Table of Contents
A
Aichinger, Ernst
- You have accessRestricted AccessThe CHD3 Chromatin Remodeler PICKLE and Polycomb Group Proteins Antagonistically Regulate Meristem Activity in the Arabidopsis RootErnst Aichinger, Corina B.R. Villar, Riccardo Di Mambro, Sabrina Sabatini, Claudia KöhlerPlant Cell Mar 2011, 23 (3) 1047-1060; DOI: https://doi.org/10.1105/tpc.111.083352
We report that the chromatin remodeling factor PICKLE and Polycomb group proteins antagonistically determine cell identity. Our study highlights an important role of PICKLE and Polycomb group proteins in regulating root meristem activity by regulating the expression of root stem cell and meristem marker genes.
Angenent, Gerco C.
- You have accessRestricted AccessTranscriptome and Metabolite Profiling Show That APETALA2a Is a Major Regulator of Tomato Fruit RipeningRumyana Karlova, Faye M. Rosin, Jacqueline Busscher-Lange, Violeta Parapunova, Phuc T. Do, Alisdair R. Fernie, Paul D. Fraser, Charles Baxter, Gerco C. Angenent, Ruud A. de MaagdPlant Cell Mar 2011, 23 (3) 923-941; DOI: https://doi.org/10.1105/tpc.110.081273
This study demonstrates that the tomato APETALA2a (AP2a) transcription factor modulates fruit ripening by negatively regulating ethylene biosynthesis and signaling. Various ripening regulators are shown to act upstream of AP2a. Gene expression analysis reveals that AP2a is involved in chloroplast to chromoplast transition.
B
Bahn, Sung Chul
- You have accessRestricted AccessPatatin-Related Phospholipase pPLAIIIβ-Induced Changes in Lipid Metabolism Alter Cellulose Content and Cell Elongation in ArabidopsisMaoyin Li, Sung Chul Bahn, Liang Guo, William Musgrave, Howard Berg, Ruth Welti, Xuemin WangPlant Cell Mar 2011, 23 (3) 1107-1123; DOI: https://doi.org/10.1105/tpc.110.081240
Patatin-related phospholipase pPLAIIIβ lacks the canonical esterase catalytic center but possesses acyl-hydrolyzing and acyl-CoA thioesterase activities. Knockout and overexpression of pPLAIIIβ have opposite effects on the levels of membrane lipids, cellulose content, mechanical strength, and cell length. Thus, membrane lipid metabolism may be linked to cellulose production in Arabidopsis.
Balzergue, Sandrine
- You have accessRestricted AccessDisruption of LACCASE4 and 17 Results in Tissue-Specific Alterations to Lignification of Arabidopsis thaliana StemsSerge Berthet, Nathalie Demont-Caulet, Brigitte Pollet, Przemyslaw Bidzinski, Laurent Cézard, Phillipe Le Bris, Nero Borrega, Jonathan Hervé, Eddy Blondet, Sandrine Balzergue, Catherine Lapierre, Lise JouaninPlant Cell Mar 2011, 23 (3) 1124-1137; DOI: https://doi.org/10.1105/tpc.110.082792
This study provides evidence that two laccases, LAC4 and LAC17, participate in the polymerization of lignins in Arabidopsis stems. These findings suggest that the genetic engineering of lignin-specific laccases is a potentially innovative and promising tool for the fine-tuning of lignin content and structure.
Barkan, Alice
- You have accessRestricted AccessAPO1 Promotes the Splicing of Chloroplast Group II Introns and Harbors a Plant-Specific Zinc-Dependent RNA Binding DomainKenneth P. Watkins, Margarita Rojas, Giulia Friso, Klaas J. van Wijk, Jörg Meurer, Alice BarkanPlant Cell Mar 2011, 23 (3) 1082-1092; DOI: https://doi.org/10.1105/tpc.111.084335
This study demonstrates that APO1, originally proposed to be involved in the maturation of proteins with [4Fe-4S] ligands, is instead required for the splicing of several chloroplast introns. It shows further that DUF794, the plant-specific domain of unknown function that makes up the bulk of APO1, is an RNA binding domain harboring zinc binding motifs.
Bartel, Bonnie
- You have accessRestricted AccessMultiple Facets of Arabidopsis Seedling Development Require Indole-3-Butyric Acid–Derived AuxinLucia C. Strader, Dorthea L. Wheeler, Sarah E. Christensen, John C. Berens, Jerry D. Cohen, Rebekah A. Rampey, Bonnie BartelPlant Cell Mar 2011, 23 (3) 984-999; DOI: https://doi.org/10.1105/tpc.111.083071
Plants synthesize the growth hormone indole-3-acetic acid using a variety of incompletely understood pathways. This work demonstrates that the conversion of indole-3-butyric acid to indole-3-acetic acid contributes to wide-ranging auxin-regulated processes in Arabidopsis seedlings and that shutting off this auxin supply renders seedlings less able to respond to exogenous auxin.
Baxter, Charles
- You have accessRestricted AccessTranscriptome and Metabolite Profiling Show That APETALA2a Is a Major Regulator of Tomato Fruit RipeningRumyana Karlova, Faye M. Rosin, Jacqueline Busscher-Lange, Violeta Parapunova, Phuc T. Do, Alisdair R. Fernie, Paul D. Fraser, Charles Baxter, Gerco C. Angenent, Ruud A. de MaagdPlant Cell Mar 2011, 23 (3) 923-941; DOI: https://doi.org/10.1105/tpc.110.081273
This study demonstrates that the tomato APETALA2a (AP2a) transcription factor modulates fruit ripening by negatively regulating ethylene biosynthesis and signaling. Various ripening regulators are shown to act upstream of AP2a. Gene expression analysis reveals that AP2a is involved in chloroplast to chromoplast transition.
Baxter, Ivan
- Open AccessSphingolipids in the Root Play an Important Role in Regulating the Leaf Ionome in Arabidopsis thalianaDai-Yin Chao, Kenneth Gable, Ming Chen, Ivan Baxter, Charles R. Dietrich, Edgar B. Cahoon, Mary Lou Guerinot, Brett Lahner, Shiyou Lü, Jonathan E. Markham, Joe Morrissey, Gongshe Han, Sita D. Gupta, Jeffrey M. Harmon, Jan G. Jaworski, Teresa M. Dunn, David E. SaltPlant Cell Mar 2011, 23 (3) 1061-1081; DOI: https://doi.org/10.1105/tpc.110.079095
Sphingolipids are a diverse group of essential membrane lipids thought to play important roles in both membrane function and cellular signaling. By identifying an Arabidopsis thaliana mutant lacking 3-ketodihydrosphinganine reductase, a critical enzyme in sphingolipid biosynthesis, this work uncovers a connection between sphingolipid metabolism in roots and whole-plant mineral ion homeostasis.
Beachy, Roger N.
- You have accessRestricted AccessBROTHER OF LUX ARRHYTHMO Is a Component of the Arabidopsis Circadian ClockShunhong Dai, Xiaoping Wei, Liping Pei, Rebecca L. Thompson, Yi Liu, Jacqueline E. Heard, Thomas G. Ruff, Roger N. BeachyPlant Cell Mar 2011, 23 (3) 961-972; DOI: https://doi.org/10.1105/tpc.111.084293
This work shows that the Arabidopsis transcription factor BROTHER OF LUX ARRHYTHMO (BOA) is an activator in regulating the expression of CIRCADIAN CLOCK ASSOCIATED1 (CCA1). BOA forms a transcriptional feedback loop with CCA1 and regulates circadian rhythms in Arabidopsis.
Bejarano, Eduardo R.
- You have accessRestricted AccessGeminiviruses Subvert Ubiquitination by Altering CSN-Mediated Derubylation of SCF E3 Ligase Complexes and Inhibit Jasmonate Signaling in Arabidopsis thalianaRosa Lozano-Durán, Tabata Rosas-Díaz, Giuliana Gusmaroli, Ana P. Luna, Ludivine Taconnat, Xing Wang Deng, Eduardo R. BejaranoPlant Cell Mar 2011, 23 (3) 1014-1032; DOI: https://doi.org/10.1105/tpc.110.080267
This study shows that geminivirus C2/L2 protein interferes with the derubylation of CUL1. Responses regulated by the CUL1-based SCF ubiquitin ligases, and particularly the response to jasmonates, are altered in transgenic Arabidopsis thaliana expressing C2/L2. The capability to selectively interfere with SCF complexes may define a novel and powerful strategy in viral infections.
Bendahmane, Mohammed
- You have accessRestricted AccessAUXIN RESPONSE FACTOR8 Regulates Arabidopsis Petal Growth by Interacting with the bHLH Transcription Factor BIGPETALpEmilie Varaud, Florian Brioudes, Judit Szécsi, Julie Leroux, Spencer Brown, Catherine Perrot-Rechenmann, Mohammed BendahmanePlant Cell Mar 2011, 23 (3) 973-983; DOI: https://doi.org/10.1105/tpc.110.081653
This study defines a previously unknown combinatorial interaction between transcription factors in plants and provides a better understanding of how plants integrate signals to regulate petal development. It also highlights the role of a motif in the bHLH transcription factor that resembles a motif that was previously shown to be important in auxin signaling.
Benfey, Philip N.
- You have accessRestricted AccessIntercellular Communication during Plant DevelopmentJaimie M. Van Norman, Natalie W. Breakfield, Philip N. BenfeyPlant Cell Mar 2011, 23 (3) 855-864; DOI: https://doi.org/10.1105/tpc.111.082982
Berens, John C.
- You have accessRestricted AccessMultiple Facets of Arabidopsis Seedling Development Require Indole-3-Butyric Acid–Derived AuxinLucia C. Strader, Dorthea L. Wheeler, Sarah E. Christensen, John C. Berens, Jerry D. Cohen, Rebekah A. Rampey, Bonnie BartelPlant Cell Mar 2011, 23 (3) 984-999; DOI: https://doi.org/10.1105/tpc.111.083071
Plants synthesize the growth hormone indole-3-acetic acid using a variety of incompletely understood pathways. This work demonstrates that the conversion of indole-3-butyric acid to indole-3-acetic acid contributes to wide-ranging auxin-regulated processes in Arabidopsis seedlings and that shutting off this auxin supply renders seedlings less able to respond to exogenous auxin.
Berg, Howard
- You have accessRestricted AccessPatatin-Related Phospholipase pPLAIIIβ-Induced Changes in Lipid Metabolism Alter Cellulose Content and Cell Elongation in ArabidopsisMaoyin Li, Sung Chul Bahn, Liang Guo, William Musgrave, Howard Berg, Ruth Welti, Xuemin WangPlant Cell Mar 2011, 23 (3) 1107-1123; DOI: https://doi.org/10.1105/tpc.110.081240
Patatin-related phospholipase pPLAIIIβ lacks the canonical esterase catalytic center but possesses acyl-hydrolyzing and acyl-CoA thioesterase activities. Knockout and overexpression of pPLAIIIβ have opposite effects on the levels of membrane lipids, cellulose content, mechanical strength, and cell length. Thus, membrane lipid metabolism may be linked to cellulose production in Arabidopsis.
Berthet, Serge
- You have accessRestricted AccessDisruption of LACCASE4 and 17 Results in Tissue-Specific Alterations to Lignification of Arabidopsis thaliana StemsSerge Berthet, Nathalie Demont-Caulet, Brigitte Pollet, Przemyslaw Bidzinski, Laurent Cézard, Phillipe Le Bris, Nero Borrega, Jonathan Hervé, Eddy Blondet, Sandrine Balzergue, Catherine Lapierre, Lise JouaninPlant Cell Mar 2011, 23 (3) 1124-1137; DOI: https://doi.org/10.1105/tpc.110.082792
This study provides evidence that two laccases, LAC4 and LAC17, participate in the polymerization of lignins in Arabidopsis stems. These findings suggest that the genetic engineering of lignin-specific laccases is a potentially innovative and promising tool for the fine-tuning of lignin content and structure.
Bertoni, Gregory
- You have accessRestricted AccessIndolebutyric Acid–Derived Auxin and Plant DevelopmentGregory BertoniPlant Cell Mar 2011, 23 (3) 845; DOI: https://doi.org/10.1105/tpc.111.230312
Beynon, Jim
- Open AccessHigh-Resolution Temporal Profiling of Transcripts during Arabidopsis Leaf Senescence Reveals a Distinct Chronology of Processes and RegulationEmily Breeze, Elizabeth Harrison, Stuart McHattie, Linda Hughes, Richard Hickman, Claire Hill, Steven Kiddle, Youn-sung Kim, Christopher A. Penfold, Dafyd Jenkins, Cunjin Zhang, Karl Morris, Carol Jenner, Stephen Jackson, Brian Thomas, Alexandra Tabrett, Roxane Legaie, Jonathan D. Moore, David L. Wild, Sascha Ott, David Rand, Jim Beynon, Katherine Denby, Andrew Mead, Vicky Buchanan-WollastonPlant Cell Mar 2011, 23 (3) 873-894; DOI: https://doi.org/10.1105/tpc.111.083345
This work presents a high-resolution time-course analysis of gene expression during development of a leaf from expansion through senescence. Enrichment in ontologies, sequence motifs, and transcription factor families within genes showing altered expression over time identified both metabolic pathways and potential regulators active at different stages of leaf development and senescence.
Bidzinski, Przemyslaw
- You have accessRestricted AccessDisruption of LACCASE4 and 17 Results in Tissue-Specific Alterations to Lignification of Arabidopsis thaliana StemsSerge Berthet, Nathalie Demont-Caulet, Brigitte Pollet, Przemyslaw Bidzinski, Laurent Cézard, Phillipe Le Bris, Nero Borrega, Jonathan Hervé, Eddy Blondet, Sandrine Balzergue, Catherine Lapierre, Lise JouaninPlant Cell Mar 2011, 23 (3) 1124-1137; DOI: https://doi.org/10.1105/tpc.110.082792
This study provides evidence that two laccases, LAC4 and LAC17, participate in the polymerization of lignins in Arabidopsis stems. These findings suggest that the genetic engineering of lignin-specific laccases is a potentially innovative and promising tool for the fine-tuning of lignin content and structure.
Blondet, Eddy
- You have accessRestricted AccessDisruption of LACCASE4 and 17 Results in Tissue-Specific Alterations to Lignification of Arabidopsis thaliana StemsSerge Berthet, Nathalie Demont-Caulet, Brigitte Pollet, Przemyslaw Bidzinski, Laurent Cézard, Phillipe Le Bris, Nero Borrega, Jonathan Hervé, Eddy Blondet, Sandrine Balzergue, Catherine Lapierre, Lise JouaninPlant Cell Mar 2011, 23 (3) 1124-1137; DOI: https://doi.org/10.1105/tpc.110.082792
This study provides evidence that two laccases, LAC4 and LAC17, participate in the polymerization of lignins in Arabidopsis stems. These findings suggest that the genetic engineering of lignin-specific laccases is a potentially innovative and promising tool for the fine-tuning of lignin content and structure.
Böhlenius, Henrik
- You have accessRestricted AccessReply: On ARF1 Localizes to the Golgi and the Trans-Golgi Network: Future Challenge in Plant Multivesicular Body StudiesHans Thordal-Christensen, Henrik Böhlenius, Sara M. Mørch, Mads E. NielsenPlant Cell Mar 2011, 23 (3) 849-850; DOI: https://doi.org/10.1105/tpc.111.230340
Borrega, Nero
- You have accessRestricted AccessDisruption of LACCASE4 and 17 Results in Tissue-Specific Alterations to Lignification of Arabidopsis thaliana StemsSerge Berthet, Nathalie Demont-Caulet, Brigitte Pollet, Przemyslaw Bidzinski, Laurent Cézard, Phillipe Le Bris, Nero Borrega, Jonathan Hervé, Eddy Blondet, Sandrine Balzergue, Catherine Lapierre, Lise JouaninPlant Cell Mar 2011, 23 (3) 1124-1137; DOI: https://doi.org/10.1105/tpc.110.082792
This study provides evidence that two laccases, LAC4 and LAC17, participate in the polymerization of lignins in Arabidopsis stems. These findings suggest that the genetic engineering of lignin-specific laccases is a potentially innovative and promising tool for the fine-tuning of lignin content and structure.
Breakfield, Natalie W.
- You have accessRestricted AccessIntercellular Communication during Plant DevelopmentJaimie M. Van Norman, Natalie W. Breakfield, Philip N. BenfeyPlant Cell Mar 2011, 23 (3) 855-864; DOI: https://doi.org/10.1105/tpc.111.082982
Breeze, Emily
- Open AccessHigh-Resolution Temporal Profiling of Transcripts during Arabidopsis Leaf Senescence Reveals a Distinct Chronology of Processes and RegulationEmily Breeze, Elizabeth Harrison, Stuart McHattie, Linda Hughes, Richard Hickman, Claire Hill, Steven Kiddle, Youn-sung Kim, Christopher A. Penfold, Dafyd Jenkins, Cunjin Zhang, Karl Morris, Carol Jenner, Stephen Jackson, Brian Thomas, Alexandra Tabrett, Roxane Legaie, Jonathan D. Moore, David L. Wild, Sascha Ott, David Rand, Jim Beynon, Katherine Denby, Andrew Mead, Vicky Buchanan-WollastonPlant Cell Mar 2011, 23 (3) 873-894; DOI: https://doi.org/10.1105/tpc.111.083345
This work presents a high-resolution time-course analysis of gene expression during development of a leaf from expansion through senescence. Enrichment in ontologies, sequence motifs, and transcription factor families within genes showing altered expression over time identified both metabolic pathways and potential regulators active at different stages of leaf development and senescence.
Brioudes, Florian
- You have accessRestricted AccessAUXIN RESPONSE FACTOR8 Regulates Arabidopsis Petal Growth by Interacting with the bHLH Transcription Factor BIGPETALpEmilie Varaud, Florian Brioudes, Judit Szécsi, Julie Leroux, Spencer Brown, Catherine Perrot-Rechenmann, Mohammed BendahmanePlant Cell Mar 2011, 23 (3) 973-983; DOI: https://doi.org/10.1105/tpc.110.081653
This study defines a previously unknown combinatorial interaction between transcription factors in plants and provides a better understanding of how plants integrate signals to regulate petal development. It also highlights the role of a motif in the bHLH transcription factor that resembles a motif that was previously shown to be important in auxin signaling.
Brown, Spencer
- You have accessRestricted AccessAUXIN RESPONSE FACTOR8 Regulates Arabidopsis Petal Growth by Interacting with the bHLH Transcription Factor BIGPETALpEmilie Varaud, Florian Brioudes, Judit Szécsi, Julie Leroux, Spencer Brown, Catherine Perrot-Rechenmann, Mohammed BendahmanePlant Cell Mar 2011, 23 (3) 973-983; DOI: https://doi.org/10.1105/tpc.110.081653
This study defines a previously unknown combinatorial interaction between transcription factors in plants and provides a better understanding of how plants integrate signals to regulate petal development. It also highlights the role of a motif in the bHLH transcription factor that resembles a motif that was previously shown to be important in auxin signaling.
Buchanan-Wollaston, Vicky
- Open AccessHigh-Resolution Temporal Profiling of Transcripts during Arabidopsis Leaf Senescence Reveals a Distinct Chronology of Processes and RegulationEmily Breeze, Elizabeth Harrison, Stuart McHattie, Linda Hughes, Richard Hickman, Claire Hill, Steven Kiddle, Youn-sung Kim, Christopher A. Penfold, Dafyd Jenkins, Cunjin Zhang, Karl Morris, Carol Jenner, Stephen Jackson, Brian Thomas, Alexandra Tabrett, Roxane Legaie, Jonathan D. Moore, David L. Wild, Sascha Ott, David Rand, Jim Beynon, Katherine Denby, Andrew Mead, Vicky Buchanan-WollastonPlant Cell Mar 2011, 23 (3) 873-894; DOI: https://doi.org/10.1105/tpc.111.083345
This work presents a high-resolution time-course analysis of gene expression during development of a leaf from expansion through senescence. Enrichment in ontologies, sequence motifs, and transcription factor families within genes showing altered expression over time identified both metabolic pathways and potential regulators active at different stages of leaf development and senescence.
Busscher-Lange, Jacqueline
- You have accessRestricted AccessTranscriptome and Metabolite Profiling Show That APETALA2a Is a Major Regulator of Tomato Fruit RipeningRumyana Karlova, Faye M. Rosin, Jacqueline Busscher-Lange, Violeta Parapunova, Phuc T. Do, Alisdair R. Fernie, Paul D. Fraser, Charles Baxter, Gerco C. Angenent, Ruud A. de MaagdPlant Cell Mar 2011, 23 (3) 923-941; DOI: https://doi.org/10.1105/tpc.110.081273
This study demonstrates that the tomato APETALA2a (AP2a) transcription factor modulates fruit ripening by negatively regulating ethylene biosynthesis and signaling. Various ripening regulators are shown to act upstream of AP2a. Gene expression analysis reveals that AP2a is involved in chloroplast to chromoplast transition.
C
Cahoon, Edgar B.
- Open AccessSphingolipids in the Root Play an Important Role in Regulating the Leaf Ionome in Arabidopsis thalianaDai-Yin Chao, Kenneth Gable, Ming Chen, Ivan Baxter, Charles R. Dietrich, Edgar B. Cahoon, Mary Lou Guerinot, Brett Lahner, Shiyou Lü, Jonathan E. Markham, Joe Morrissey, Gongshe Han, Sita D. Gupta, Jeffrey M. Harmon, Jan G. Jaworski, Teresa M. Dunn, David E. SaltPlant Cell Mar 2011, 23 (3) 1061-1081; DOI: https://doi.org/10.1105/tpc.110.079095
Sphingolipids are a diverse group of essential membrane lipids thought to play important roles in both membrane function and cellular signaling. By identifying an Arabidopsis thaliana mutant lacking 3-ketodihydrosphinganine reductase, a critical enzyme in sphingolipid biosynthesis, this work uncovers a connection between sphingolipid metabolism in roots and whole-plant mineral ion homeostasis.
Campbell, Malcolm M.
- Open AccessPlaNet: Combined Sequence and Expression Comparisons across Plant Networks Derived from Seven SpeciesMarek Mutwil, Sebastian Klie, Takayuki Tohge, Federico M. Giorgi, Olivia Wilkins, Malcolm M. Campbell, Alisdair R. Fernie, Björn Usadel, Zoran Nikoloski, Staffan PerssonPlant Cell Mar 2011, 23 (3) 895-910; DOI: https://doi.org/10.1105/tpc.111.083667
Genes that are similarly expressed, or coexpressed, are often involved in related biological processes. Such coexpressed relationships also appear to be conserved across species. The PlaNet platform enables comparative analysis of genome-wide coexpression networks across seven plant species, thus enabling prediction of gene function and elucidation of the identity of functional homologs.
Cézard, Laurent
- You have accessRestricted AccessDisruption of LACCASE4 and 17 Results in Tissue-Specific Alterations to Lignification of Arabidopsis thaliana StemsSerge Berthet, Nathalie Demont-Caulet, Brigitte Pollet, Przemyslaw Bidzinski, Laurent Cézard, Phillipe Le Bris, Nero Borrega, Jonathan Hervé, Eddy Blondet, Sandrine Balzergue, Catherine Lapierre, Lise JouaninPlant Cell Mar 2011, 23 (3) 1124-1137; DOI: https://doi.org/10.1105/tpc.110.082792
This study provides evidence that two laccases, LAC4 and LAC17, participate in the polymerization of lignins in Arabidopsis stems. These findings suggest that the genetic engineering of lignin-specific laccases is a potentially innovative and promising tool for the fine-tuning of lignin content and structure.
Chang, Changqing
- You have accessRestricted AccessThe Jasmonate-ZIM Domain Proteins Interact with the R2R3-MYB Transcription Factors MYB21 and MYB24 to Affect Jasmonate-Regulated Stamen Development in ArabidopsisSusheng Song, Tiancong Qi, Huang Huang, Qingcuo Ren, Dewei Wu, Changqing Chang, Wen Peng, Yule Liu, Jinrong Peng, Daoxin XiePlant Cell Mar 2011, 23 (3) 1000-1013; DOI: https://doi.org/10.1105/tpc.111.083089
Jasmonate is essential for diverse biological processes, including male fertility and plant defense in Arabidopsis. This work shows that the R2R3-MYB transcription factors MYB21 and MYB24 function as direct targets of JAZ proteins to mediate jasmonate-regulated stamen development.
Chao, Dai-Yin
- Open AccessSphingolipids in the Root Play an Important Role in Regulating the Leaf Ionome in Arabidopsis thalianaDai-Yin Chao, Kenneth Gable, Ming Chen, Ivan Baxter, Charles R. Dietrich, Edgar B. Cahoon, Mary Lou Guerinot, Brett Lahner, Shiyou Lü, Jonathan E. Markham, Joe Morrissey, Gongshe Han, Sita D. Gupta, Jeffrey M. Harmon, Jan G. Jaworski, Teresa M. Dunn, David E. SaltPlant Cell Mar 2011, 23 (3) 1061-1081; DOI: https://doi.org/10.1105/tpc.110.079095
Sphingolipids are a diverse group of essential membrane lipids thought to play important roles in both membrane function and cellular signaling. By identifying an Arabidopsis thaliana mutant lacking 3-ketodihydrosphinganine reductase, a critical enzyme in sphingolipid biosynthesis, this work uncovers a connection between sphingolipid metabolism in roots and whole-plant mineral ion homeostasis.
Chen, Ming
- Open AccessSphingolipids in the Root Play an Important Role in Regulating the Leaf Ionome in Arabidopsis thalianaDai-Yin Chao, Kenneth Gable, Ming Chen, Ivan Baxter, Charles R. Dietrich, Edgar B. Cahoon, Mary Lou Guerinot, Brett Lahner, Shiyou Lü, Jonathan E. Markham, Joe Morrissey, Gongshe Han, Sita D. Gupta, Jeffrey M. Harmon, Jan G. Jaworski, Teresa M. Dunn, David E. SaltPlant Cell Mar 2011, 23 (3) 1061-1081; DOI: https://doi.org/10.1105/tpc.110.079095
Sphingolipids are a diverse group of essential membrane lipids thought to play important roles in both membrane function and cellular signaling. By identifying an Arabidopsis thaliana mutant lacking 3-ketodihydrosphinganine reductase, a critical enzyme in sphingolipid biosynthesis, this work uncovers a connection between sphingolipid metabolism in roots and whole-plant mineral ion homeostasis.
Chen, Xin
- Open AccessThe Predicted Arabidopsis Interactome Resource and Network Topology-Based Systems Biology AnalysesMingzhi Lin, Xi Zhou, Xueling Shen, Chuanzao Mao, Xin ChenPlant Cell Mar 2011, 23 (3) 911-922; DOI: https://doi.org/10.1105/tpc.110.082529
Protein–protein interactions are important mechanisms for genes and gene networks to function. This study demonstrates that, although the PAIR database has limited coverage, representing ~24% of the entire interactome with ~40% precision, it is rich enough to capture many significant functional linkages within and between higher-order biological systems, such as pathways and biological processes.
Chen, Xuemei
- You have accessRestricted AccessThe Anaphase-Promoting Complex Is a Dual Integrator That Regulates Both MicroRNA-Mediated Transcriptional Regulation of Cyclin B1 and Degradation of Cyclin B1 during Arabidopsis Male Gametophyte DevelopmentBinglian Zheng, Xuemei Chen, Sheila McCormickPlant Cell Mar 2011, 23 (3) 1033-1046; DOI: https://doi.org/10.1105/tpc.111.083980
This study shows that, in addition to its known role in protein degradation, the anaphase-promoting complex also regulates transcription of a cell cycle gene, Cyclin B1, and that this regulation, which is mediated by microRNA, is important for pollen development.
Chen, Zi-Wei
- Open AccessArabidopsis Kinesin KP1 Specifically Interacts with VDAC3, a Mitochondrial Protein, and Regulates Respiration during Seed Germination at Low TemperatureXue-Yong Yang, Zi-Wei Chen, Tao Xu, Zhe Qu, Xiao-Di Pan, Xing-Hua Qin, Dong-Tao Ren, Guo-Qin LiuPlant Cell Mar 2011, 23 (3) 1093-1106; DOI: https://doi.org/10.1105/tpc.110.082420
A plant-specific molecular motor (KP1) specifically interacts with a channel protein (VDAC3) of the mitochondrial outer membrane and is targeted to mitochondria via its tail domain. In seedlings germinated at 4°C, either mutant of the two genes exhibited increased oxygen consumption, respiration imbalance, and reduced ATP levels.
Christensen, Sarah E.
- You have accessRestricted AccessMultiple Facets of Arabidopsis Seedling Development Require Indole-3-Butyric Acid–Derived AuxinLucia C. Strader, Dorthea L. Wheeler, Sarah E. Christensen, John C. Berens, Jerry D. Cohen, Rebekah A. Rampey, Bonnie BartelPlant Cell Mar 2011, 23 (3) 984-999; DOI: https://doi.org/10.1105/tpc.111.083071
Plants synthesize the growth hormone indole-3-acetic acid using a variety of incompletely understood pathways. This work demonstrates that the conversion of indole-3-butyric acid to indole-3-acetic acid contributes to wide-ranging auxin-regulated processes in Arabidopsis seedlings and that shutting off this auxin supply renders seedlings less able to respond to exogenous auxin.
Cohen, Jerry D.
- You have accessRestricted AccessMultiple Facets of Arabidopsis Seedling Development Require Indole-3-Butyric Acid–Derived AuxinLucia C. Strader, Dorthea L. Wheeler, Sarah E. Christensen, John C. Berens, Jerry D. Cohen, Rebekah A. Rampey, Bonnie BartelPlant Cell Mar 2011, 23 (3) 984-999; DOI: https://doi.org/10.1105/tpc.111.083071
Plants synthesize the growth hormone indole-3-acetic acid using a variety of incompletely understood pathways. This work demonstrates that the conversion of indole-3-butyric acid to indole-3-acetic acid contributes to wide-ranging auxin-regulated processes in Arabidopsis seedlings and that shutting off this auxin supply renders seedlings less able to respond to exogenous auxin.
Colombo, Lucia
- You have accessRestricted AccessThe Emerging Importance of Type I MADS Box Transcription Factors for Plant ReproductionSimona Masiero, Lucia Colombo, Paul E Grini, Arp Schnittger, Martin M KaterPlant Cell Mar 2011, 23 (3) 865-872; DOI: https://doi.org/10.1105/tpc.110.081737
Based on their evolutionary origin, MADS box transcription factor genes have been divided into two classes, namely, type I and II. The plant-specific type II MIKC MADS box genes have been most intensively studied and shown to be key regulators of developmental processes, such as meristem identity, flowering time, and fruit and seed development. By contrast, very little is known about type I MADS domain transcription factors, and they have not attracted interest for a long time. A number of recent studies have now indicated a key regulatory role for type I MADS box factors in plant reproduction, in particular in specifying female gametophyte, embryo, and endosperm development. These analyses have also suggested that type I MADS box factors are decisive for setting reproductive boundaries between species.
D
Dai, Shunhong
- You have accessRestricted AccessBROTHER OF LUX ARRHYTHMO Is a Component of the Arabidopsis Circadian ClockShunhong Dai, Xiaoping Wei, Liping Pei, Rebecca L. Thompson, Yi Liu, Jacqueline E. Heard, Thomas G. Ruff, Roger N. BeachyPlant Cell Mar 2011, 23 (3) 961-972; DOI: https://doi.org/10.1105/tpc.111.084293
This work shows that the Arabidopsis transcription factor BROTHER OF LUX ARRHYTHMO (BOA) is an activator in regulating the expression of CIRCADIAN CLOCK ASSOCIATED1 (CCA1). BOA forms a transcriptional feedback loop with CCA1 and regulates circadian rhythms in Arabidopsis.
Danilevskaya, Olga N.
- Open AccessThe FT-Like ZCN8 Gene Functions as a Floral Activator and Is Involved in Photoperiod Sensitivity in MaizeXin Meng, Michael G. Muszynski, Olga N. DanilevskayaPlant Cell Mar 2011, 23 (3) 942-960; DOI: https://doi.org/10.1105/tpc.110.081406
The transition from vegetative to reproductive development is regulated by the activity of graft-transmissible flowering hormone, florigen, which is encoded by the FLOWERING LOCUS T (FT) family of mobile proteins. This work identified, among many maize FT-like genes, a single gene, ZCN8, which has all required characteristics to function as florigen.
de Maagd, Ruud A.
- You have accessRestricted AccessTranscriptome and Metabolite Profiling Show That APETALA2a Is a Major Regulator of Tomato Fruit RipeningRumyana Karlova, Faye M. Rosin, Jacqueline Busscher-Lange, Violeta Parapunova, Phuc T. Do, Alisdair R. Fernie, Paul D. Fraser, Charles Baxter, Gerco C. Angenent, Ruud A. de MaagdPlant Cell Mar 2011, 23 (3) 923-941; DOI: https://doi.org/10.1105/tpc.110.081273
This study demonstrates that the tomato APETALA2a (AP2a) transcription factor modulates fruit ripening by negatively regulating ethylene biosynthesis and signaling. Various ripening regulators are shown to act upstream of AP2a. Gene expression analysis reveals that AP2a is involved in chloroplast to chromoplast transition.
Demont-Caulet, Nathalie
- You have accessRestricted AccessDisruption of LACCASE4 and 17 Results in Tissue-Specific Alterations to Lignification of Arabidopsis thaliana StemsSerge Berthet, Nathalie Demont-Caulet, Brigitte Pollet, Przemyslaw Bidzinski, Laurent Cézard, Phillipe Le Bris, Nero Borrega, Jonathan Hervé, Eddy Blondet, Sandrine Balzergue, Catherine Lapierre, Lise JouaninPlant Cell Mar 2011, 23 (3) 1124-1137; DOI: https://doi.org/10.1105/tpc.110.082792
This study provides evidence that two laccases, LAC4 and LAC17, participate in the polymerization of lignins in Arabidopsis stems. These findings suggest that the genetic engineering of lignin-specific laccases is a potentially innovative and promising tool for the fine-tuning of lignin content and structure.
Denby, Katherine
- Open AccessHigh-Resolution Temporal Profiling of Transcripts during Arabidopsis Leaf Senescence Reveals a Distinct Chronology of Processes and RegulationEmily Breeze, Elizabeth Harrison, Stuart McHattie, Linda Hughes, Richard Hickman, Claire Hill, Steven Kiddle, Youn-sung Kim, Christopher A. Penfold, Dafyd Jenkins, Cunjin Zhang, Karl Morris, Carol Jenner, Stephen Jackson, Brian Thomas, Alexandra Tabrett, Roxane Legaie, Jonathan D. Moore, David L. Wild, Sascha Ott, David Rand, Jim Beynon, Katherine Denby, Andrew Mead, Vicky Buchanan-WollastonPlant Cell Mar 2011, 23 (3) 873-894; DOI: https://doi.org/10.1105/tpc.111.083345
This work presents a high-resolution time-course analysis of gene expression during development of a leaf from expansion through senescence. Enrichment in ontologies, sequence motifs, and transcription factor families within genes showing altered expression over time identified both metabolic pathways and potential regulators active at different stages of leaf development and senescence.
Deng, Xing Wang
- You have accessRestricted AccessGeminiviruses Subvert Ubiquitination by Altering CSN-Mediated Derubylation of SCF E3 Ligase Complexes and Inhibit Jasmonate Signaling in Arabidopsis thalianaRosa Lozano-Durán, Tabata Rosas-Díaz, Giuliana Gusmaroli, Ana P. Luna, Ludivine Taconnat, Xing Wang Deng, Eduardo R. BejaranoPlant Cell Mar 2011, 23 (3) 1014-1032; DOI: https://doi.org/10.1105/tpc.110.080267
This study shows that geminivirus C2/L2 protein interferes with the derubylation of CUL1. Responses regulated by the CUL1-based SCF ubiquitin ligases, and particularly the response to jasmonates, are altered in transgenic Arabidopsis thaliana expressing C2/L2. The capability to selectively interfere with SCF complexes may define a novel and powerful strategy in viral infections.
Dietrich, Charles R.
- Open AccessSphingolipids in the Root Play an Important Role in Regulating the Leaf Ionome in Arabidopsis thalianaDai-Yin Chao, Kenneth Gable, Ming Chen, Ivan Baxter, Charles R. Dietrich, Edgar B. Cahoon, Mary Lou Guerinot, Brett Lahner, Shiyou Lü, Jonathan E. Markham, Joe Morrissey, Gongshe Han, Sita D. Gupta, Jeffrey M. Harmon, Jan G. Jaworski, Teresa M. Dunn, David E. SaltPlant Cell Mar 2011, 23 (3) 1061-1081; DOI: https://doi.org/10.1105/tpc.110.079095
Sphingolipids are a diverse group of essential membrane lipids thought to play important roles in both membrane function and cellular signaling. By identifying an Arabidopsis thaliana mutant lacking 3-ketodihydrosphinganine reductase, a critical enzyme in sphingolipid biosynthesis, this work uncovers a connection between sphingolipid metabolism in roots and whole-plant mineral ion homeostasis.
Di Mambro, Riccardo
- You have accessRestricted AccessThe CHD3 Chromatin Remodeler PICKLE and Polycomb Group Proteins Antagonistically Regulate Meristem Activity in the Arabidopsis RootErnst Aichinger, Corina B.R. Villar, Riccardo Di Mambro, Sabrina Sabatini, Claudia KöhlerPlant Cell Mar 2011, 23 (3) 1047-1060; DOI: https://doi.org/10.1105/tpc.111.083352
We report that the chromatin remodeling factor PICKLE and Polycomb group proteins antagonistically determine cell identity. Our study highlights an important role of PICKLE and Polycomb group proteins in regulating root meristem activity by regulating the expression of root stem cell and meristem marker genes.
Di Pietro, Antonio
- You have accessRestricted AccessThe Membrane Mucin Msb2 Regulates Invasive Growth and Plant Infection in Fusarium oxysporumElena Pérez-Nadales, Antonio Di PietroPlant Cell Mar 2011, 23 (3) 1171-1185; DOI: https://doi.org/10.1105/tpc.110.075093
This study examines the activation of a conserved mitogen-activated protein kinase (MAPK) cascade that is essential for fungal pathogenicity in plants. A highly glycosylated mucin-like transmembrane protein is shown to contribute to phosphorylation of the MAPK that promotes invasive growth and virulence in the soilborne vascular wilt fungus Fusarium oxysporum.
Do, Phuc T.
- You have accessRestricted AccessTranscriptome and Metabolite Profiling Show That APETALA2a Is a Major Regulator of Tomato Fruit RipeningRumyana Karlova, Faye M. Rosin, Jacqueline Busscher-Lange, Violeta Parapunova, Phuc T. Do, Alisdair R. Fernie, Paul D. Fraser, Charles Baxter, Gerco C. Angenent, Ruud A. de MaagdPlant Cell Mar 2011, 23 (3) 923-941; DOI: https://doi.org/10.1105/tpc.110.081273
This study demonstrates that the tomato APETALA2a (AP2a) transcription factor modulates fruit ripening by negatively regulating ethylene biosynthesis and signaling. Various ripening regulators are shown to act upstream of AP2a. Gene expression analysis reveals that AP2a is involved in chloroplast to chromoplast transition.
Dunn, Teresa M.
- Open AccessSphingolipids in the Root Play an Important Role in Regulating the Leaf Ionome in Arabidopsis thalianaDai-Yin Chao, Kenneth Gable, Ming Chen, Ivan Baxter, Charles R. Dietrich, Edgar B. Cahoon, Mary Lou Guerinot, Brett Lahner, Shiyou Lü, Jonathan E. Markham, Joe Morrissey, Gongshe Han, Sita D. Gupta, Jeffrey M. Harmon, Jan G. Jaworski, Teresa M. Dunn, David E. SaltPlant Cell Mar 2011, 23 (3) 1061-1081; DOI: https://doi.org/10.1105/tpc.110.079095
Sphingolipids are a diverse group of essential membrane lipids thought to play important roles in both membrane function and cellular signaling. By identifying an Arabidopsis thaliana mutant lacking 3-ketodihydrosphinganine reductase, a critical enzyme in sphingolipid biosynthesis, this work uncovers a connection between sphingolipid metabolism in roots and whole-plant mineral ion homeostasis.
F
Fernie, Alisdair R.
- Open AccessPlaNet: Combined Sequence and Expression Comparisons across Plant Networks Derived from Seven SpeciesMarek Mutwil, Sebastian Klie, Takayuki Tohge, Federico M. Giorgi, Olivia Wilkins, Malcolm M. Campbell, Alisdair R. Fernie, Björn Usadel, Zoran Nikoloski, Staffan PerssonPlant Cell Mar 2011, 23 (3) 895-910; DOI: https://doi.org/10.1105/tpc.111.083667
Genes that are similarly expressed, or coexpressed, are often involved in related biological processes. Such coexpressed relationships also appear to be conserved across species. The PlaNet platform enables comparative analysis of genome-wide coexpression networks across seven plant species, thus enabling prediction of gene function and elucidation of the identity of functional homologs.
- You have accessRestricted AccessTranscriptome and Metabolite Profiling Show That APETALA2a Is a Major Regulator of Tomato Fruit RipeningRumyana Karlova, Faye M. Rosin, Jacqueline Busscher-Lange, Violeta Parapunova, Phuc T. Do, Alisdair R. Fernie, Paul D. Fraser, Charles Baxter, Gerco C. Angenent, Ruud A. de MaagdPlant Cell Mar 2011, 23 (3) 923-941; DOI: https://doi.org/10.1105/tpc.110.081273
This study demonstrates that the tomato APETALA2a (AP2a) transcription factor modulates fruit ripening by negatively regulating ethylene biosynthesis and signaling. Various ripening regulators are shown to act upstream of AP2a. Gene expression analysis reveals that AP2a is involved in chloroplast to chromoplast transition.
Fraser, Paul D.
- You have accessRestricted AccessTranscriptome and Metabolite Profiling Show That APETALA2a Is a Major Regulator of Tomato Fruit RipeningRumyana Karlova, Faye M. Rosin, Jacqueline Busscher-Lange, Violeta Parapunova, Phuc T. Do, Alisdair R. Fernie, Paul D. Fraser, Charles Baxter, Gerco C. Angenent, Ruud A. de MaagdPlant Cell Mar 2011, 23 (3) 923-941; DOI: https://doi.org/10.1105/tpc.110.081273
This study demonstrates that the tomato APETALA2a (AP2a) transcription factor modulates fruit ripening by negatively regulating ethylene biosynthesis and signaling. Various ripening regulators are shown to act upstream of AP2a. Gene expression analysis reveals that AP2a is involved in chloroplast to chromoplast transition.
Friml, Jirí
- You have accessRestricted AccessARF1 Localizes to the Golgi and the Trans-Golgi NetworkDavid G. Robinson, David Scheuring, Satoshi Naramoto, Jirí FrimlPlant Cell Mar 2011, 23 (3) 846-849; DOI: https://doi.org/10.1105/tpc.110.082099
Friso, Giulia
- You have accessRestricted AccessAPO1 Promotes the Splicing of Chloroplast Group II Introns and Harbors a Plant-Specific Zinc-Dependent RNA Binding DomainKenneth P. Watkins, Margarita Rojas, Giulia Friso, Klaas J. van Wijk, Jörg Meurer, Alice BarkanPlant Cell Mar 2011, 23 (3) 1082-1092; DOI: https://doi.org/10.1105/tpc.111.084335
This study demonstrates that APO1, originally proposed to be involved in the maturation of proteins with [4Fe-4S] ligands, is instead required for the splicing of several chloroplast introns. It shows further that DUF794, the plant-specific domain of unknown function that makes up the bulk of APO1, is an RNA binding domain harboring zinc binding motifs.
G
Gable, Kenneth
- Open AccessSphingolipids in the Root Play an Important Role in Regulating the Leaf Ionome in Arabidopsis thalianaDai-Yin Chao, Kenneth Gable, Ming Chen, Ivan Baxter, Charles R. Dietrich, Edgar B. Cahoon, Mary Lou Guerinot, Brett Lahner, Shiyou Lü, Jonathan E. Markham, Joe Morrissey, Gongshe Han, Sita D. Gupta, Jeffrey M. Harmon, Jan G. Jaworski, Teresa M. Dunn, David E. SaltPlant Cell Mar 2011, 23 (3) 1061-1081; DOI: https://doi.org/10.1105/tpc.110.079095
Sphingolipids are a diverse group of essential membrane lipids thought to play important roles in both membrane function and cellular signaling. By identifying an Arabidopsis thaliana mutant lacking 3-ketodihydrosphinganine reductase, a critical enzyme in sphingolipid biosynthesis, this work uncovers a connection between sphingolipid metabolism in roots and whole-plant mineral ion homeostasis.
Giorgi, Federico M.
- Open AccessPlaNet: Combined Sequence and Expression Comparisons across Plant Networks Derived from Seven SpeciesMarek Mutwil, Sebastian Klie, Takayuki Tohge, Federico M. Giorgi, Olivia Wilkins, Malcolm M. Campbell, Alisdair R. Fernie, Björn Usadel, Zoran Nikoloski, Staffan PerssonPlant Cell Mar 2011, 23 (3) 895-910; DOI: https://doi.org/10.1105/tpc.111.083667
Genes that are similarly expressed, or coexpressed, are often involved in related biological processes. Such coexpressed relationships also appear to be conserved across species. The PlaNet platform enables comparative analysis of genome-wide coexpression networks across seven plant species, thus enabling prediction of gene function and elucidation of the identity of functional homologs.
Go, Young Sam
- You have accessRestricted AccessThe MYB96 Transcription Factor Regulates Cuticular Wax Biosynthesis under Drought Conditions in ArabidopsisPil Joon Seo, Saet Buyl Lee, Mi Chung Suh, Mi-Jeong Park, Young Sam Go, Chung-Mo ParkPlant Cell Mar 2011, 23 (3) 1138-1152; DOI: https://doi.org/10.1105/tpc.111.083485
This work provides evidence that deposition of cuticular waxes is intimately associated with plant responses to drought. The Arabidopsis MYB96 transcription factor functions as a regulator of ABA-mediated cuticular wax biosynthesis under drought conditions by binding directly to the promoters of genes encoding very-long-chain fatty acid–condensing enzymes involved in cuticular wax biosynthesis.
Grini, Paul E
- You have accessRestricted AccessThe Emerging Importance of Type I MADS Box Transcription Factors for Plant ReproductionSimona Masiero, Lucia Colombo, Paul E Grini, Arp Schnittger, Martin M KaterPlant Cell Mar 2011, 23 (3) 865-872; DOI: https://doi.org/10.1105/tpc.110.081737
Based on their evolutionary origin, MADS box transcription factor genes have been divided into two classes, namely, type I and II. The plant-specific type II MIKC MADS box genes have been most intensively studied and shown to be key regulators of developmental processes, such as meristem identity, flowering time, and fruit and seed development. By contrast, very little is known about type I MADS domain transcription factors, and they have not attracted interest for a long time. A number of recent studies have now indicated a key regulatory role for type I MADS box factors in plant reproduction, in particular in specifying female gametophyte, embryo, and endosperm development. These analyses have also suggested that type I MADS box factors are decisive for setting reproductive boundaries between species.
Guerinot, Mary Lou
- Open AccessSphingolipids in the Root Play an Important Role in Regulating the Leaf Ionome in Arabidopsis thalianaDai-Yin Chao, Kenneth Gable, Ming Chen, Ivan Baxter, Charles R. Dietrich, Edgar B. Cahoon, Mary Lou Guerinot, Brett Lahner, Shiyou Lü, Jonathan E. Markham, Joe Morrissey, Gongshe Han, Sita D. Gupta, Jeffrey M. Harmon, Jan G. Jaworski, Teresa M. Dunn, David E. SaltPlant Cell Mar 2011, 23 (3) 1061-1081; DOI: https://doi.org/10.1105/tpc.110.079095
Sphingolipids are a diverse group of essential membrane lipids thought to play important roles in both membrane function and cellular signaling. By identifying an Arabidopsis thaliana mutant lacking 3-ketodihydrosphinganine reductase, a critical enzyme in sphingolipid biosynthesis, this work uncovers a connection between sphingolipid metabolism in roots and whole-plant mineral ion homeostasis.
Guo, Liang
- You have accessRestricted AccessPatatin-Related Phospholipase pPLAIIIβ-Induced Changes in Lipid Metabolism Alter Cellulose Content and Cell Elongation in ArabidopsisMaoyin Li, Sung Chul Bahn, Liang Guo, William Musgrave, Howard Berg, Ruth Welti, Xuemin WangPlant Cell Mar 2011, 23 (3) 1107-1123; DOI: https://doi.org/10.1105/tpc.110.081240
Patatin-related phospholipase pPLAIIIβ lacks the canonical esterase catalytic center but possesses acyl-hydrolyzing and acyl-CoA thioesterase activities. Knockout and overexpression of pPLAIIIβ have opposite effects on the levels of membrane lipids, cellulose content, mechanical strength, and cell length. Thus, membrane lipid metabolism may be linked to cellulose production in Arabidopsis.
Gupta, Sita D.
- Open AccessSphingolipids in the Root Play an Important Role in Regulating the Leaf Ionome in Arabidopsis thalianaDai-Yin Chao, Kenneth Gable, Ming Chen, Ivan Baxter, Charles R. Dietrich, Edgar B. Cahoon, Mary Lou Guerinot, Brett Lahner, Shiyou Lü, Jonathan E. Markham, Joe Morrissey, Gongshe Han, Sita D. Gupta, Jeffrey M. Harmon, Jan G. Jaworski, Teresa M. Dunn, David E. SaltPlant Cell Mar 2011, 23 (3) 1061-1081; DOI: https://doi.org/10.1105/tpc.110.079095
Sphingolipids are a diverse group of essential membrane lipids thought to play important roles in both membrane function and cellular signaling. By identifying an Arabidopsis thaliana mutant lacking 3-ketodihydrosphinganine reductase, a critical enzyme in sphingolipid biosynthesis, this work uncovers a connection between sphingolipid metabolism in roots and whole-plant mineral ion homeostasis.
Gusmaroli, Giuliana
- You have accessRestricted AccessGeminiviruses Subvert Ubiquitination by Altering CSN-Mediated Derubylation of SCF E3 Ligase Complexes and Inhibit Jasmonate Signaling in Arabidopsis thalianaRosa Lozano-Durán, Tabata Rosas-Díaz, Giuliana Gusmaroli, Ana P. Luna, Ludivine Taconnat, Xing Wang Deng, Eduardo R. BejaranoPlant Cell Mar 2011, 23 (3) 1014-1032; DOI: https://doi.org/10.1105/tpc.110.080267
This study shows that geminivirus C2/L2 protein interferes with the derubylation of CUL1. Responses regulated by the CUL1-based SCF ubiquitin ligases, and particularly the response to jasmonates, are altered in transgenic Arabidopsis thaliana expressing C2/L2. The capability to selectively interfere with SCF complexes may define a novel and powerful strategy in viral infections.
H
Han, Gongshe
- Open AccessSphingolipids in the Root Play an Important Role in Regulating the Leaf Ionome in Arabidopsis thalianaDai-Yin Chao, Kenneth Gable, Ming Chen, Ivan Baxter, Charles R. Dietrich, Edgar B. Cahoon, Mary Lou Guerinot, Brett Lahner, Shiyou Lü, Jonathan E. Markham, Joe Morrissey, Gongshe Han, Sita D. Gupta, Jeffrey M. Harmon, Jan G. Jaworski, Teresa M. Dunn, David E. SaltPlant Cell Mar 2011, 23 (3) 1061-1081; DOI: https://doi.org/10.1105/tpc.110.079095
Sphingolipids are a diverse group of essential membrane lipids thought to play important roles in both membrane function and cellular signaling. By identifying an Arabidopsis thaliana mutant lacking 3-ketodihydrosphinganine reductase, a critical enzyme in sphingolipid biosynthesis, this work uncovers a connection between sphingolipid metabolism in roots and whole-plant mineral ion homeostasis.
Harmon, Jeffrey M.
- Open AccessSphingolipids in the Root Play an Important Role in Regulating the Leaf Ionome in Arabidopsis thalianaDai-Yin Chao, Kenneth Gable, Ming Chen, Ivan Baxter, Charles R. Dietrich, Edgar B. Cahoon, Mary Lou Guerinot, Brett Lahner, Shiyou Lü, Jonathan E. Markham, Joe Morrissey, Gongshe Han, Sita D. Gupta, Jeffrey M. Harmon, Jan G. Jaworski, Teresa M. Dunn, David E. SaltPlant Cell Mar 2011, 23 (3) 1061-1081; DOI: https://doi.org/10.1105/tpc.110.079095
Sphingolipids are a diverse group of essential membrane lipids thought to play important roles in both membrane function and cellular signaling. By identifying an Arabidopsis thaliana mutant lacking 3-ketodihydrosphinganine reductase, a critical enzyme in sphingolipid biosynthesis, this work uncovers a connection between sphingolipid metabolism in roots and whole-plant mineral ion homeostasis.
Harrison, Elizabeth
- Open AccessHigh-Resolution Temporal Profiling of Transcripts during Arabidopsis Leaf Senescence Reveals a Distinct Chronology of Processes and RegulationEmily Breeze, Elizabeth Harrison, Stuart McHattie, Linda Hughes, Richard Hickman, Claire Hill, Steven Kiddle, Youn-sung Kim, Christopher A. Penfold, Dafyd Jenkins, Cunjin Zhang, Karl Morris, Carol Jenner, Stephen Jackson, Brian Thomas, Alexandra Tabrett, Roxane Legaie, Jonathan D. Moore, David L. Wild, Sascha Ott, David Rand, Jim Beynon, Katherine Denby, Andrew Mead, Vicky Buchanan-WollastonPlant Cell Mar 2011, 23 (3) 873-894; DOI: https://doi.org/10.1105/tpc.111.083345
This work presents a high-resolution time-course analysis of gene expression during development of a leaf from expansion through senescence. Enrichment in ontologies, sequence motifs, and transcription factor families within genes showing altered expression over time identified both metabolic pathways and potential regulators active at different stages of leaf development and senescence.
Heard, Jacqueline E.
- You have accessRestricted AccessBROTHER OF LUX ARRHYTHMO Is a Component of the Arabidopsis Circadian ClockShunhong Dai, Xiaoping Wei, Liping Pei, Rebecca L. Thompson, Yi Liu, Jacqueline E. Heard, Thomas G. Ruff, Roger N. BeachyPlant Cell Mar 2011, 23 (3) 961-972; DOI: https://doi.org/10.1105/tpc.111.084293
This work shows that the Arabidopsis transcription factor BROTHER OF LUX ARRHYTHMO (BOA) is an activator in regulating the expression of CIRCADIAN CLOCK ASSOCIATED1 (CCA1). BOA forms a transcriptional feedback loop with CCA1 and regulates circadian rhythms in Arabidopsis.
Hervé, Jonathan
- You have accessRestricted AccessDisruption of LACCASE4 and 17 Results in Tissue-Specific Alterations to Lignification of Arabidopsis thaliana StemsSerge Berthet, Nathalie Demont-Caulet, Brigitte Pollet, Przemyslaw Bidzinski, Laurent Cézard, Phillipe Le Bris, Nero Borrega, Jonathan Hervé, Eddy Blondet, Sandrine Balzergue, Catherine Lapierre, Lise JouaninPlant Cell Mar 2011, 23 (3) 1124-1137; DOI: https://doi.org/10.1105/tpc.110.082792
This study provides evidence that two laccases, LAC4 and LAC17, participate in the polymerization of lignins in Arabidopsis stems. These findings suggest that the genetic engineering of lignin-specific laccases is a potentially innovative and promising tool for the fine-tuning of lignin content and structure.
Hickman, Richard
- Open AccessHigh-Resolution Temporal Profiling of Transcripts during Arabidopsis Leaf Senescence Reveals a Distinct Chronology of Processes and RegulationEmily Breeze, Elizabeth Harrison, Stuart McHattie, Linda Hughes, Richard Hickman, Claire Hill, Steven Kiddle, Youn-sung Kim, Christopher A. Penfold, Dafyd Jenkins, Cunjin Zhang, Karl Morris, Carol Jenner, Stephen Jackson, Brian Thomas, Alexandra Tabrett, Roxane Legaie, Jonathan D. Moore, David L. Wild, Sascha Ott, David Rand, Jim Beynon, Katherine Denby, Andrew Mead, Vicky Buchanan-WollastonPlant Cell Mar 2011, 23 (3) 873-894; DOI: https://doi.org/10.1105/tpc.111.083345
This work presents a high-resolution time-course analysis of gene expression during development of a leaf from expansion through senescence. Enrichment in ontologies, sequence motifs, and transcription factor families within genes showing altered expression over time identified both metabolic pathways and potential regulators active at different stages of leaf development and senescence.
Hill, Claire
- Open AccessHigh-Resolution Temporal Profiling of Transcripts during Arabidopsis Leaf Senescence Reveals a Distinct Chronology of Processes and RegulationEmily Breeze, Elizabeth Harrison, Stuart McHattie, Linda Hughes, Richard Hickman, Claire Hill, Steven Kiddle, Youn-sung Kim, Christopher A. Penfold, Dafyd Jenkins, Cunjin Zhang, Karl Morris, Carol Jenner, Stephen Jackson, Brian Thomas, Alexandra Tabrett, Roxane Legaie, Jonathan D. Moore, David L. Wild, Sascha Ott, David Rand, Jim Beynon, Katherine Denby, Andrew Mead, Vicky Buchanan-WollastonPlant Cell Mar 2011, 23 (3) 873-894; DOI: https://doi.org/10.1105/tpc.111.083345
This work presents a high-resolution time-course analysis of gene expression during development of a leaf from expansion through senescence. Enrichment in ontologies, sequence motifs, and transcription factor families within genes showing altered expression over time identified both metabolic pathways and potential regulators active at different stages of leaf development and senescence.
Hofmann, Nancy R.
- You have accessRestricted AccessA Revised Function for ACCUMULATION OF PHOTOSYSTEM ONE1Nancy R. HofmannPlant Cell Mar 2011, 23 (3) 844; DOI: https://doi.org/10.1105/tpc.111.230311
Huang, Huang
- You have accessRestricted AccessThe Jasmonate-ZIM Domain Proteins Interact with the R2R3-MYB Transcription Factors MYB21 and MYB24 to Affect Jasmonate-Regulated Stamen Development in ArabidopsisSusheng Song, Tiancong Qi, Huang Huang, Qingcuo Ren, Dewei Wu, Changqing Chang, Wen Peng, Yule Liu, Jinrong Peng, Daoxin XiePlant Cell Mar 2011, 23 (3) 1000-1013; DOI: https://doi.org/10.1105/tpc.111.083089
Jasmonate is essential for diverse biological processes, including male fertility and plant defense in Arabidopsis. This work shows that the R2R3-MYB transcription factors MYB21 and MYB24 function as direct targets of JAZ proteins to mediate jasmonate-regulated stamen development.
Hughes, Linda
- Open AccessHigh-Resolution Temporal Profiling of Transcripts during Arabidopsis Leaf Senescence Reveals a Distinct Chronology of Processes and RegulationEmily Breeze, Elizabeth Harrison, Stuart McHattie, Linda Hughes, Richard Hickman, Claire Hill, Steven Kiddle, Youn-sung Kim, Christopher A. Penfold, Dafyd Jenkins, Cunjin Zhang, Karl Morris, Carol Jenner, Stephen Jackson, Brian Thomas, Alexandra Tabrett, Roxane Legaie, Jonathan D. Moore, David L. Wild, Sascha Ott, David Rand, Jim Beynon, Katherine Denby, Andrew Mead, Vicky Buchanan-WollastonPlant Cell Mar 2011, 23 (3) 873-894; DOI: https://doi.org/10.1105/tpc.111.083345
This work presents a high-resolution time-course analysis of gene expression during development of a leaf from expansion through senescence. Enrichment in ontologies, sequence motifs, and transcription factor families within genes showing altered expression over time identified both metabolic pathways and potential regulators active at different stages of leaf development and senescence.
I
Ishihama, Nobuaki
- Open AccessPhosphorylation of the Nicotiana benthamiana WRKY8 Transcription Factor by MAPK Functions in the Defense ResponseNobuaki Ishihama, Reiko Yamada, Miki Yoshioka, Shinpei Katou, Hirofumi YoshiokaPlant Cell Mar 2011, 23 (3) 1153-1170; DOI: https://doi.org/10.1105/tpc.110.081794
This study identified WRKY8 as a downstream target of three mitogen-activated protein kinases in Nicotiana benthamiana. Phosphorylation of WRKY8 increased its DNA binding activity, and ectopic expression of WRKY8 induced the expression of various defense-related genes.
J
Jackson, Stephen
- Open AccessHigh-Resolution Temporal Profiling of Transcripts during Arabidopsis Leaf Senescence Reveals a Distinct Chronology of Processes and RegulationEmily Breeze, Elizabeth Harrison, Stuart McHattie, Linda Hughes, Richard Hickman, Claire Hill, Steven Kiddle, Youn-sung Kim, Christopher A. Penfold, Dafyd Jenkins, Cunjin Zhang, Karl Morris, Carol Jenner, Stephen Jackson, Brian Thomas, Alexandra Tabrett, Roxane Legaie, Jonathan D. Moore, David L. Wild, Sascha Ott, David Rand, Jim Beynon, Katherine Denby, Andrew Mead, Vicky Buchanan-WollastonPlant Cell Mar 2011, 23 (3) 873-894; DOI: https://doi.org/10.1105/tpc.111.083345
This work presents a high-resolution time-course analysis of gene expression during development of a leaf from expansion through senescence. Enrichment in ontologies, sequence motifs, and transcription factor families within genes showing altered expression over time identified both metabolic pathways and potential regulators active at different stages of leaf development and senescence.
Jaworski, Jan G.
- Open AccessSphingolipids in the Root Play an Important Role in Regulating the Leaf Ionome in Arabidopsis thalianaDai-Yin Chao, Kenneth Gable, Ming Chen, Ivan Baxter, Charles R. Dietrich, Edgar B. Cahoon, Mary Lou Guerinot, Brett Lahner, Shiyou Lü, Jonathan E. Markham, Joe Morrissey, Gongshe Han, Sita D. Gupta, Jeffrey M. Harmon, Jan G. Jaworski, Teresa M. Dunn, David E. SaltPlant Cell Mar 2011, 23 (3) 1061-1081; DOI: https://doi.org/10.1105/tpc.110.079095
Sphingolipids are a diverse group of essential membrane lipids thought to play important roles in both membrane function and cellular signaling. By identifying an Arabidopsis thaliana mutant lacking 3-ketodihydrosphinganine reductase, a critical enzyme in sphingolipid biosynthesis, this work uncovers a connection between sphingolipid metabolism in roots and whole-plant mineral ion homeostasis.
Jenkins, Dafyd
- Open AccessHigh-Resolution Temporal Profiling of Transcripts during Arabidopsis Leaf Senescence Reveals a Distinct Chronology of Processes and RegulationEmily Breeze, Elizabeth Harrison, Stuart McHattie, Linda Hughes, Richard Hickman, Claire Hill, Steven Kiddle, Youn-sung Kim, Christopher A. Penfold, Dafyd Jenkins, Cunjin Zhang, Karl Morris, Carol Jenner, Stephen Jackson, Brian Thomas, Alexandra Tabrett, Roxane Legaie, Jonathan D. Moore, David L. Wild, Sascha Ott, David Rand, Jim Beynon, Katherine Denby, Andrew Mead, Vicky Buchanan-WollastonPlant Cell Mar 2011, 23 (3) 873-894; DOI: https://doi.org/10.1105/tpc.111.083345
This work presents a high-resolution time-course analysis of gene expression during development of a leaf from expansion through senescence. Enrichment in ontologies, sequence motifs, and transcription factor families within genes showing altered expression over time identified both metabolic pathways and potential regulators active at different stages of leaf development and senescence.
Jenner, Carol
- Open AccessHigh-Resolution Temporal Profiling of Transcripts during Arabidopsis Leaf Senescence Reveals a Distinct Chronology of Processes and RegulationEmily Breeze, Elizabeth Harrison, Stuart McHattie, Linda Hughes, Richard Hickman, Claire Hill, Steven Kiddle, Youn-sung Kim, Christopher A. Penfold, Dafyd Jenkins, Cunjin Zhang, Karl Morris, Carol Jenner, Stephen Jackson, Brian Thomas, Alexandra Tabrett, Roxane Legaie, Jonathan D. Moore, David L. Wild, Sascha Ott, David Rand, Jim Beynon, Katherine Denby, Andrew Mead, Vicky Buchanan-WollastonPlant Cell Mar 2011, 23 (3) 873-894; DOI: https://doi.org/10.1105/tpc.111.083345
This work presents a high-resolution time-course analysis of gene expression during development of a leaf from expansion through senescence. Enrichment in ontologies, sequence motifs, and transcription factor families within genes showing altered expression over time identified both metabolic pathways and potential regulators active at different stages of leaf development and senescence.
Jouanin, Lise
- You have accessRestricted AccessDisruption of LACCASE4 and 17 Results in Tissue-Specific Alterations to Lignification of Arabidopsis thaliana StemsSerge Berthet, Nathalie Demont-Caulet, Brigitte Pollet, Przemyslaw Bidzinski, Laurent Cézard, Phillipe Le Bris, Nero Borrega, Jonathan Hervé, Eddy Blondet, Sandrine Balzergue, Catherine Lapierre, Lise JouaninPlant Cell Mar 2011, 23 (3) 1124-1137; DOI: https://doi.org/10.1105/tpc.110.082792
This study provides evidence that two laccases, LAC4 and LAC17, participate in the polymerization of lignins in Arabidopsis stems. These findings suggest that the genetic engineering of lignin-specific laccases is a potentially innovative and promising tool for the fine-tuning of lignin content and structure.
K
Karlova, Rumyana
- You have accessRestricted AccessTranscriptome and Metabolite Profiling Show That APETALA2a Is a Major Regulator of Tomato Fruit RipeningRumyana Karlova, Faye M. Rosin, Jacqueline Busscher-Lange, Violeta Parapunova, Phuc T. Do, Alisdair R. Fernie, Paul D. Fraser, Charles Baxter, Gerco C. Angenent, Ruud A. de MaagdPlant Cell Mar 2011, 23 (3) 923-941; DOI: https://doi.org/10.1105/tpc.110.081273
This study demonstrates that the tomato APETALA2a (AP2a) transcription factor modulates fruit ripening by negatively regulating ethylene biosynthesis and signaling. Various ripening regulators are shown to act upstream of AP2a. Gene expression analysis reveals that AP2a is involved in chloroplast to chromoplast transition.
Kater, Martin M
- You have accessRestricted AccessThe Emerging Importance of Type I MADS Box Transcription Factors for Plant ReproductionSimona Masiero, Lucia Colombo, Paul E Grini, Arp Schnittger, Martin M KaterPlant Cell Mar 2011, 23 (3) 865-872; DOI: https://doi.org/10.1105/tpc.110.081737
Based on their evolutionary origin, MADS box transcription factor genes have been divided into two classes, namely, type I and II. The plant-specific type II MIKC MADS box genes have been most intensively studied and shown to be key regulators of developmental processes, such as meristem identity, flowering time, and fruit and seed development. By contrast, very little is known about type I MADS domain transcription factors, and they have not attracted interest for a long time. A number of recent studies have now indicated a key regulatory role for type I MADS box factors in plant reproduction, in particular in specifying female gametophyte, embryo, and endosperm development. These analyses have also suggested that type I MADS box factors are decisive for setting reproductive boundaries between species.
Katou, Shinpei
- Open AccessPhosphorylation of the Nicotiana benthamiana WRKY8 Transcription Factor by MAPK Functions in the Defense ResponseNobuaki Ishihama, Reiko Yamada, Miki Yoshioka, Shinpei Katou, Hirofumi YoshiokaPlant Cell Mar 2011, 23 (3) 1153-1170; DOI: https://doi.org/10.1105/tpc.110.081794
This study identified WRKY8 as a downstream target of three mitogen-activated protein kinases in Nicotiana benthamiana. Phosphorylation of WRKY8 increased its DNA binding activity, and ectopic expression of WRKY8 induced the expression of various defense-related genes.
Kiddle, Steven
- Open AccessHigh-Resolution Temporal Profiling of Transcripts during Arabidopsis Leaf Senescence Reveals a Distinct Chronology of Processes and RegulationEmily Breeze, Elizabeth Harrison, Stuart McHattie, Linda Hughes, Richard Hickman, Claire Hill, Steven Kiddle, Youn-sung Kim, Christopher A. Penfold, Dafyd Jenkins, Cunjin Zhang, Karl Morris, Carol Jenner, Stephen Jackson, Brian Thomas, Alexandra Tabrett, Roxane Legaie, Jonathan D. Moore, David L. Wild, Sascha Ott, David Rand, Jim Beynon, Katherine Denby, Andrew Mead, Vicky Buchanan-WollastonPlant Cell Mar 2011, 23 (3) 873-894; DOI: https://doi.org/10.1105/tpc.111.083345
This work presents a high-resolution time-course analysis of gene expression during development of a leaf from expansion through senescence. Enrichment in ontologies, sequence motifs, and transcription factor families within genes showing altered expression over time identified both metabolic pathways and potential regulators active at different stages of leaf development and senescence.
Kim, Youn-sung
- Open AccessHigh-Resolution Temporal Profiling of Transcripts during Arabidopsis Leaf Senescence Reveals a Distinct Chronology of Processes and RegulationEmily Breeze, Elizabeth Harrison, Stuart McHattie, Linda Hughes, Richard Hickman, Claire Hill, Steven Kiddle, Youn-sung Kim, Christopher A. Penfold, Dafyd Jenkins, Cunjin Zhang, Karl Morris, Carol Jenner, Stephen Jackson, Brian Thomas, Alexandra Tabrett, Roxane Legaie, Jonathan D. Moore, David L. Wild, Sascha Ott, David Rand, Jim Beynon, Katherine Denby, Andrew Mead, Vicky Buchanan-WollastonPlant Cell Mar 2011, 23 (3) 873-894; DOI: https://doi.org/10.1105/tpc.111.083345
This work presents a high-resolution time-course analysis of gene expression during development of a leaf from expansion through senescence. Enrichment in ontologies, sequence motifs, and transcription factor families within genes showing altered expression over time identified both metabolic pathways and potential regulators active at different stages of leaf development and senescence.
Klie, Sebastian
- Open AccessPlaNet: Combined Sequence and Expression Comparisons across Plant Networks Derived from Seven SpeciesMarek Mutwil, Sebastian Klie, Takayuki Tohge, Federico M. Giorgi, Olivia Wilkins, Malcolm M. Campbell, Alisdair R. Fernie, Björn Usadel, Zoran Nikoloski, Staffan PerssonPlant Cell Mar 2011, 23 (3) 895-910; DOI: https://doi.org/10.1105/tpc.111.083667
Genes that are similarly expressed, or coexpressed, are often involved in related biological processes. Such coexpressed relationships also appear to be conserved across species. The PlaNet platform enables comparative analysis of genome-wide coexpression networks across seven plant species, thus enabling prediction of gene function and elucidation of the identity of functional homologs.
Köhler, Claudia
- You have accessRestricted AccessThe CHD3 Chromatin Remodeler PICKLE and Polycomb Group Proteins Antagonistically Regulate Meristem Activity in the Arabidopsis RootErnst Aichinger, Corina B.R. Villar, Riccardo Di Mambro, Sabrina Sabatini, Claudia KöhlerPlant Cell Mar 2011, 23 (3) 1047-1060; DOI: https://doi.org/10.1105/tpc.111.083352
We report that the chromatin remodeling factor PICKLE and Polycomb group proteins antagonistically determine cell identity. Our study highlights an important role of PICKLE and Polycomb group proteins in regulating root meristem activity by regulating the expression of root stem cell and meristem marker genes.
L
Lahner, Brett
- Open AccessSphingolipids in the Root Play an Important Role in Regulating the Leaf Ionome in Arabidopsis thalianaDai-Yin Chao, Kenneth Gable, Ming Chen, Ivan Baxter, Charles R. Dietrich, Edgar B. Cahoon, Mary Lou Guerinot, Brett Lahner, Shiyou Lü, Jonathan E. Markham, Joe Morrissey, Gongshe Han, Sita D. Gupta, Jeffrey M. Harmon, Jan G. Jaworski, Teresa M. Dunn, David E. SaltPlant Cell Mar 2011, 23 (3) 1061-1081; DOI: https://doi.org/10.1105/tpc.110.079095
Sphingolipids are a diverse group of essential membrane lipids thought to play important roles in both membrane function and cellular signaling. By identifying an Arabidopsis thaliana mutant lacking 3-ketodihydrosphinganine reductase, a critical enzyme in sphingolipid biosynthesis, this work uncovers a connection between sphingolipid metabolism in roots and whole-plant mineral ion homeostasis.
Lapierre, Catherine
- You have accessRestricted AccessDisruption of LACCASE4 and 17 Results in Tissue-Specific Alterations to Lignification of Arabidopsis thaliana StemsSerge Berthet, Nathalie Demont-Caulet, Brigitte Pollet, Przemyslaw Bidzinski, Laurent Cézard, Phillipe Le Bris, Nero Borrega, Jonathan Hervé, Eddy Blondet, Sandrine Balzergue, Catherine Lapierre, Lise JouaninPlant Cell Mar 2011, 23 (3) 1124-1137; DOI: https://doi.org/10.1105/tpc.110.082792
This study provides evidence that two laccases, LAC4 and LAC17, participate in the polymerization of lignins in Arabidopsis stems. These findings suggest that the genetic engineering of lignin-specific laccases is a potentially innovative and promising tool for the fine-tuning of lignin content and structure.
Le Bris, Phillipe
- You have accessRestricted AccessDisruption of LACCASE4 and 17 Results in Tissue-Specific Alterations to Lignification of Arabidopsis thaliana StemsSerge Berthet, Nathalie Demont-Caulet, Brigitte Pollet, Przemyslaw Bidzinski, Laurent Cézard, Phillipe Le Bris, Nero Borrega, Jonathan Hervé, Eddy Blondet, Sandrine Balzergue, Catherine Lapierre, Lise JouaninPlant Cell Mar 2011, 23 (3) 1124-1137; DOI: https://doi.org/10.1105/tpc.110.082792
This study provides evidence that two laccases, LAC4 and LAC17, participate in the polymerization of lignins in Arabidopsis stems. These findings suggest that the genetic engineering of lignin-specific laccases is a potentially innovative and promising tool for the fine-tuning of lignin content and structure.
Lee, Saet Buyl
- You have accessRestricted AccessThe MYB96 Transcription Factor Regulates Cuticular Wax Biosynthesis under Drought Conditions in ArabidopsisPil Joon Seo, Saet Buyl Lee, Mi Chung Suh, Mi-Jeong Park, Young Sam Go, Chung-Mo ParkPlant Cell Mar 2011, 23 (3) 1138-1152; DOI: https://doi.org/10.1105/tpc.111.083485
This work provides evidence that deposition of cuticular waxes is intimately associated with plant responses to drought. The Arabidopsis MYB96 transcription factor functions as a regulator of ABA-mediated cuticular wax biosynthesis under drought conditions by binding directly to the promoters of genes encoding very-long-chain fatty acid–condensing enzymes involved in cuticular wax biosynthesis.
Legaie, Roxane
- Open AccessHigh-Resolution Temporal Profiling of Transcripts during Arabidopsis Leaf Senescence Reveals a Distinct Chronology of Processes and RegulationEmily Breeze, Elizabeth Harrison, Stuart McHattie, Linda Hughes, Richard Hickman, Claire Hill, Steven Kiddle, Youn-sung Kim, Christopher A. Penfold, Dafyd Jenkins, Cunjin Zhang, Karl Morris, Carol Jenner, Stephen Jackson, Brian Thomas, Alexandra Tabrett, Roxane Legaie, Jonathan D. Moore, David L. Wild, Sascha Ott, David Rand, Jim Beynon, Katherine Denby, Andrew Mead, Vicky Buchanan-WollastonPlant Cell Mar 2011, 23 (3) 873-894; DOI: https://doi.org/10.1105/tpc.111.083345
This work presents a high-resolution time-course analysis of gene expression during development of a leaf from expansion through senescence. Enrichment in ontologies, sequence motifs, and transcription factor families within genes showing altered expression over time identified both metabolic pathways and potential regulators active at different stages of leaf development and senescence.
Leroux, Julie
- You have accessRestricted AccessAUXIN RESPONSE FACTOR8 Regulates Arabidopsis Petal Growth by Interacting with the bHLH Transcription Factor BIGPETALpEmilie Varaud, Florian Brioudes, Judit Szécsi, Julie Leroux, Spencer Brown, Catherine Perrot-Rechenmann, Mohammed BendahmanePlant Cell Mar 2011, 23 (3) 973-983; DOI: https://doi.org/10.1105/tpc.110.081653
This study defines a previously unknown combinatorial interaction between transcription factors in plants and provides a better understanding of how plants integrate signals to regulate petal development. It also highlights the role of a motif in the bHLH transcription factor that resembles a motif that was previously shown to be important in auxin signaling.
Li, Maoyin
- You have accessRestricted AccessPatatin-Related Phospholipase pPLAIIIβ-Induced Changes in Lipid Metabolism Alter Cellulose Content and Cell Elongation in ArabidopsisMaoyin Li, Sung Chul Bahn, Liang Guo, William Musgrave, Howard Berg, Ruth Welti, Xuemin WangPlant Cell Mar 2011, 23 (3) 1107-1123; DOI: https://doi.org/10.1105/tpc.110.081240
Patatin-related phospholipase pPLAIIIβ lacks the canonical esterase catalytic center but possesses acyl-hydrolyzing and acyl-CoA thioesterase activities. Knockout and overexpression of pPLAIIIβ have opposite effects on the levels of membrane lipids, cellulose content, mechanical strength, and cell length. Thus, membrane lipid metabolism may be linked to cellulose production in Arabidopsis.
Lin, Mingzhi
- Open AccessThe Predicted Arabidopsis Interactome Resource and Network Topology-Based Systems Biology AnalysesMingzhi Lin, Xi Zhou, Xueling Shen, Chuanzao Mao, Xin ChenPlant Cell Mar 2011, 23 (3) 911-922; DOI: https://doi.org/10.1105/tpc.110.082529
Protein–protein interactions are important mechanisms for genes and gene networks to function. This study demonstrates that, although the PAIR database has limited coverage, representing ~24% of the entire interactome with ~40% precision, it is rich enough to capture many significant functional linkages within and between higher-order biological systems, such as pathways and biological processes.
Liu, Guo-Qin
- Open AccessArabidopsis Kinesin KP1 Specifically Interacts with VDAC3, a Mitochondrial Protein, and Regulates Respiration during Seed Germination at Low TemperatureXue-Yong Yang, Zi-Wei Chen, Tao Xu, Zhe Qu, Xiao-Di Pan, Xing-Hua Qin, Dong-Tao Ren, Guo-Qin LiuPlant Cell Mar 2011, 23 (3) 1093-1106; DOI: https://doi.org/10.1105/tpc.110.082420
A plant-specific molecular motor (KP1) specifically interacts with a channel protein (VDAC3) of the mitochondrial outer membrane and is targeted to mitochondria via its tail domain. In seedlings germinated at 4°C, either mutant of the two genes exhibited increased oxygen consumption, respiration imbalance, and reduced ATP levels.
Liu, Yi
- You have accessRestricted AccessBROTHER OF LUX ARRHYTHMO Is a Component of the Arabidopsis Circadian ClockShunhong Dai, Xiaoping Wei, Liping Pei, Rebecca L. Thompson, Yi Liu, Jacqueline E. Heard, Thomas G. Ruff, Roger N. BeachyPlant Cell Mar 2011, 23 (3) 961-972; DOI: https://doi.org/10.1105/tpc.111.084293
This work shows that the Arabidopsis transcription factor BROTHER OF LUX ARRHYTHMO (BOA) is an activator in regulating the expression of CIRCADIAN CLOCK ASSOCIATED1 (CCA1). BOA forms a transcriptional feedback loop with CCA1 and regulates circadian rhythms in Arabidopsis.
Liu, Yule
- You have accessRestricted AccessThe Jasmonate-ZIM Domain Proteins Interact with the R2R3-MYB Transcription Factors MYB21 and MYB24 to Affect Jasmonate-Regulated Stamen Development in ArabidopsisSusheng Song, Tiancong Qi, Huang Huang, Qingcuo Ren, Dewei Wu, Changqing Chang, Wen Peng, Yule Liu, Jinrong Peng, Daoxin XiePlant Cell Mar 2011, 23 (3) 1000-1013; DOI: https://doi.org/10.1105/tpc.111.083089
Jasmonate is essential for diverse biological processes, including male fertility and plant defense in Arabidopsis. This work shows that the R2R3-MYB transcription factors MYB21 and MYB24 function as direct targets of JAZ proteins to mediate jasmonate-regulated stamen development.
Lozano-Durán, Rosa
- You have accessRestricted AccessGeminiviruses Subvert Ubiquitination by Altering CSN-Mediated Derubylation of SCF E3 Ligase Complexes and Inhibit Jasmonate Signaling in Arabidopsis thalianaRosa Lozano-Durán, Tabata Rosas-Díaz, Giuliana Gusmaroli, Ana P. Luna, Ludivine Taconnat, Xing Wang Deng, Eduardo R. BejaranoPlant Cell Mar 2011, 23 (3) 1014-1032; DOI: https://doi.org/10.1105/tpc.110.080267
This study shows that geminivirus C2/L2 protein interferes with the derubylation of CUL1. Responses regulated by the CUL1-based SCF ubiquitin ligases, and particularly the response to jasmonates, are altered in transgenic Arabidopsis thaliana expressing C2/L2. The capability to selectively interfere with SCF complexes may define a novel and powerful strategy in viral infections.
Lü, Shiyou
- Open AccessSphingolipids in the Root Play an Important Role in Regulating the Leaf Ionome in Arabidopsis thalianaDai-Yin Chao, Kenneth Gable, Ming Chen, Ivan Baxter, Charles R. Dietrich, Edgar B. Cahoon, Mary Lou Guerinot, Brett Lahner, Shiyou Lü, Jonathan E. Markham, Joe Morrissey, Gongshe Han, Sita D. Gupta, Jeffrey M. Harmon, Jan G. Jaworski, Teresa M. Dunn, David E. SaltPlant Cell Mar 2011, 23 (3) 1061-1081; DOI: https://doi.org/10.1105/tpc.110.079095
Sphingolipids are a diverse group of essential membrane lipids thought to play important roles in both membrane function and cellular signaling. By identifying an Arabidopsis thaliana mutant lacking 3-ketodihydrosphinganine reductase, a critical enzyme in sphingolipid biosynthesis, this work uncovers a connection between sphingolipid metabolism in roots and whole-plant mineral ion homeostasis.
Luna, Ana P.
- You have accessRestricted AccessGeminiviruses Subvert Ubiquitination by Altering CSN-Mediated Derubylation of SCF E3 Ligase Complexes and Inhibit Jasmonate Signaling in Arabidopsis thalianaRosa Lozano-Durán, Tabata Rosas-Díaz, Giuliana Gusmaroli, Ana P. Luna, Ludivine Taconnat, Xing Wang Deng, Eduardo R. BejaranoPlant Cell Mar 2011, 23 (3) 1014-1032; DOI: https://doi.org/10.1105/tpc.110.080267
This study shows that geminivirus C2/L2 protein interferes with the derubylation of CUL1. Responses regulated by the CUL1-based SCF ubiquitin ligases, and particularly the response to jasmonates, are altered in transgenic Arabidopsis thaliana expressing C2/L2. The capability to selectively interfere with SCF complexes may define a novel and powerful strategy in viral infections.
M
Mach, Jennifer
- You have accessRestricted AccessWill the Real Florigen Please Stand Up? Sorting FT Homologs in MaizeJennifer MachPlant Cell Mar 2011, 23 (3) 843; DOI: https://doi.org/10.1105/tpc.111.230310
Mao, Chuanzao
- Open AccessThe Predicted Arabidopsis Interactome Resource and Network Topology-Based Systems Biology AnalysesMingzhi Lin, Xi Zhou, Xueling Shen, Chuanzao Mao, Xin ChenPlant Cell Mar 2011, 23 (3) 911-922; DOI: https://doi.org/10.1105/tpc.110.082529
Protein–protein interactions are important mechanisms for genes and gene networks to function. This study demonstrates that, although the PAIR database has limited coverage, representing ~24% of the entire interactome with ~40% precision, it is rich enough to capture many significant functional linkages within and between higher-order biological systems, such as pathways and biological processes.
Markham, Jonathan E.
- Open AccessSphingolipids in the Root Play an Important Role in Regulating the Leaf Ionome in Arabidopsis thalianaDai-Yin Chao, Kenneth Gable, Ming Chen, Ivan Baxter, Charles R. Dietrich, Edgar B. Cahoon, Mary Lou Guerinot, Brett Lahner, Shiyou Lü, Jonathan E. Markham, Joe Morrissey, Gongshe Han, Sita D. Gupta, Jeffrey M. Harmon, Jan G. Jaworski, Teresa M. Dunn, David E. SaltPlant Cell Mar 2011, 23 (3) 1061-1081; DOI: https://doi.org/10.1105/tpc.110.079095
Sphingolipids are a diverse group of essential membrane lipids thought to play important roles in both membrane function and cellular signaling. By identifying an Arabidopsis thaliana mutant lacking 3-ketodihydrosphinganine reductase, a critical enzyme in sphingolipid biosynthesis, this work uncovers a connection between sphingolipid metabolism in roots and whole-plant mineral ion homeostasis.
Masiero, Simona
- You have accessRestricted AccessThe Emerging Importance of Type I MADS Box Transcription Factors for Plant ReproductionSimona Masiero, Lucia Colombo, Paul E Grini, Arp Schnittger, Martin M KaterPlant Cell Mar 2011, 23 (3) 865-872; DOI: https://doi.org/10.1105/tpc.110.081737
Based on their evolutionary origin, MADS box transcription factor genes have been divided into two classes, namely, type I and II. The plant-specific type II MIKC MADS box genes have been most intensively studied and shown to be key regulators of developmental processes, such as meristem identity, flowering time, and fruit and seed development. By contrast, very little is known about type I MADS domain transcription factors, and they have not attracted interest for a long time. A number of recent studies have now indicated a key regulatory role for type I MADS box factors in plant reproduction, in particular in specifying female gametophyte, embryo, and endosperm development. These analyses have also suggested that type I MADS box factors are decisive for setting reproductive boundaries between species.
McCormick, Sheila
- You have accessRestricted AccessThe Anaphase-Promoting Complex Is a Dual Integrator That Regulates Both MicroRNA-Mediated Transcriptional Regulation of Cyclin B1 and Degradation of Cyclin B1 during Arabidopsis Male Gametophyte DevelopmentBinglian Zheng, Xuemei Chen, Sheila McCormickPlant Cell Mar 2011, 23 (3) 1033-1046; DOI: https://doi.org/10.1105/tpc.111.083980
This study shows that, in addition to its known role in protein degradation, the anaphase-promoting complex also regulates transcription of a cell cycle gene, Cyclin B1, and that this regulation, which is mediated by microRNA, is important for pollen development.
McHattie, Stuart
- Open AccessHigh-Resolution Temporal Profiling of Transcripts during Arabidopsis Leaf Senescence Reveals a Distinct Chronology of Processes and RegulationEmily Breeze, Elizabeth Harrison, Stuart McHattie, Linda Hughes, Richard Hickman, Claire Hill, Steven Kiddle, Youn-sung Kim, Christopher A. Penfold, Dafyd Jenkins, Cunjin Zhang, Karl Morris, Carol Jenner, Stephen Jackson, Brian Thomas, Alexandra Tabrett, Roxane Legaie, Jonathan D. Moore, David L. Wild, Sascha Ott, David Rand, Jim Beynon, Katherine Denby, Andrew Mead, Vicky Buchanan-WollastonPlant Cell Mar 2011, 23 (3) 873-894; DOI: https://doi.org/10.1105/tpc.111.083345
This work presents a high-resolution time-course analysis of gene expression during development of a leaf from expansion through senescence. Enrichment in ontologies, sequence motifs, and transcription factor families within genes showing altered expression over time identified both metabolic pathways and potential regulators active at different stages of leaf development and senescence.
Mead, Andrew
- Open AccessHigh-Resolution Temporal Profiling of Transcripts during Arabidopsis Leaf Senescence Reveals a Distinct Chronology of Processes and RegulationEmily Breeze, Elizabeth Harrison, Stuart McHattie, Linda Hughes, Richard Hickman, Claire Hill, Steven Kiddle, Youn-sung Kim, Christopher A. Penfold, Dafyd Jenkins, Cunjin Zhang, Karl Morris, Carol Jenner, Stephen Jackson, Brian Thomas, Alexandra Tabrett, Roxane Legaie, Jonathan D. Moore, David L. Wild, Sascha Ott, David Rand, Jim Beynon, Katherine Denby, Andrew Mead, Vicky Buchanan-WollastonPlant Cell Mar 2011, 23 (3) 873-894; DOI: https://doi.org/10.1105/tpc.111.083345
This work presents a high-resolution time-course analysis of gene expression during development of a leaf from expansion through senescence. Enrichment in ontologies, sequence motifs, and transcription factor families within genes showing altered expression over time identified both metabolic pathways and potential regulators active at different stages of leaf development and senescence.
Meng, Xin
- Open AccessThe FT-Like ZCN8 Gene Functions as a Floral Activator and Is Involved in Photoperiod Sensitivity in MaizeXin Meng, Michael G. Muszynski, Olga N. DanilevskayaPlant Cell Mar 2011, 23 (3) 942-960; DOI: https://doi.org/10.1105/tpc.110.081406
The transition from vegetative to reproductive development is regulated by the activity of graft-transmissible flowering hormone, florigen, which is encoded by the FLOWERING LOCUS T (FT) family of mobile proteins. This work identified, among many maize FT-like genes, a single gene, ZCN8, which has all required characteristics to function as florigen.
Meurer, Jörg
- You have accessRestricted AccessAPO1 Promotes the Splicing of Chloroplast Group II Introns and Harbors a Plant-Specific Zinc-Dependent RNA Binding DomainKenneth P. Watkins, Margarita Rojas, Giulia Friso, Klaas J. van Wijk, Jörg Meurer, Alice BarkanPlant Cell Mar 2011, 23 (3) 1082-1092; DOI: https://doi.org/10.1105/tpc.111.084335
This study demonstrates that APO1, originally proposed to be involved in the maturation of proteins with [4Fe-4S] ligands, is instead required for the splicing of several chloroplast introns. It shows further that DUF794, the plant-specific domain of unknown function that makes up the bulk of APO1, is an RNA binding domain harboring zinc binding motifs.
Meyerowitz, Elliot M.
- You have accessRestricted AccessAn Evolutionarily Conserved Pseudokinase Mediates Stem Cell Production in PlantsZachary L. Nimchuk, Paul T. Tarr, Elliot M. MeyerowitzPlant Cell Mar 2011, 23 (3) 851-854; DOI: https://doi.org/10.1105/tpc.110.075622
Moore, Jonathan D.
- Open AccessHigh-Resolution Temporal Profiling of Transcripts during Arabidopsis Leaf Senescence Reveals a Distinct Chronology of Processes and RegulationEmily Breeze, Elizabeth Harrison, Stuart McHattie, Linda Hughes, Richard Hickman, Claire Hill, Steven Kiddle, Youn-sung Kim, Christopher A. Penfold, Dafyd Jenkins, Cunjin Zhang, Karl Morris, Carol Jenner, Stephen Jackson, Brian Thomas, Alexandra Tabrett, Roxane Legaie, Jonathan D. Moore, David L. Wild, Sascha Ott, David Rand, Jim Beynon, Katherine Denby, Andrew Mead, Vicky Buchanan-WollastonPlant Cell Mar 2011, 23 (3) 873-894; DOI: https://doi.org/10.1105/tpc.111.083345
This work presents a high-resolution time-course analysis of gene expression during development of a leaf from expansion through senescence. Enrichment in ontologies, sequence motifs, and transcription factor families within genes showing altered expression over time identified both metabolic pathways and potential regulators active at different stages of leaf development and senescence.
Mørch, Sara M.
- You have accessRestricted AccessReply: On ARF1 Localizes to the Golgi and the Trans-Golgi Network: Future Challenge in Plant Multivesicular Body StudiesHans Thordal-Christensen, Henrik Böhlenius, Sara M. Mørch, Mads E. NielsenPlant Cell Mar 2011, 23 (3) 849-850; DOI: https://doi.org/10.1105/tpc.111.230340
Morris, Karl
- Open AccessHigh-Resolution Temporal Profiling of Transcripts during Arabidopsis Leaf Senescence Reveals a Distinct Chronology of Processes and RegulationEmily Breeze, Elizabeth Harrison, Stuart McHattie, Linda Hughes, Richard Hickman, Claire Hill, Steven Kiddle, Youn-sung Kim, Christopher A. Penfold, Dafyd Jenkins, Cunjin Zhang, Karl Morris, Carol Jenner, Stephen Jackson, Brian Thomas, Alexandra Tabrett, Roxane Legaie, Jonathan D. Moore, David L. Wild, Sascha Ott, David Rand, Jim Beynon, Katherine Denby, Andrew Mead, Vicky Buchanan-WollastonPlant Cell Mar 2011, 23 (3) 873-894; DOI: https://doi.org/10.1105/tpc.111.083345
This work presents a high-resolution time-course analysis of gene expression during development of a leaf from expansion through senescence. Enrichment in ontologies, sequence motifs, and transcription factor families within genes showing altered expression over time identified both metabolic pathways and potential regulators active at different stages of leaf development and senescence.
Morrissey, Joe
- Open AccessSphingolipids in the Root Play an Important Role in Regulating the Leaf Ionome in Arabidopsis thalianaDai-Yin Chao, Kenneth Gable, Ming Chen, Ivan Baxter, Charles R. Dietrich, Edgar B. Cahoon, Mary Lou Guerinot, Brett Lahner, Shiyou Lü, Jonathan E. Markham, Joe Morrissey, Gongshe Han, Sita D. Gupta, Jeffrey M. Harmon, Jan G. Jaworski, Teresa M. Dunn, David E. SaltPlant Cell Mar 2011, 23 (3) 1061-1081; DOI: https://doi.org/10.1105/tpc.110.079095
Sphingolipids are a diverse group of essential membrane lipids thought to play important roles in both membrane function and cellular signaling. By identifying an Arabidopsis thaliana mutant lacking 3-ketodihydrosphinganine reductase, a critical enzyme in sphingolipid biosynthesis, this work uncovers a connection between sphingolipid metabolism in roots and whole-plant mineral ion homeostasis.
Musgrave, William
- You have accessRestricted AccessPatatin-Related Phospholipase pPLAIIIβ-Induced Changes in Lipid Metabolism Alter Cellulose Content and Cell Elongation in ArabidopsisMaoyin Li, Sung Chul Bahn, Liang Guo, William Musgrave, Howard Berg, Ruth Welti, Xuemin WangPlant Cell Mar 2011, 23 (3) 1107-1123; DOI: https://doi.org/10.1105/tpc.110.081240
Patatin-related phospholipase pPLAIIIβ lacks the canonical esterase catalytic center but possesses acyl-hydrolyzing and acyl-CoA thioesterase activities. Knockout and overexpression of pPLAIIIβ have opposite effects on the levels of membrane lipids, cellulose content, mechanical strength, and cell length. Thus, membrane lipid metabolism may be linked to cellulose production in Arabidopsis.
Muszynski, Michael G.
- Open AccessThe FT-Like ZCN8 Gene Functions as a Floral Activator and Is Involved in Photoperiod Sensitivity in MaizeXin Meng, Michael G. Muszynski, Olga N. DanilevskayaPlant Cell Mar 2011, 23 (3) 942-960; DOI: https://doi.org/10.1105/tpc.110.081406
The transition from vegetative to reproductive development is regulated by the activity of graft-transmissible flowering hormone, florigen, which is encoded by the FLOWERING LOCUS T (FT) family of mobile proteins. This work identified, among many maize FT-like genes, a single gene, ZCN8, which has all required characteristics to function as florigen.
Mutwil, Marek
- Open AccessPlaNet: Combined Sequence and Expression Comparisons across Plant Networks Derived from Seven SpeciesMarek Mutwil, Sebastian Klie, Takayuki Tohge, Federico M. Giorgi, Olivia Wilkins, Malcolm M. Campbell, Alisdair R. Fernie, Björn Usadel, Zoran Nikoloski, Staffan PerssonPlant Cell Mar 2011, 23 (3) 895-910; DOI: https://doi.org/10.1105/tpc.111.083667
Genes that are similarly expressed, or coexpressed, are often involved in related biological processes. Such coexpressed relationships also appear to be conserved across species. The PlaNet platform enables comparative analysis of genome-wide coexpression networks across seven plant species, thus enabling prediction of gene function and elucidation of the identity of functional homologs.
N
Naramoto, Satoshi
- You have accessRestricted AccessARF1 Localizes to the Golgi and the Trans-Golgi NetworkDavid G. Robinson, David Scheuring, Satoshi Naramoto, Jirí FrimlPlant Cell Mar 2011, 23 (3) 846-849; DOI: https://doi.org/10.1105/tpc.110.082099
Nielsen, Mads E.
- You have accessRestricted AccessReply: On ARF1 Localizes to the Golgi and the Trans-Golgi Network: Future Challenge in Plant Multivesicular Body StudiesHans Thordal-Christensen, Henrik Böhlenius, Sara M. Mørch, Mads E. NielsenPlant Cell Mar 2011, 23 (3) 849-850; DOI: https://doi.org/10.1105/tpc.111.230340
Nikoloski, Zoran
- Open AccessPlaNet: Combined Sequence and Expression Comparisons across Plant Networks Derived from Seven SpeciesMarek Mutwil, Sebastian Klie, Takayuki Tohge, Federico M. Giorgi, Olivia Wilkins, Malcolm M. Campbell, Alisdair R. Fernie, Björn Usadel, Zoran Nikoloski, Staffan PerssonPlant Cell Mar 2011, 23 (3) 895-910; DOI: https://doi.org/10.1105/tpc.111.083667
Genes that are similarly expressed, or coexpressed, are often involved in related biological processes. Such coexpressed relationships also appear to be conserved across species. The PlaNet platform enables comparative analysis of genome-wide coexpression networks across seven plant species, thus enabling prediction of gene function and elucidation of the identity of functional homologs.
Nimchuk, Zachary L.
- You have accessRestricted AccessAn Evolutionarily Conserved Pseudokinase Mediates Stem Cell Production in PlantsZachary L. Nimchuk, Paul T. Tarr, Elliot M. MeyerowitzPlant Cell Mar 2011, 23 (3) 851-854; DOI: https://doi.org/10.1105/tpc.110.075622
O
Ott, Sascha
- Open AccessHigh-Resolution Temporal Profiling of Transcripts during Arabidopsis Leaf Senescence Reveals a Distinct Chronology of Processes and RegulationEmily Breeze, Elizabeth Harrison, Stuart McHattie, Linda Hughes, Richard Hickman, Claire Hill, Steven Kiddle, Youn-sung Kim, Christopher A. Penfold, Dafyd Jenkins, Cunjin Zhang, Karl Morris, Carol Jenner, Stephen Jackson, Brian Thomas, Alexandra Tabrett, Roxane Legaie, Jonathan D. Moore, David L. Wild, Sascha Ott, David Rand, Jim Beynon, Katherine Denby, Andrew Mead, Vicky Buchanan-WollastonPlant Cell Mar 2011, 23 (3) 873-894; DOI: https://doi.org/10.1105/tpc.111.083345
This work presents a high-resolution time-course analysis of gene expression during development of a leaf from expansion through senescence. Enrichment in ontologies, sequence motifs, and transcription factor families within genes showing altered expression over time identified both metabolic pathways and potential regulators active at different stages of leaf development and senescence.
P
Pan, Xiao-Di
- Open AccessArabidopsis Kinesin KP1 Specifically Interacts with VDAC3, a Mitochondrial Protein, and Regulates Respiration during Seed Germination at Low TemperatureXue-Yong Yang, Zi-Wei Chen, Tao Xu, Zhe Qu, Xiao-Di Pan, Xing-Hua Qin, Dong-Tao Ren, Guo-Qin LiuPlant Cell Mar 2011, 23 (3) 1093-1106; DOI: https://doi.org/10.1105/tpc.110.082420
A plant-specific molecular motor (KP1) specifically interacts with a channel protein (VDAC3) of the mitochondrial outer membrane and is targeted to mitochondria via its tail domain. In seedlings germinated at 4°C, either mutant of the two genes exhibited increased oxygen consumption, respiration imbalance, and reduced ATP levels.
Parapunova, Violeta
- You have accessRestricted AccessTranscriptome and Metabolite Profiling Show That APETALA2a Is a Major Regulator of Tomato Fruit RipeningRumyana Karlova, Faye M. Rosin, Jacqueline Busscher-Lange, Violeta Parapunova, Phuc T. Do, Alisdair R. Fernie, Paul D. Fraser, Charles Baxter, Gerco C. Angenent, Ruud A. de MaagdPlant Cell Mar 2011, 23 (3) 923-941; DOI: https://doi.org/10.1105/tpc.110.081273
This study demonstrates that the tomato APETALA2a (AP2a) transcription factor modulates fruit ripening by negatively regulating ethylene biosynthesis and signaling. Various ripening regulators are shown to act upstream of AP2a. Gene expression analysis reveals that AP2a is involved in chloroplast to chromoplast transition.
Park, Chung-Mo
- You have accessRestricted AccessThe MYB96 Transcription Factor Regulates Cuticular Wax Biosynthesis under Drought Conditions in ArabidopsisPil Joon Seo, Saet Buyl Lee, Mi Chung Suh, Mi-Jeong Park, Young Sam Go, Chung-Mo ParkPlant Cell Mar 2011, 23 (3) 1138-1152; DOI: https://doi.org/10.1105/tpc.111.083485
This work provides evidence that deposition of cuticular waxes is intimately associated with plant responses to drought. The Arabidopsis MYB96 transcription factor functions as a regulator of ABA-mediated cuticular wax biosynthesis under drought conditions by binding directly to the promoters of genes encoding very-long-chain fatty acid–condensing enzymes involved in cuticular wax biosynthesis.
Park, Mi-Jeong
- You have accessRestricted AccessThe MYB96 Transcription Factor Regulates Cuticular Wax Biosynthesis under Drought Conditions in ArabidopsisPil Joon Seo, Saet Buyl Lee, Mi Chung Suh, Mi-Jeong Park, Young Sam Go, Chung-Mo ParkPlant Cell Mar 2011, 23 (3) 1138-1152; DOI: https://doi.org/10.1105/tpc.111.083485
This work provides evidence that deposition of cuticular waxes is intimately associated with plant responses to drought. The Arabidopsis MYB96 transcription factor functions as a regulator of ABA-mediated cuticular wax biosynthesis under drought conditions by binding directly to the promoters of genes encoding very-long-chain fatty acid–condensing enzymes involved in cuticular wax biosynthesis.
Pei, Liping
- You have accessRestricted AccessBROTHER OF LUX ARRHYTHMO Is a Component of the Arabidopsis Circadian ClockShunhong Dai, Xiaoping Wei, Liping Pei, Rebecca L. Thompson, Yi Liu, Jacqueline E. Heard, Thomas G. Ruff, Roger N. BeachyPlant Cell Mar 2011, 23 (3) 961-972; DOI: https://doi.org/10.1105/tpc.111.084293
This work shows that the Arabidopsis transcription factor BROTHER OF LUX ARRHYTHMO (BOA) is an activator in regulating the expression of CIRCADIAN CLOCK ASSOCIATED1 (CCA1). BOA forms a transcriptional feedback loop with CCA1 and regulates circadian rhythms in Arabidopsis.
Penfold, Christopher A.
- Open AccessHigh-Resolution Temporal Profiling of Transcripts during Arabidopsis Leaf Senescence Reveals a Distinct Chronology of Processes and RegulationEmily Breeze, Elizabeth Harrison, Stuart McHattie, Linda Hughes, Richard Hickman, Claire Hill, Steven Kiddle, Youn-sung Kim, Christopher A. Penfold, Dafyd Jenkins, Cunjin Zhang, Karl Morris, Carol Jenner, Stephen Jackson, Brian Thomas, Alexandra Tabrett, Roxane Legaie, Jonathan D. Moore, David L. Wild, Sascha Ott, David Rand, Jim Beynon, Katherine Denby, Andrew Mead, Vicky Buchanan-WollastonPlant Cell Mar 2011, 23 (3) 873-894; DOI: https://doi.org/10.1105/tpc.111.083345
This work presents a high-resolution time-course analysis of gene expression during development of a leaf from expansion through senescence. Enrichment in ontologies, sequence motifs, and transcription factor families within genes showing altered expression over time identified both metabolic pathways and potential regulators active at different stages of leaf development and senescence.
Peng, Jinrong
- You have accessRestricted AccessThe Jasmonate-ZIM Domain Proteins Interact with the R2R3-MYB Transcription Factors MYB21 and MYB24 to Affect Jasmonate-Regulated Stamen Development in ArabidopsisSusheng Song, Tiancong Qi, Huang Huang, Qingcuo Ren, Dewei Wu, Changqing Chang, Wen Peng, Yule Liu, Jinrong Peng, Daoxin XiePlant Cell Mar 2011, 23 (3) 1000-1013; DOI: https://doi.org/10.1105/tpc.111.083089
Jasmonate is essential for diverse biological processes, including male fertility and plant defense in Arabidopsis. This work shows that the R2R3-MYB transcription factors MYB21 and MYB24 function as direct targets of JAZ proteins to mediate jasmonate-regulated stamen development.
Peng, Wen
- You have accessRestricted AccessThe Jasmonate-ZIM Domain Proteins Interact with the R2R3-MYB Transcription Factors MYB21 and MYB24 to Affect Jasmonate-Regulated Stamen Development in ArabidopsisSusheng Song, Tiancong Qi, Huang Huang, Qingcuo Ren, Dewei Wu, Changqing Chang, Wen Peng, Yule Liu, Jinrong Peng, Daoxin XiePlant Cell Mar 2011, 23 (3) 1000-1013; DOI: https://doi.org/10.1105/tpc.111.083089
Jasmonate is essential for diverse biological processes, including male fertility and plant defense in Arabidopsis. This work shows that the R2R3-MYB transcription factors MYB21 and MYB24 function as direct targets of JAZ proteins to mediate jasmonate-regulated stamen development.
Pérez-Nadales, Elena
- You have accessRestricted AccessThe Membrane Mucin Msb2 Regulates Invasive Growth and Plant Infection in Fusarium oxysporumElena Pérez-Nadales, Antonio Di PietroPlant Cell Mar 2011, 23 (3) 1171-1185; DOI: https://doi.org/10.1105/tpc.110.075093
This study examines the activation of a conserved mitogen-activated protein kinase (MAPK) cascade that is essential for fungal pathogenicity in plants. A highly glycosylated mucin-like transmembrane protein is shown to contribute to phosphorylation of the MAPK that promotes invasive growth and virulence in the soilborne vascular wilt fungus Fusarium oxysporum.
Perrot-Rechenmann, Catherine
- You have accessRestricted AccessAUXIN RESPONSE FACTOR8 Regulates Arabidopsis Petal Growth by Interacting with the bHLH Transcription Factor BIGPETALpEmilie Varaud, Florian Brioudes, Judit Szécsi, Julie Leroux, Spencer Brown, Catherine Perrot-Rechenmann, Mohammed BendahmanePlant Cell Mar 2011, 23 (3) 973-983; DOI: https://doi.org/10.1105/tpc.110.081653
This study defines a previously unknown combinatorial interaction between transcription factors in plants and provides a better understanding of how plants integrate signals to regulate petal development. It also highlights the role of a motif in the bHLH transcription factor that resembles a motif that was previously shown to be important in auxin signaling.
Persson, Staffan
- Open AccessPlaNet: Combined Sequence and Expression Comparisons across Plant Networks Derived from Seven SpeciesMarek Mutwil, Sebastian Klie, Takayuki Tohge, Federico M. Giorgi, Olivia Wilkins, Malcolm M. Campbell, Alisdair R. Fernie, Björn Usadel, Zoran Nikoloski, Staffan PerssonPlant Cell Mar 2011, 23 (3) 895-910; DOI: https://doi.org/10.1105/tpc.111.083667
Genes that are similarly expressed, or coexpressed, are often involved in related biological processes. Such coexpressed relationships also appear to be conserved across species. The PlaNet platform enables comparative analysis of genome-wide coexpression networks across seven plant species, thus enabling prediction of gene function and elucidation of the identity of functional homologs.
Pollet, Brigitte
- You have accessRestricted AccessDisruption of LACCASE4 and 17 Results in Tissue-Specific Alterations to Lignification of Arabidopsis thaliana StemsSerge Berthet, Nathalie Demont-Caulet, Brigitte Pollet, Przemyslaw Bidzinski, Laurent Cézard, Phillipe Le Bris, Nero Borrega, Jonathan Hervé, Eddy Blondet, Sandrine Balzergue, Catherine Lapierre, Lise JouaninPlant Cell Mar 2011, 23 (3) 1124-1137; DOI: https://doi.org/10.1105/tpc.110.082792
This study provides evidence that two laccases, LAC4 and LAC17, participate in the polymerization of lignins in Arabidopsis stems. These findings suggest that the genetic engineering of lignin-specific laccases is a potentially innovative and promising tool for the fine-tuning of lignin content and structure.
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Qi, Tiancong
- You have accessRestricted AccessThe Jasmonate-ZIM Domain Proteins Interact with the R2R3-MYB Transcription Factors MYB21 and MYB24 to Affect Jasmonate-Regulated Stamen Development in ArabidopsisSusheng Song, Tiancong Qi, Huang Huang, Qingcuo Ren, Dewei Wu, Changqing Chang, Wen Peng, Yule Liu, Jinrong Peng, Daoxin XiePlant Cell Mar 2011, 23 (3) 1000-1013; DOI: https://doi.org/10.1105/tpc.111.083089
Jasmonate is essential for diverse biological processes, including male fertility and plant defense in Arabidopsis. This work shows that the R2R3-MYB transcription factors MYB21 and MYB24 function as direct targets of JAZ proteins to mediate jasmonate-regulated stamen development.
Qin, Xing-Hua
- Open AccessArabidopsis Kinesin KP1 Specifically Interacts with VDAC3, a Mitochondrial Protein, and Regulates Respiration during Seed Germination at Low TemperatureXue-Yong Yang, Zi-Wei Chen, Tao Xu, Zhe Qu, Xiao-Di Pan, Xing-Hua Qin, Dong-Tao Ren, Guo-Qin LiuPlant Cell Mar 2011, 23 (3) 1093-1106; DOI: https://doi.org/10.1105/tpc.110.082420
A plant-specific molecular motor (KP1) specifically interacts with a channel protein (VDAC3) of the mitochondrial outer membrane and is targeted to mitochondria via its tail domain. In seedlings germinated at 4°C, either mutant of the two genes exhibited increased oxygen consumption, respiration imbalance, and reduced ATP levels.
Qu, Zhe
- Open AccessArabidopsis Kinesin KP1 Specifically Interacts with VDAC3, a Mitochondrial Protein, and Regulates Respiration during Seed Germination at Low TemperatureXue-Yong Yang, Zi-Wei Chen, Tao Xu, Zhe Qu, Xiao-Di Pan, Xing-Hua Qin, Dong-Tao Ren, Guo-Qin LiuPlant Cell Mar 2011, 23 (3) 1093-1106; DOI: https://doi.org/10.1105/tpc.110.082420
A plant-specific molecular motor (KP1) specifically interacts with a channel protein (VDAC3) of the mitochondrial outer membrane and is targeted to mitochondria via its tail domain. In seedlings germinated at 4°C, either mutant of the two genes exhibited increased oxygen consumption, respiration imbalance, and reduced ATP levels.
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Rampey, Rebekah A.
- You have accessRestricted AccessMultiple Facets of Arabidopsis Seedling Development Require Indole-3-Butyric Acid–Derived AuxinLucia C. Strader, Dorthea L. Wheeler, Sarah E. Christensen, John C. Berens, Jerry D. Cohen, Rebekah A. Rampey, Bonnie BartelPlant Cell Mar 2011, 23 (3) 984-999; DOI: https://doi.org/10.1105/tpc.111.083071
Plants synthesize the growth hormone indole-3-acetic acid using a variety of incompletely understood pathways. This work demonstrates that the conversion of indole-3-butyric acid to indole-3-acetic acid contributes to wide-ranging auxin-regulated processes in Arabidopsis seedlings and that shutting off this auxin supply renders seedlings less able to respond to exogenous auxin.
Rand, David
- Open AccessHigh-Resolution Temporal Profiling of Transcripts during Arabidopsis Leaf Senescence Reveals a Distinct Chronology of Processes and RegulationEmily Breeze, Elizabeth Harrison, Stuart McHattie, Linda Hughes, Richard Hickman, Claire Hill, Steven Kiddle, Youn-sung Kim, Christopher A. Penfold, Dafyd Jenkins, Cunjin Zhang, Karl Morris, Carol Jenner, Stephen Jackson, Brian Thomas, Alexandra Tabrett, Roxane Legaie, Jonathan D. Moore, David L. Wild, Sascha Ott, David Rand, Jim Beynon, Katherine Denby, Andrew Mead, Vicky Buchanan-WollastonPlant Cell Mar 2011, 23 (3) 873-894; DOI: https://doi.org/10.1105/tpc.111.083345
This work presents a high-resolution time-course analysis of gene expression during development of a leaf from expansion through senescence. Enrichment in ontologies, sequence motifs, and transcription factor families within genes showing altered expression over time identified both metabolic pathways and potential regulators active at different stages of leaf development and senescence.
Ren, Dong-Tao
- Open AccessArabidopsis Kinesin KP1 Specifically Interacts with VDAC3, a Mitochondrial Protein, and Regulates Respiration during Seed Germination at Low TemperatureXue-Yong Yang, Zi-Wei Chen, Tao Xu, Zhe Qu, Xiao-Di Pan, Xing-Hua Qin, Dong-Tao Ren, Guo-Qin LiuPlant Cell Mar 2011, 23 (3) 1093-1106; DOI: https://doi.org/10.1105/tpc.110.082420
A plant-specific molecular motor (KP1) specifically interacts with a channel protein (VDAC3) of the mitochondrial outer membrane and is targeted to mitochondria via its tail domain. In seedlings germinated at 4°C, either mutant of the two genes exhibited increased oxygen consumption, respiration imbalance, and reduced ATP levels.
Ren, Qingcuo
- You have accessRestricted AccessThe Jasmonate-ZIM Domain Proteins Interact with the R2R3-MYB Transcription Factors MYB21 and MYB24 to Affect Jasmonate-Regulated Stamen Development in ArabidopsisSusheng Song, Tiancong Qi, Huang Huang, Qingcuo Ren, Dewei Wu, Changqing Chang, Wen Peng, Yule Liu, Jinrong Peng, Daoxin XiePlant Cell Mar 2011, 23 (3) 1000-1013; DOI: https://doi.org/10.1105/tpc.111.083089
Jasmonate is essential for diverse biological processes, including male fertility and plant defense in Arabidopsis. This work shows that the R2R3-MYB transcription factors MYB21 and MYB24 function as direct targets of JAZ proteins to mediate jasmonate-regulated stamen development.
Robinson, David G.
- You have accessRestricted AccessARF1 Localizes to the Golgi and the Trans-Golgi NetworkDavid G. Robinson, David Scheuring, Satoshi Naramoto, Jirí FrimlPlant Cell Mar 2011, 23 (3) 846-849; DOI: https://doi.org/10.1105/tpc.110.082099
Rojas, Margarita
- You have accessRestricted AccessAPO1 Promotes the Splicing of Chloroplast Group II Introns and Harbors a Plant-Specific Zinc-Dependent RNA Binding DomainKenneth P. Watkins, Margarita Rojas, Giulia Friso, Klaas J. van Wijk, Jörg Meurer, Alice BarkanPlant Cell Mar 2011, 23 (3) 1082-1092; DOI: https://doi.org/10.1105/tpc.111.084335
This study demonstrates that APO1, originally proposed to be involved in the maturation of proteins with [4Fe-4S] ligands, is instead required for the splicing of several chloroplast introns. It shows further that DUF794, the plant-specific domain of unknown function that makes up the bulk of APO1, is an RNA binding domain harboring zinc binding motifs.
Rosas-Díaz, Tabata
- You have accessRestricted AccessGeminiviruses Subvert Ubiquitination by Altering CSN-Mediated Derubylation of SCF E3 Ligase Complexes and Inhibit Jasmonate Signaling in Arabidopsis thalianaRosa Lozano-Durán, Tabata Rosas-Díaz, Giuliana Gusmaroli, Ana P. Luna, Ludivine Taconnat, Xing Wang Deng, Eduardo R. BejaranoPlant Cell Mar 2011, 23 (3) 1014-1032; DOI: https://doi.org/10.1105/tpc.110.080267
This study shows that geminivirus C2/L2 protein interferes with the derubylation of CUL1. Responses regulated by the CUL1-based SCF ubiquitin ligases, and particularly the response to jasmonates, are altered in transgenic Arabidopsis thaliana expressing C2/L2. The capability to selectively interfere with SCF complexes may define a novel and powerful strategy in viral infections.
Rosin, Faye M.
- You have accessRestricted AccessTranscriptome and Metabolite Profiling Show That APETALA2a Is a Major Regulator of Tomato Fruit RipeningRumyana Karlova, Faye M. Rosin, Jacqueline Busscher-Lange, Violeta Parapunova, Phuc T. Do, Alisdair R. Fernie, Paul D. Fraser, Charles Baxter, Gerco C. Angenent, Ruud A. de MaagdPlant Cell Mar 2011, 23 (3) 923-941; DOI: https://doi.org/10.1105/tpc.110.081273
This study demonstrates that the tomato APETALA2a (AP2a) transcription factor modulates fruit ripening by negatively regulating ethylene biosynthesis and signaling. Various ripening regulators are shown to act upstream of AP2a. Gene expression analysis reveals that AP2a is involved in chloroplast to chromoplast transition.
Ruff, Thomas G.
- You have accessRestricted AccessBROTHER OF LUX ARRHYTHMO Is a Component of the Arabidopsis Circadian ClockShunhong Dai, Xiaoping Wei, Liping Pei, Rebecca L. Thompson, Yi Liu, Jacqueline E. Heard, Thomas G. Ruff, Roger N. BeachyPlant Cell Mar 2011, 23 (3) 961-972; DOI: https://doi.org/10.1105/tpc.111.084293
This work shows that the Arabidopsis transcription factor BROTHER OF LUX ARRHYTHMO (BOA) is an activator in regulating the expression of CIRCADIAN CLOCK ASSOCIATED1 (CCA1). BOA forms a transcriptional feedback loop with CCA1 and regulates circadian rhythms in Arabidopsis.
S
Sabatini, Sabrina
- You have accessRestricted AccessThe CHD3 Chromatin Remodeler PICKLE and Polycomb Group Proteins Antagonistically Regulate Meristem Activity in the Arabidopsis RootErnst Aichinger, Corina B.R. Villar, Riccardo Di Mambro, Sabrina Sabatini, Claudia KöhlerPlant Cell Mar 2011, 23 (3) 1047-1060; DOI: https://doi.org/10.1105/tpc.111.083352
We report that the chromatin remodeling factor PICKLE and Polycomb group proteins antagonistically determine cell identity. Our study highlights an important role of PICKLE and Polycomb group proteins in regulating root meristem activity by regulating the expression of root stem cell and meristem marker genes.
Salt, David E.
- Open AccessSphingolipids in the Root Play an Important Role in Regulating the Leaf Ionome in Arabidopsis thalianaDai-Yin Chao, Kenneth Gable, Ming Chen, Ivan Baxter, Charles R. Dietrich, Edgar B. Cahoon, Mary Lou Guerinot, Brett Lahner, Shiyou Lü, Jonathan E. Markham, Joe Morrissey, Gongshe Han, Sita D. Gupta, Jeffrey M. Harmon, Jan G. Jaworski, Teresa M. Dunn, David E. SaltPlant Cell Mar 2011, 23 (3) 1061-1081; DOI: https://doi.org/10.1105/tpc.110.079095
Sphingolipids are a diverse group of essential membrane lipids thought to play important roles in both membrane function and cellular signaling. By identifying an Arabidopsis thaliana mutant lacking 3-ketodihydrosphinganine reductase, a critical enzyme in sphingolipid biosynthesis, this work uncovers a connection between sphingolipid metabolism in roots and whole-plant mineral ion homeostasis.
Scheuring, David
- You have accessRestricted AccessARF1 Localizes to the Golgi and the Trans-Golgi NetworkDavid G. Robinson, David Scheuring, Satoshi Naramoto, Jirí FrimlPlant Cell Mar 2011, 23 (3) 846-849; DOI: https://doi.org/10.1105/tpc.110.082099
Schnittger, Arp
- You have accessRestricted AccessThe Emerging Importance of Type I MADS Box Transcription Factors for Plant ReproductionSimona Masiero, Lucia Colombo, Paul E Grini, Arp Schnittger, Martin M KaterPlant Cell Mar 2011, 23 (3) 865-872; DOI: https://doi.org/10.1105/tpc.110.081737
Based on their evolutionary origin, MADS box transcription factor genes have been divided into two classes, namely, type I and II. The plant-specific type II MIKC MADS box genes have been most intensively studied and shown to be key regulators of developmental processes, such as meristem identity, flowering time, and fruit and seed development. By contrast, very little is known about type I MADS domain transcription factors, and they have not attracted interest for a long time. A number of recent studies have now indicated a key regulatory role for type I MADS box factors in plant reproduction, in particular in specifying female gametophyte, embryo, and endosperm development. These analyses have also suggested that type I MADS box factors are decisive for setting reproductive boundaries between species.
Seo, Pil Joon
- You have accessRestricted AccessThe MYB96 Transcription Factor Regulates Cuticular Wax Biosynthesis under Drought Conditions in ArabidopsisPil Joon Seo, Saet Buyl Lee, Mi Chung Suh, Mi-Jeong Park, Young Sam Go, Chung-Mo ParkPlant Cell Mar 2011, 23 (3) 1138-1152; DOI: https://doi.org/10.1105/tpc.111.083485
This work provides evidence that deposition of cuticular waxes is intimately associated with plant responses to drought. The Arabidopsis MYB96 transcription factor functions as a regulator of ABA-mediated cuticular wax biosynthesis under drought conditions by binding directly to the promoters of genes encoding very-long-chain fatty acid–condensing enzymes involved in cuticular wax biosynthesis.
Shen, Xueling
- Open AccessThe Predicted Arabidopsis Interactome Resource and Network Topology-Based Systems Biology AnalysesMingzhi Lin, Xi Zhou, Xueling Shen, Chuanzao Mao, Xin ChenPlant Cell Mar 2011, 23 (3) 911-922; DOI: https://doi.org/10.1105/tpc.110.082529
Protein–protein interactions are important mechanisms for genes and gene networks to function. This study demonstrates that, although the PAIR database has limited coverage, representing ~24% of the entire interactome with ~40% precision, it is rich enough to capture many significant functional linkages within and between higher-order biological systems, such as pathways and biological processes.
Song, Susheng
- You have accessRestricted AccessThe Jasmonate-ZIM Domain Proteins Interact with the R2R3-MYB Transcription Factors MYB21 and MYB24 to Affect Jasmonate-Regulated Stamen Development in ArabidopsisSusheng Song, Tiancong Qi, Huang Huang, Qingcuo Ren, Dewei Wu, Changqing Chang, Wen Peng, Yule Liu, Jinrong Peng, Daoxin XiePlant Cell Mar 2011, 23 (3) 1000-1013; DOI: https://doi.org/10.1105/tpc.111.083089
Jasmonate is essential for diverse biological processes, including male fertility and plant defense in Arabidopsis. This work shows that the R2R3-MYB transcription factors MYB21 and MYB24 function as direct targets of JAZ proteins to mediate jasmonate-regulated stamen development.
Strader, Lucia C.
- You have accessRestricted AccessMultiple Facets of Arabidopsis Seedling Development Require Indole-3-Butyric Acid–Derived AuxinLucia C. Strader, Dorthea L. Wheeler, Sarah E. Christensen, John C. Berens, Jerry D. Cohen, Rebekah A. Rampey, Bonnie BartelPlant Cell Mar 2011, 23 (3) 984-999; DOI: https://doi.org/10.1105/tpc.111.083071
Plants synthesize the growth hormone indole-3-acetic acid using a variety of incompletely understood pathways. This work demonstrates that the conversion of indole-3-butyric acid to indole-3-acetic acid contributes to wide-ranging auxin-regulated processes in Arabidopsis seedlings and that shutting off this auxin supply renders seedlings less able to respond to exogenous auxin.
Suh, Mi Chung
- You have accessRestricted AccessThe MYB96 Transcription Factor Regulates Cuticular Wax Biosynthesis under Drought Conditions in ArabidopsisPil Joon Seo, Saet Buyl Lee, Mi Chung Suh, Mi-Jeong Park, Young Sam Go, Chung-Mo ParkPlant Cell Mar 2011, 23 (3) 1138-1152; DOI: https://doi.org/10.1105/tpc.111.083485
This work provides evidence that deposition of cuticular waxes is intimately associated with plant responses to drought. The Arabidopsis MYB96 transcription factor functions as a regulator of ABA-mediated cuticular wax biosynthesis under drought conditions by binding directly to the promoters of genes encoding very-long-chain fatty acid–condensing enzymes involved in cuticular wax biosynthesis.
Szécsi, Judit
- You have accessRestricted AccessAUXIN RESPONSE FACTOR8 Regulates Arabidopsis Petal Growth by Interacting with the bHLH Transcription Factor BIGPETALpEmilie Varaud, Florian Brioudes, Judit Szécsi, Julie Leroux, Spencer Brown, Catherine Perrot-Rechenmann, Mohammed BendahmanePlant Cell Mar 2011, 23 (3) 973-983; DOI: https://doi.org/10.1105/tpc.110.081653
This study defines a previously unknown combinatorial interaction between transcription factors in plants and provides a better understanding of how plants integrate signals to regulate petal development. It also highlights the role of a motif in the bHLH transcription factor that resembles a motif that was previously shown to be important in auxin signaling.
T
Tabrett, Alexandra
- Open AccessHigh-Resolution Temporal Profiling of Transcripts during Arabidopsis Leaf Senescence Reveals a Distinct Chronology of Processes and RegulationEmily Breeze, Elizabeth Harrison, Stuart McHattie, Linda Hughes, Richard Hickman, Claire Hill, Steven Kiddle, Youn-sung Kim, Christopher A. Penfold, Dafyd Jenkins, Cunjin Zhang, Karl Morris, Carol Jenner, Stephen Jackson, Brian Thomas, Alexandra Tabrett, Roxane Legaie, Jonathan D. Moore, David L. Wild, Sascha Ott, David Rand, Jim Beynon, Katherine Denby, Andrew Mead, Vicky Buchanan-WollastonPlant Cell Mar 2011, 23 (3) 873-894; DOI: https://doi.org/10.1105/tpc.111.083345
This work presents a high-resolution time-course analysis of gene expression during development of a leaf from expansion through senescence. Enrichment in ontologies, sequence motifs, and transcription factor families within genes showing altered expression over time identified both metabolic pathways and potential regulators active at different stages of leaf development and senescence.
Taconnat, Ludivine
- You have accessRestricted AccessGeminiviruses Subvert Ubiquitination by Altering CSN-Mediated Derubylation of SCF E3 Ligase Complexes and Inhibit Jasmonate Signaling in Arabidopsis thalianaRosa Lozano-Durán, Tabata Rosas-Díaz, Giuliana Gusmaroli, Ana P. Luna, Ludivine Taconnat, Xing Wang Deng, Eduardo R. BejaranoPlant Cell Mar 2011, 23 (3) 1014-1032; DOI: https://doi.org/10.1105/tpc.110.080267
This study shows that geminivirus C2/L2 protein interferes with the derubylation of CUL1. Responses regulated by the CUL1-based SCF ubiquitin ligases, and particularly the response to jasmonates, are altered in transgenic Arabidopsis thaliana expressing C2/L2. The capability to selectively interfere with SCF complexes may define a novel and powerful strategy in viral infections.
Tarr, Paul T.
- You have accessRestricted AccessAn Evolutionarily Conserved Pseudokinase Mediates Stem Cell Production in PlantsZachary L. Nimchuk, Paul T. Tarr, Elliot M. MeyerowitzPlant Cell Mar 2011, 23 (3) 851-854; DOI: https://doi.org/10.1105/tpc.110.075622
Thomas, Brian
- Open AccessHigh-Resolution Temporal Profiling of Transcripts during Arabidopsis Leaf Senescence Reveals a Distinct Chronology of Processes and RegulationEmily Breeze, Elizabeth Harrison, Stuart McHattie, Linda Hughes, Richard Hickman, Claire Hill, Steven Kiddle, Youn-sung Kim, Christopher A. Penfold, Dafyd Jenkins, Cunjin Zhang, Karl Morris, Carol Jenner, Stephen Jackson, Brian Thomas, Alexandra Tabrett, Roxane Legaie, Jonathan D. Moore, David L. Wild, Sascha Ott, David Rand, Jim Beynon, Katherine Denby, Andrew Mead, Vicky Buchanan-WollastonPlant Cell Mar 2011, 23 (3) 873-894; DOI: https://doi.org/10.1105/tpc.111.083345
This work presents a high-resolution time-course analysis of gene expression during development of a leaf from expansion through senescence. Enrichment in ontologies, sequence motifs, and transcription factor families within genes showing altered expression over time identified both metabolic pathways and potential regulators active at different stages of leaf development and senescence.
Thompson, Rebecca L.
- You have accessRestricted AccessBROTHER OF LUX ARRHYTHMO Is a Component of the Arabidopsis Circadian ClockShunhong Dai, Xiaoping Wei, Liping Pei, Rebecca L. Thompson, Yi Liu, Jacqueline E. Heard, Thomas G. Ruff, Roger N. BeachyPlant Cell Mar 2011, 23 (3) 961-972; DOI: https://doi.org/10.1105/tpc.111.084293
This work shows that the Arabidopsis transcription factor BROTHER OF LUX ARRHYTHMO (BOA) is an activator in regulating the expression of CIRCADIAN CLOCK ASSOCIATED1 (CCA1). BOA forms a transcriptional feedback loop with CCA1 and regulates circadian rhythms in Arabidopsis.
Thordal-Christensen, Hans
- You have accessRestricted AccessReply: On ARF1 Localizes to the Golgi and the Trans-Golgi Network: Future Challenge in Plant Multivesicular Body StudiesHans Thordal-Christensen, Henrik Böhlenius, Sara M. Mørch, Mads E. NielsenPlant Cell Mar 2011, 23 (3) 849-850; DOI: https://doi.org/10.1105/tpc.111.230340
Tohge, Takayuki
- Open AccessPlaNet: Combined Sequence and Expression Comparisons across Plant Networks Derived from Seven SpeciesMarek Mutwil, Sebastian Klie, Takayuki Tohge, Federico M. Giorgi, Olivia Wilkins, Malcolm M. Campbell, Alisdair R. Fernie, Björn Usadel, Zoran Nikoloski, Staffan PerssonPlant Cell Mar 2011, 23 (3) 895-910; DOI: https://doi.org/10.1105/tpc.111.083667
Genes that are similarly expressed, or coexpressed, are often involved in related biological processes. Such coexpressed relationships also appear to be conserved across species. The PlaNet platform enables comparative analysis of genome-wide coexpression networks across seven plant species, thus enabling prediction of gene function and elucidation of the identity of functional homologs.
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Usadel, Björn
- Open AccessPlaNet: Combined Sequence and Expression Comparisons across Plant Networks Derived from Seven SpeciesMarek Mutwil, Sebastian Klie, Takayuki Tohge, Federico M. Giorgi, Olivia Wilkins, Malcolm M. Campbell, Alisdair R. Fernie, Björn Usadel, Zoran Nikoloski, Staffan PerssonPlant Cell Mar 2011, 23 (3) 895-910; DOI: https://doi.org/10.1105/tpc.111.083667
Genes that are similarly expressed, or coexpressed, are often involved in related biological processes. Such coexpressed relationships also appear to be conserved across species. The PlaNet platform enables comparative analysis of genome-wide coexpression networks across seven plant species, thus enabling prediction of gene function and elucidation of the identity of functional homologs.
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Van Norman, Jaimie M.
- You have accessRestricted AccessIntercellular Communication during Plant DevelopmentJaimie M. Van Norman, Natalie W. Breakfield, Philip N. BenfeyPlant Cell Mar 2011, 23 (3) 855-864; DOI: https://doi.org/10.1105/tpc.111.082982
van Wijk, Klaas J.
- You have accessRestricted AccessAPO1 Promotes the Splicing of Chloroplast Group II Introns and Harbors a Plant-Specific Zinc-Dependent RNA Binding DomainKenneth P. Watkins, Margarita Rojas, Giulia Friso, Klaas J. van Wijk, Jörg Meurer, Alice BarkanPlant Cell Mar 2011, 23 (3) 1082-1092; DOI: https://doi.org/10.1105/tpc.111.084335
This study demonstrates that APO1, originally proposed to be involved in the maturation of proteins with [4Fe-4S] ligands, is instead required for the splicing of several chloroplast introns. It shows further that DUF794, the plant-specific domain of unknown function that makes up the bulk of APO1, is an RNA binding domain harboring zinc binding motifs.
Varaud, Emilie
- You have accessRestricted AccessAUXIN RESPONSE FACTOR8 Regulates Arabidopsis Petal Growth by Interacting with the bHLH Transcription Factor BIGPETALpEmilie Varaud, Florian Brioudes, Judit Szécsi, Julie Leroux, Spencer Brown, Catherine Perrot-Rechenmann, Mohammed BendahmanePlant Cell Mar 2011, 23 (3) 973-983; DOI: https://doi.org/10.1105/tpc.110.081653
This study defines a previously unknown combinatorial interaction between transcription factors in plants and provides a better understanding of how plants integrate signals to regulate petal development. It also highlights the role of a motif in the bHLH transcription factor that resembles a motif that was previously shown to be important in auxin signaling.
Villar, Corina B.R.
- You have accessRestricted AccessThe CHD3 Chromatin Remodeler PICKLE and Polycomb Group Proteins Antagonistically Regulate Meristem Activity in the Arabidopsis RootErnst Aichinger, Corina B.R. Villar, Riccardo Di Mambro, Sabrina Sabatini, Claudia KöhlerPlant Cell Mar 2011, 23 (3) 1047-1060; DOI: https://doi.org/10.1105/tpc.111.083352
We report that the chromatin remodeling factor PICKLE and Polycomb group proteins antagonistically determine cell identity. Our study highlights an important role of PICKLE and Polycomb group proteins in regulating root meristem activity by regulating the expression of root stem cell and meristem marker genes.
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Wang, Xuemin
- You have accessRestricted AccessPatatin-Related Phospholipase pPLAIIIβ-Induced Changes in Lipid Metabolism Alter Cellulose Content and Cell Elongation in ArabidopsisMaoyin Li, Sung Chul Bahn, Liang Guo, William Musgrave, Howard Berg, Ruth Welti, Xuemin WangPlant Cell Mar 2011, 23 (3) 1107-1123; DOI: https://doi.org/10.1105/tpc.110.081240
Patatin-related phospholipase pPLAIIIβ lacks the canonical esterase catalytic center but possesses acyl-hydrolyzing and acyl-CoA thioesterase activities. Knockout and overexpression of pPLAIIIβ have opposite effects on the levels of membrane lipids, cellulose content, mechanical strength, and cell length. Thus, membrane lipid metabolism may be linked to cellulose production in Arabidopsis.
Watkins, Kenneth P.
- You have accessRestricted AccessAPO1 Promotes the Splicing of Chloroplast Group II Introns and Harbors a Plant-Specific Zinc-Dependent RNA Binding DomainKenneth P. Watkins, Margarita Rojas, Giulia Friso, Klaas J. van Wijk, Jörg Meurer, Alice BarkanPlant Cell Mar 2011, 23 (3) 1082-1092; DOI: https://doi.org/10.1105/tpc.111.084335
This study demonstrates that APO1, originally proposed to be involved in the maturation of proteins with [4Fe-4S] ligands, is instead required for the splicing of several chloroplast introns. It shows further that DUF794, the plant-specific domain of unknown function that makes up the bulk of APO1, is an RNA binding domain harboring zinc binding motifs.
Wei, Xiaoping
- You have accessRestricted AccessBROTHER OF LUX ARRHYTHMO Is a Component of the Arabidopsis Circadian ClockShunhong Dai, Xiaoping Wei, Liping Pei, Rebecca L. Thompson, Yi Liu, Jacqueline E. Heard, Thomas G. Ruff, Roger N. BeachyPlant Cell Mar 2011, 23 (3) 961-972; DOI: https://doi.org/10.1105/tpc.111.084293
This work shows that the Arabidopsis transcription factor BROTHER OF LUX ARRHYTHMO (BOA) is an activator in regulating the expression of CIRCADIAN CLOCK ASSOCIATED1 (CCA1). BOA forms a transcriptional feedback loop with CCA1 and regulates circadian rhythms in Arabidopsis.
Welti, Ruth
- You have accessRestricted AccessPatatin-Related Phospholipase pPLAIIIβ-Induced Changes in Lipid Metabolism Alter Cellulose Content and Cell Elongation in ArabidopsisMaoyin Li, Sung Chul Bahn, Liang Guo, William Musgrave, Howard Berg, Ruth Welti, Xuemin WangPlant Cell Mar 2011, 23 (3) 1107-1123; DOI: https://doi.org/10.1105/tpc.110.081240
Patatin-related phospholipase pPLAIIIβ lacks the canonical esterase catalytic center but possesses acyl-hydrolyzing and acyl-CoA thioesterase activities. Knockout and overexpression of pPLAIIIβ have opposite effects on the levels of membrane lipids, cellulose content, mechanical strength, and cell length. Thus, membrane lipid metabolism may be linked to cellulose production in Arabidopsis.
Wheeler, Dorthea L.
- You have accessRestricted AccessMultiple Facets of Arabidopsis Seedling Development Require Indole-3-Butyric Acid–Derived AuxinLucia C. Strader, Dorthea L. Wheeler, Sarah E. Christensen, John C. Berens, Jerry D. Cohen, Rebekah A. Rampey, Bonnie BartelPlant Cell Mar 2011, 23 (3) 984-999; DOI: https://doi.org/10.1105/tpc.111.083071
Plants synthesize the growth hormone indole-3-acetic acid using a variety of incompletely understood pathways. This work demonstrates that the conversion of indole-3-butyric acid to indole-3-acetic acid contributes to wide-ranging auxin-regulated processes in Arabidopsis seedlings and that shutting off this auxin supply renders seedlings less able to respond to exogenous auxin.
Wild, David L.
- Open AccessHigh-Resolution Temporal Profiling of Transcripts during Arabidopsis Leaf Senescence Reveals a Distinct Chronology of Processes and RegulationEmily Breeze, Elizabeth Harrison, Stuart McHattie, Linda Hughes, Richard Hickman, Claire Hill, Steven Kiddle, Youn-sung Kim, Christopher A. Penfold, Dafyd Jenkins, Cunjin Zhang, Karl Morris, Carol Jenner, Stephen Jackson, Brian Thomas, Alexandra Tabrett, Roxane Legaie, Jonathan D. Moore, David L. Wild, Sascha Ott, David Rand, Jim Beynon, Katherine Denby, Andrew Mead, Vicky Buchanan-WollastonPlant Cell Mar 2011, 23 (3) 873-894; DOI: https://doi.org/10.1105/tpc.111.083345
This work presents a high-resolution time-course analysis of gene expression during development of a leaf from expansion through senescence. Enrichment in ontologies, sequence motifs, and transcription factor families within genes showing altered expression over time identified both metabolic pathways and potential regulators active at different stages of leaf development and senescence.
Wilkins, Olivia
- Open AccessPlaNet: Combined Sequence and Expression Comparisons across Plant Networks Derived from Seven SpeciesMarek Mutwil, Sebastian Klie, Takayuki Tohge, Federico M. Giorgi, Olivia Wilkins, Malcolm M. Campbell, Alisdair R. Fernie, Björn Usadel, Zoran Nikoloski, Staffan PerssonPlant Cell Mar 2011, 23 (3) 895-910; DOI: https://doi.org/10.1105/tpc.111.083667
Genes that are similarly expressed, or coexpressed, are often involved in related biological processes. Such coexpressed relationships also appear to be conserved across species. The PlaNet platform enables comparative analysis of genome-wide coexpression networks across seven plant species, thus enabling prediction of gene function and elucidation of the identity of functional homologs.
Wu, Dewei
- You have accessRestricted AccessThe Jasmonate-ZIM Domain Proteins Interact with the R2R3-MYB Transcription Factors MYB21 and MYB24 to Affect Jasmonate-Regulated Stamen Development in ArabidopsisSusheng Song, Tiancong Qi, Huang Huang, Qingcuo Ren, Dewei Wu, Changqing Chang, Wen Peng, Yule Liu, Jinrong Peng, Daoxin XiePlant Cell Mar 2011, 23 (3) 1000-1013; DOI: https://doi.org/10.1105/tpc.111.083089
Jasmonate is essential for diverse biological processes, including male fertility and plant defense in Arabidopsis. This work shows that the R2R3-MYB transcription factors MYB21 and MYB24 function as direct targets of JAZ proteins to mediate jasmonate-regulated stamen development.
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Xie, Daoxin
- You have accessRestricted AccessThe Jasmonate-ZIM Domain Proteins Interact with the R2R3-MYB Transcription Factors MYB21 and MYB24 to Affect Jasmonate-Regulated Stamen Development in ArabidopsisSusheng Song, Tiancong Qi, Huang Huang, Qingcuo Ren, Dewei Wu, Changqing Chang, Wen Peng, Yule Liu, Jinrong Peng, Daoxin XiePlant Cell Mar 2011, 23 (3) 1000-1013; DOI: https://doi.org/10.1105/tpc.111.083089
Jasmonate is essential for diverse biological processes, including male fertility and plant defense in Arabidopsis. This work shows that the R2R3-MYB transcription factors MYB21 and MYB24 function as direct targets of JAZ proteins to mediate jasmonate-regulated stamen development.
Xu, Tao
- Open AccessArabidopsis Kinesin KP1 Specifically Interacts with VDAC3, a Mitochondrial Protein, and Regulates Respiration during Seed Germination at Low TemperatureXue-Yong Yang, Zi-Wei Chen, Tao Xu, Zhe Qu, Xiao-Di Pan, Xing-Hua Qin, Dong-Tao Ren, Guo-Qin LiuPlant Cell Mar 2011, 23 (3) 1093-1106; DOI: https://doi.org/10.1105/tpc.110.082420
A plant-specific molecular motor (KP1) specifically interacts with a channel protein (VDAC3) of the mitochondrial outer membrane and is targeted to mitochondria via its tail domain. In seedlings germinated at 4°C, either mutant of the two genes exhibited increased oxygen consumption, respiration imbalance, and reduced ATP levels.
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Yamada, Reiko
- Open AccessPhosphorylation of the Nicotiana benthamiana WRKY8 Transcription Factor by MAPK Functions in the Defense ResponseNobuaki Ishihama, Reiko Yamada, Miki Yoshioka, Shinpei Katou, Hirofumi YoshiokaPlant Cell Mar 2011, 23 (3) 1153-1170; DOI: https://doi.org/10.1105/tpc.110.081794
This study identified WRKY8 as a downstream target of three mitogen-activated protein kinases in Nicotiana benthamiana. Phosphorylation of WRKY8 increased its DNA binding activity, and ectopic expression of WRKY8 induced the expression of various defense-related genes.
Yang, Xue-Yong
- Open AccessArabidopsis Kinesin KP1 Specifically Interacts with VDAC3, a Mitochondrial Protein, and Regulates Respiration during Seed Germination at Low TemperatureXue-Yong Yang, Zi-Wei Chen, Tao Xu, Zhe Qu, Xiao-Di Pan, Xing-Hua Qin, Dong-Tao Ren, Guo-Qin LiuPlant Cell Mar 2011, 23 (3) 1093-1106; DOI: https://doi.org/10.1105/tpc.110.082420
A plant-specific molecular motor (KP1) specifically interacts with a channel protein (VDAC3) of the mitochondrial outer membrane and is targeted to mitochondria via its tail domain. In seedlings germinated at 4°C, either mutant of the two genes exhibited increased oxygen consumption, respiration imbalance, and reduced ATP levels.
Yoshioka, Hirofumi
- Open AccessPhosphorylation of the Nicotiana benthamiana WRKY8 Transcription Factor by MAPK Functions in the Defense ResponseNobuaki Ishihama, Reiko Yamada, Miki Yoshioka, Shinpei Katou, Hirofumi YoshiokaPlant Cell Mar 2011, 23 (3) 1153-1170; DOI: https://doi.org/10.1105/tpc.110.081794
This study identified WRKY8 as a downstream target of three mitogen-activated protein kinases in Nicotiana benthamiana. Phosphorylation of WRKY8 increased its DNA binding activity, and ectopic expression of WRKY8 induced the expression of various defense-related genes.
Yoshioka, Miki
- Open AccessPhosphorylation of the Nicotiana benthamiana WRKY8 Transcription Factor by MAPK Functions in the Defense ResponseNobuaki Ishihama, Reiko Yamada, Miki Yoshioka, Shinpei Katou, Hirofumi YoshiokaPlant Cell Mar 2011, 23 (3) 1153-1170; DOI: https://doi.org/10.1105/tpc.110.081794
This study identified WRKY8 as a downstream target of three mitogen-activated protein kinases in Nicotiana benthamiana. Phosphorylation of WRKY8 increased its DNA binding activity, and ectopic expression of WRKY8 induced the expression of various defense-related genes.
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Zhang, Cunjin
- Open AccessHigh-Resolution Temporal Profiling of Transcripts during Arabidopsis Leaf Senescence Reveals a Distinct Chronology of Processes and RegulationEmily Breeze, Elizabeth Harrison, Stuart McHattie, Linda Hughes, Richard Hickman, Claire Hill, Steven Kiddle, Youn-sung Kim, Christopher A. Penfold, Dafyd Jenkins, Cunjin Zhang, Karl Morris, Carol Jenner, Stephen Jackson, Brian Thomas, Alexandra Tabrett, Roxane Legaie, Jonathan D. Moore, David L. Wild, Sascha Ott, David Rand, Jim Beynon, Katherine Denby, Andrew Mead, Vicky Buchanan-WollastonPlant Cell Mar 2011, 23 (3) 873-894; DOI: https://doi.org/10.1105/tpc.111.083345
This work presents a high-resolution time-course analysis of gene expression during development of a leaf from expansion through senescence. Enrichment in ontologies, sequence motifs, and transcription factor families within genes showing altered expression over time identified both metabolic pathways and potential regulators active at different stages of leaf development and senescence.
Zheng, Binglian
- You have accessRestricted AccessThe Anaphase-Promoting Complex Is a Dual Integrator That Regulates Both MicroRNA-Mediated Transcriptional Regulation of Cyclin B1 and Degradation of Cyclin B1 during Arabidopsis Male Gametophyte DevelopmentBinglian Zheng, Xuemei Chen, Sheila McCormickPlant Cell Mar 2011, 23 (3) 1033-1046; DOI: https://doi.org/10.1105/tpc.111.083980
This study shows that, in addition to its known role in protein degradation, the anaphase-promoting complex also regulates transcription of a cell cycle gene, Cyclin B1, and that this regulation, which is mediated by microRNA, is important for pollen development.
Zhou, Xi
- Open AccessThe Predicted Arabidopsis Interactome Resource and Network Topology-Based Systems Biology AnalysesMingzhi Lin, Xi Zhou, Xueling Shen, Chuanzao Mao, Xin ChenPlant Cell Mar 2011, 23 (3) 911-922; DOI: https://doi.org/10.1105/tpc.110.082529
Protein–protein interactions are important mechanisms for genes and gene networks to function. This study demonstrates that, although the PAIR database has limited coverage, representing ~24% of the entire interactome with ~40% precision, it is rich enough to capture many significant functional linkages within and between higher-order biological systems, such as pathways and biological processes.