcriptome analysis with quantitative hormonal analysis to investigate how wounding induces callus formation in Arabidopsis ( Arabidopsis thaliana ). Our time course RNA-seq analysis revealed that wounding induces dynamic transcriptional changes, starting from rapid stress responses followed by the activation of metabolic processes and protein synthesis and subsequent activation of cell cycle regulators. Gene ontology analyses further uncovered that wounding modifies the expression of hormone biosynthesis and response genes, and quantitative analysis of endogenous plant hormones revealed accumulation of cytokinin prior to callus formation. Mutants defective in cytokinin synthesis and signaling display reduced efficiency in callus formation, indicating that de novo synthesis of cytokinin is critical for wound-induced callus formation. We further demonstrate that type-B ARABIDOPSIS RESPONSE REGULATOR-mediated cytokinin signaling regulates the expression of CYCLIN D3;1 ( CYCD3;1 ) and that mutations in CYCD3;1 and its homologs CYCD3;2 and 3 cause defects in callus formation. In addition to these hormone-mediated changes, our transcriptome data uncovered that wounding activates multiple developmental regulators, and we found novel roles of ETHYLENE RESPONSE FACTOR 115 and PLETHORA3 (PLT3), PLT5, and PLT7 in callus generation. All together, these results provide novel mechanistic insights into how wounding reactivates cell proliferation during callus formation., (© 2017 American Society of Plant Biologists. All Rights Reserved.)
- Published
- 2017
- Full Text
- View/download PDF
31. Tissue-Specific Control of the Endocycle by the Anaphase Promoting Complex/Cyclosome Inhibitors UVI4 and DEL1.
- Author
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Heyman J, Polyn S, Eekhout T, and De Veylder L
- Subjects
- Anaphase-Promoting Complex-Cyclosome genetics, Arabidopsis enzymology, Arabidopsis physiology, Arabidopsis Proteins genetics, Cell Cycle, Cell Cycle Proteins genetics, Gene Expression Regulation, Plant, Organ Specificity, Phenotype, Plant Roots enzymology, Plant Roots genetics, Plant Roots physiology, Ploidies, Transcription Factors genetics, Anaphase-Promoting Complex-Cyclosome metabolism, Arabidopsis genetics, Arabidopsis Proteins metabolism, Cell Cycle Proteins metabolism, Transcription Factors metabolism
- Abstract
The endocycle represents a modified mitotic cell cycle that in plants is often coupled to cell enlargement and differentiation. Endocycle onset is controlled by activity of the Anaphase Promoting Complex/Cyclosome (APC/C), a multisubunit E3 ubiquitin ligase targeting cell-cycle factors for destruction. CELL CYCLE SWITCH52 (CCS52) proteins represent rate-limiting activator subunits of the APC/C. In Arabidopsis ( Arabidopsis thaliana ), mutations in either CCS52A1 or CCS52A2 activators result in a delayed endocycle onset, whereas their overexpression triggers increased DNA ploidy levels. Here, the relative contribution of the APC/C
CCS52A1 and APC/CCCS52A2 complexes to different developmental processes was studied through analysis of their negative regulators, being the ULTRAVIOLET-B-INSENSITIVE4 protein and the DP-E2F-Like1 transcriptional repressor, respectively. Our data illustrate cooperative activity of the APC/CCCS52A1 and APC/CCCS52A2 complexes during root and trichome development, but functional interdependency during leaf development. Furthermore, we found APC/CCCS52A1 activity to control CCS52A2 expression. We conclude that interdependency of CCS52A-controlled APC/C activity is controlled in a tissue-specific manner., (© 2017 American Society of Plant Biologists. All Rights Reserved.)- Published
- 2017
- Full Text
- View/download PDF
32. The ASH1-RELATED3 SET-domain protein controls cell division competence of the meristem and the quiescent center of the Arabidopsis primary root.
- Author
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Kumpf R, Thorstensen T, Rahman MA, Heyman J, Nenseth HZ, Lammens T, Herrmann U, Swarup R, Veiseth SV, Emberland G, Bennett MJ, De Veylder L, and Aalen RB
- Subjects
- Arabidopsis cytology, Arabidopsis Proteins genetics, DNA Replication, DNA, Plant biosynthesis, Mutation, S Phase, Arabidopsis physiology, Arabidopsis Proteins physiology, Cell Division physiology, Meristem cytology, Plant Roots cytology
- Abstract
The stem cell niche of the Arabidopsis (Arabidopsis thaliana) primary root apical meristem is composed of the quiescent (or organizing) center surrounded by stem (initial) cells for the different tissues. Initial cells generate a population of transit-amplifying cells that undergo a limited number of cell divisions before elongating and differentiating. It is unclear whether these divisions occur stochastically or in an orderly manner. Using the thymidine analog 5-ethynyl-2'-deoxyuridine to monitor DNA replication of cells of Arabidopsis root meristems, we identified a pattern of two, four, and eight neighboring cells with synchronized replication along the cortical, epidermal, and endodermal cell files, suggested to be daughters, granddaughters, and great-granddaughters of the direct progeny of each stem cell. Markers of mitosis and cytokinesis were not present in the region closest to the transition zone where the cells start to elongate, suggesting that great-granddaughter cells switch synchronously from the mitotic cell cycle to endoreduplication. Mutations in the stem cell niche-expressed ASH1-RELATED3 (ASHR3) gene, encoding a SET-domain protein conferring histone H3 lysine-36 methylation, disrupted this pattern of coordinated DNA replication and cell division and increased the cell division rate in the quiescent center. E2Fa/E2Fb transcription factors controlling the G1-to-S-phase transition regulate ASHR3 expression and bind to the ASHR3 promoter, substantiating a role for ASHR3 in cell division control. The reduced length of the root apical meristem and primary root of the mutant ashr3-1 indicate that synchronization of replication and cell divisions is required for normal root growth and development., (© 2014 American Society of Plant Biologists. All Rights Reserved.)
- Published
- 2014
- Full Text
- View/download PDF
33. Chloroplast dysfunction causes multiple defects in cell cycle progression in the Arabidopsis crumpled leaf mutant.
- Author
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Hudik E, Yoshioka Y, Domenichini S, Bourge M, Soubigout-Taconnat L, Mazubert C, Yi D, Bujaldon S, Hayashi H, De Veylder L, Bergounioux C, Benhamed M, and Raynaud C
- Subjects
- Arabidopsis Proteins metabolism, Cell Cycle Proteins metabolism, Cell Differentiation, Cell Proliferation, Cyclins metabolism, Gene Expression Regulation, Plant, Arabidopsis physiology, Arabidopsis Proteins physiology, Cell Cycle, Chloroplasts physiology
- Abstract
The majority of research on cell cycle regulation is focused on the nuclear events that govern the replication and segregation of the genome between the two daughter cells. However, eukaryotic cells contain several compartmentalized organelles with specialized functions, and coordination among these organelles is required for proper cell cycle progression, as evidenced by the isolation of several mutants in which both organelle function and overall plant development were affected. To investigate how chloroplast dysfunction affects the cell cycle, we analyzed the crumpled leaf (crl) mutant of Arabidopsis (Arabidopsis thaliana), which is deficient for a chloroplastic protein and displays particularly severe developmental defects. In the crl mutant, we reveal that cell cycle regulation is altered drastically and that meristematic cells prematurely enter differentiation, leading to reduced plant stature and early endoreduplication in the leaves. This response is due to the repression of several key cell cycle regulators as well as constitutive activation of stress-response genes, among them the cell cycle inhibitor SIAMESE-RELATED5. One unique feature of the crl mutant is that it produces aplastidic cells in several organs, including the root tip. By investigating the consequence of the absence of plastids on cell cycle progression, we showed that nuclear DNA replication occurs in aplastidic cells in the root tip, which opens future research prospects regarding the dialogue between plastids and the nucleus during cell cycle regulation in higher plants., (© 2014 American Society of Plant Biologists. All Rights Reserved.)
- Published
- 2014
- Full Text
- View/download PDF
34. Multiple functions of Kip-related protein5 connect endoreduplication and cell elongation.
- Author
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Jégu T, Latrasse D, Delarue M, Mazubert C, Bourge M, Hudik E, Blanchet S, Soler MN, Charon C, De Veylder L, Raynaud C, Bergounioux C, and Benhamed M
- Subjects
- Arabidopsis genetics, Arabidopsis Proteins genetics, Cyclin-Dependent Kinase Inhibitor Proteins genetics, Cyclins metabolism, Genes, Plant genetics, Heterochromatin metabolism, Models, Biological, Mutation genetics, Protein Binding genetics, Protein Transport, Seedlings metabolism, Transcriptional Activation genetics, Arabidopsis cytology, Arabidopsis metabolism, Arabidopsis Proteins metabolism, Cyclin-Dependent Kinase Inhibitor Proteins metabolism, Endoreduplication
- Abstract
Despite considerable progress in our knowledge regarding the cell cycle inhibitor of the Kip-related protein (KRP) family in plants, less is known about the coordination of endoreduplication and cell differentiation. In animals, the role of cyclin-dependent kinase (CDK) inhibitors as multifunctional factors coordinating cell cycle regulation and cell differentiation is well documented and involves not only the inhibition of CDK/cyclin complexes but also other mechanisms, among them the regulation of transcription. Interestingly, several plant KRPs have a punctuated distribution in the nucleus, suggesting that they are associated with heterochromatin. Here, one of these chromatin-bound KRPs, KRP5, has been studied in Arabidopsis (Arabidopsis thaliana). KRP5 is expressed in endoreduplicating cells, and loss of KRP5 function decreases endoreduplication, indicating that KRP5 is a positive regulator of endoreduplication. This regulation relies on several mechanisms: in addition to its role in cyclin/CDK kinase inhibition previously described, chromatin immunoprecipitation sequencing data combined with transcript quantification provide evidence that KRP5 regulates the transcription of genes involved in cell wall organization. Furthermore, KRP5 overexpression increases chromocenter decondensation and endoreduplication in the Arabidopsis trithorax-related protein5 (atxr5) atxr6 double mutant, which is deficient for the deposition of heterochromatin marks. Hence, KRP5 could bind chromatin to coordinately control endoreduplication and chromatin structure and allow the expression of genes required for cell elongation.
- Published
- 2013
- Full Text
- View/download PDF
35. New insights into the control of endoreduplication: endoreduplication could be driven by organ growth in Arabidopsis leaves.
- Author
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Massonnet C, Tisné S, Radziejwoski A, Vile D, De Veylder L, Dauzat M, and Granier C
- Subjects
- Arabidopsis genetics, Arabidopsis growth & development, Chromosome Mapping, Genotype, Multivariate Analysis, Mutation, Phenotype, Plant Leaves genetics, Plant Leaves growth & development, Plants, Genetically Modified, Ploidies, Quantitative Trait Loci, Reverse Transcriptase Polymerase Chain Reaction, Arabidopsis cytology, Cell Division, Cell Enlargement, Gene Duplication, Plant Leaves cytology
- Abstract
Enormous progress has been achieved understanding the molecular mechanisms regulating endoreduplication. By contrast, how this process is coordinated with the cell cycle or cell expansion and contributes to overall growth in multicellular systems remains unclear. A holistic approach was used here to give insight into the functional links between endoreduplication, cell division, cell expansion, and whole growth in the Arabidopsis (Arabidopsis thaliana) leaf. Correlative analyses, quantitative genetics, and structural equation modeling were applied to a large data set issued from the multiscale phenotyping of 200 genotypes, including both genetically modified lines and recombinant inbred lines. All results support the conclusion that endoreduplication in leaf cells could be controlled by leaf growth itself. More generally, leaf growth could act as a "hub" that drives cell division, cell expansion, and endoreduplication in parallel. In many cases, this strategy allows compensations that stabilize leaf area even when one of the underlying cellular processes is limiting.
- Published
- 2011
- Full Text
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36. Light-dependent regulation of DEL1 is determined by the antagonistic action of E2Fb and E2Fc.
- Author
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Berckmans B, Lammens T, Van Den Daele H, Magyar Z, Bögre L, and De Veylder L
- Subjects
- Arabidopsis Proteins metabolism, Base Sequence, E2F Transcription Factors metabolism, Hypocotyl genetics, Hypocotyl radiation effects, Models, Biological, Molecular Sequence Data, Mutation genetics, Plants, Genetically Modified, Ploidies, Promoter Regions, Genetic genetics, Protein Binding radiation effects, Transcription Factors metabolism, Ubiquitin-Protein Ligases metabolism, Arabidopsis genetics, Arabidopsis radiation effects, Arabidopsis Proteins antagonists & inhibitors, E2F Transcription Factors antagonists & inhibitors, Gene Expression Regulation, Plant radiation effects, Light, Transcription Factors genetics
- Abstract
Endoreduplication represents a variation on the cell cycle in which multiple rounds of DNA replication occur without subsequent chromosome separation and cytokinesis, thereby increasing the cellular DNA content. It is known that the DNA ploidy level of cells is controlled by external stimuli such as light; however, limited knowledge is available on how environmental signals regulate the endoreduplication cycle at the molecular level. Previously, we had demonstrated that the conversion from a mitotic cell cycle into an endoreduplication cycle is controlled by the atypical E2F transcription factor, DP-E2F-LIKE1 (DEL1), that represses the endocycle onset. Here, the Arabidopsis (Arabidopsis thaliana) DEL1 gene was identified as a transcriptional target of the classical E2Fb and E2Fc transcription factors that antagonistically control its transcript levels through competition for a single E2F cis-acting binding site. In accordance with the reported opposite effects of light on the protein levels of E2Fb and E2Fc, DEL1 transcription depended on the light regime. Strikingly, modified DEL1 expression levels uncoupled the link between light and endoreduplication in hypocotyls, implying that DEL1 acts as a regulatory connection between endocycle control and the photomorphogenic response.
- Published
- 2011
- Full Text
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37. Model-based analysis of Arabidopsis leaf epidermal cells reveals distinct division and expansion patterns for pavement and guard cells.
- Author
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Asl LK, Dhondt S, Boudolf V, Beemster GT, Beeckman T, Inzé D, Govaerts W, and De Veylder L
- Subjects
- Arabidopsis growth & development, Biomechanical Phenomena, Cell Cycle, Cell Proliferation, Cell Size, Plant Epidermis growth & development, Plant Leaves growth & development, Arabidopsis cytology, Cell Division, Models, Biological, Plant Epidermis cytology, Plant Leaves cytology
- Abstract
To efficiently capture sunlight for photosynthesis, leaves typically develop into a flat and thin structure. This development is driven by cell division and expansion, but the individual contribution of these processes is currently unknown, mainly because of the experimental difficulties to disentangle them in a developing organ, due to their tight interconnection. To circumvent this problem, we built a mathematic model that describes the possible division patterns and expansion rates for individual epidermal cells. This model was used to fit experimental data on cell numbers and sizes obtained over time intervals of 1 d throughout the development of the first leaf pair of Arabidopsis (Arabidopsis thaliana). The parameters were obtained by a derivative-free optimization method that minimizes the differences between the predicted and experimentally observed cell size distributions. The model allowed us to calculate probabilities for a cell to divide into guard or pavement cells, the maximum size at which it can divide, and its average cell division and expansion rates at each point during the leaf developmental process. Surprisingly, average cell cycle duration remained constant throughout leaf development, whereas no evidence for a maximum cell size threshold for cell division of pavement cells was found. Furthermore, the model predicted that neighboring cells of different sizes within the epidermis expand at distinctly different relative rates, which could be verified by direct observations. We conclude that cell division seems to occur independently from the status of cell expansion, whereas the cell cycle might act as a timer rather than as a size-regulated machinery.
- Published
- 2011
- Full Text
- View/download PDF
38. The PRA1 gene family in Arabidopsis.
- Author
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Alvim Kamei CL, Boruc J, Vandepoele K, Van den Daele H, Maes S, Russinova E, Inzé D, and De Veylder L
- Subjects
- Amino Acid Motifs, Arabidopsis metabolism, Arabidopsis ultrastructure, Arabidopsis Proteins analysis, Arabidopsis Proteins genetics, Biological Transport genetics, Dimerization, Endoplasmic Reticulum metabolism, Endosomes metabolism, Glucuronidase analysis, Golgi Apparatus metabolism, Phylogeny, Protein Structure, Tertiary, Recombinant Fusion Proteins analysis, Sequence Analysis, Protein, Transport Vesicles metabolism, Vacuoles metabolism, Vesicular Transport Proteins analysis, Vesicular Transport Proteins genetics, rab GTP-Binding Proteins metabolism, Arabidopsis genetics, Arabidopsis Proteins metabolism, Multigene Family, Vesicular Transport Proteins metabolism
- Abstract
Prenylated Rab acceptor 1 (PRA1) domain proteins are small transmembrane proteins that regulate vesicle trafficking as receptors of Rab GTPases and the vacuolar soluble N-ethylmaleimide-sensitive factor attachment receptor protein VAMP2. However, little is known about PRA1 family members in plants. Sequence analysis revealed that higher plants, compared with animals and primitive plants, possess an expanded family of PRA1 domain-containing proteins. The Arabidopsis (Arabidopsis thaliana) PRA1 (AtPRA1) proteins were found to homodimerize and heterodimerize in a manner corresponding to their phylogenetic distribution. Different AtPRA1 family members displayed distinct expression patterns, with a preference for vascular cells and expanding or developing tissues. AtPRA1 genes were significantly coexpressed with Rab GTPases and genes encoding vesicle transport proteins, suggesting an involvement in the vesicle trafficking process similar to that of their animal counterparts. Correspondingly, AtPRA1 proteins were localized in the endoplasmic reticulum, Golgi apparatus, and endosomes/prevacuolar compartments, hinting at a function in both secretory and endocytic intracellular trafficking pathways. Taken together, our data reveal a high functional diversity of AtPRA1 proteins, probably dealing with the various demands of the complex trafficking system.
- Published
- 2008
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39. Genome-wide analysis of gene expression profiles associated with cell cycle transitions in growing organs of Arabidopsis.
- Author
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Beemster GT, De Veylder L, Vercruysse S, West G, Rombaut D, Van Hummelen P, Galichet A, Gruissem W, Inzé D, and Vuylsteke M
- Subjects
- Arabidopsis growth & development, Cell Proliferation, Gene Expression Regulation, Developmental physiology, Gene Expression Regulation, Plant physiology, Plant Leaves metabolism, Arabidopsis cytology, Arabidopsis genetics, Cell Cycle genetics, Gene Expression Profiling, Genome, Plant
- Abstract
Organ growth results from the progression of component cells through subsequent phases of proliferation and expansion before reaching maturity. We combined kinematic analysis, flowcytometry, and microarray analysis to characterize cell cycle regulation during the growth process of leaves 1 and 2 of Arabidopsis (Arabidopsis thaliana). Kinematic analysis showed that the epidermis proliferates until day 12; thereafter, cells expand until day 19 when leaves reach maturity. Flowcytometry revealed that endoreduplication occurs from the time cell division rates decline until the end of cell expansion. Analysis of 10 time points with a 6k-cDNA microarray showed that transitions between the growth stages were closely reflected in the mRNA expression data. Subsequent genome-wide microarray analysis on the three main stages allowed us to categorize known cell cycle genes into three major classes: constitutively expressed, proliferative, and inhibitory. Comparison with published expression data obtained from root zones corresponding to similar developmental stages and from synchronized cell cultures supported this categorization and enabled us to identify a high confidence set of 131 proliferation genes. Most of those had an M phase-dependent expression pattern and, in addition to many known cell cycle-related genes, there were at least 90 that were unknown or previously not associated with proliferation.
- Published
- 2005
- Full Text
- View/download PDF
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