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Table of Contents

The Plant Cell Online: 24 (11)
Nov 2012
  • A
  • B
  • C
  • D
  • E
  • F
  • G
  • H
  • I
  • J
  • K
  • L
  • M
  • N
  • O
  • P
  • Q
  • R
  • S
  • T
  • U
  • V
  • W
  • X
  • Y
  • Z

A

  1. Abu el Heba, Ghada

    1. <em>NODULE ROOT</em> and <em>COCHLEATA</em> Maintain Nodule Development and Are Legume Orthologs of <em>Arabidopsis BLADE-ON-PETIOLE</em> Genes
      Open Access
      NODULE ROOT and COCHLEATA Maintain Nodule Development and Are Legume Orthologs of Arabidopsis BLADE-ON-PETIOLE Genes
      Jean-Malo Couzigou, Vladimir Zhukov, Samuel Mondy, Ghada Abu el Heba, Viviane Cosson, T.H. Noel Ellis, Mike Ambrose, Jiangqi Wen, Million Tadege, Igor Tikhonovich, Kirankumar S. Mysore, Joanna Putterill, Julie Hofer, Alexei Y. Borisov, Pascal Ratet
      Plant Cell Nov 2012, 24 (11) 4498-4510; DOI: https://doi.org/10.1105/tpc.112.103747

      Medicago truncatula NOOT and Pisum sativum COCH were found to maintain nodule identity during symbiotic interactions with rhizobia and were identified as orthologs of Arabidopsis BLADE-ON-PETIOLE genes, which are involved in leaf and flower development.

  2. Afzal, Ahmed J.

    1. The <em>Magnaporthe oryzae</em> Effector AvrPiz-t Targets the RING E3 Ubiquitin Ligase APIP6 to Suppress Pathogen-Associated Molecular Pattern–Triggered Immunity in Rice
      Open Access
      The Magnaporthe oryzae Effector AvrPiz-t Targets the RING E3 Ubiquitin Ligase APIP6 to Suppress Pathogen-Associated Molecular Pattern–Triggered Immunity in Rice
      Chan-Ho Park, Songbiao Chen, Gautam Shirsekar, Bo Zhou, Chang Hyun Khang, Pattavipha Songkumarn, Ahmed J. Afzal, Yuese Ning, Ruyi Wang, Maria Bellizzi, Barbara Valent, Guo-Liang Wang
      Plant Cell Nov 2012, 24 (11) 4748-4762; DOI: https://doi.org/10.1105/tpc.112.105429

      This work shows that the Magnaporthe oryzae effector AvrPiz-t enters into rice cells to target the RING E3 ubiquitin ligase APIP6 for suppression of PAMP-triggered immunity in rice. It also describes that APIP6 degrades AvrPiz-t in planta and positively regulates basal defense to M. oryzae.

  3. Álvarez, Consolación

    1. Cysteine-Generated Sulfide in the Cytosol Negatively Regulates Autophagy and Modulates the Transcriptional Profile in <em>Arabidopsis</em>
      You have accessRestricted Access
      Cysteine-Generated Sulfide in the Cytosol Negatively Regulates Autophagy and Modulates the Transcriptional Profile in Arabidopsis
      Consolación Álvarez, Irene García, Inmaculada Moreno, María Esther Pérez-Pérez, José L. Crespo, Luis C. Romero, Cecilia Gotor
      Plant Cell Nov 2012, 24 (11) 4621-4634; DOI: https://doi.org/10.1105/tpc.112.105403

      This article highlights the role of hydrogen sulfide as a relevant signaling molecule in plants, of comparable importance as described in animals. This study shows the regulatory role of sulfide generated by the cytosolic l-Cys desulfhydrase 1 enzyme on autophagy in eukaryotes.

  4. Amar, David

    1. The MORPH Algorithm: Ranking Candidate Genes for Membership in <em>Arabidopsis</em> and Tomato Pathways
      You have accessRestricted Access
      The MORPH Algorithm: Ranking Candidate Genes for Membership in Arabidopsis and Tomato Pathways
      Oren Tzfadia, David Amar, Louis M.T. Bradbury, Eleanore T. Wurtzel, Ron Shamir
      Plant Cell Nov 2012, 24 (11) 4389-4406; DOI: https://doi.org/10.1105/tpc.112.104513

      A fundamental challenge in plant biology is to discover the unknown connections within and between pathways and to associate previously unknown genes with specific biological processes. MORPH is a computational method for predicting genes that function in or regulate a biological pathway. MORPH fills pathway gaps and defines complex biological networks as shown for Arabidopsis and tomato.

  5. Ambrose, Mike

    1. <em>NODULE ROOT</em> and <em>COCHLEATA</em> Maintain Nodule Development and Are Legume Orthologs of <em>Arabidopsis BLADE-ON-PETIOLE</em> Genes
      Open Access
      NODULE ROOT and COCHLEATA Maintain Nodule Development and Are Legume Orthologs of Arabidopsis BLADE-ON-PETIOLE Genes
      Jean-Malo Couzigou, Vladimir Zhukov, Samuel Mondy, Ghada Abu el Heba, Viviane Cosson, T.H. Noel Ellis, Mike Ambrose, Jiangqi Wen, Million Tadege, Igor Tikhonovich, Kirankumar S. Mysore, Joanna Putterill, Julie Hofer, Alexei Y. Borisov, Pascal Ratet
      Plant Cell Nov 2012, 24 (11) 4498-4510; DOI: https://doi.org/10.1105/tpc.112.103747

      Medicago truncatula NOOT and Pisum sativum COCH were found to maintain nodule identity during symbiotic interactions with rhizobia and were identified as orthologs of Arabidopsis BLADE-ON-PETIOLE genes, which are involved in leaf and flower development.

  6. Anderson, Ryan G.

    1. The Ubiquitin Ligase PUB22 Targets a Subunit of the Exocyst Complex Required for PAMP-Triggered Responses in <em>Arabidopsis</em>
      You have accessRestricted Access
      The Ubiquitin Ligase PUB22 Targets a Subunit of the Exocyst Complex Required for PAMP-Triggered Responses in Arabidopsis
      Martin Stegmann, Ryan G. Anderson, Kazuya Ichimura, Tamara Pecenkova, Patrick Reuter, Viktor Žárský, John M. McDowell, Ken Shirasu, Marco Trujillo
      Plant Cell Nov 2012, 24 (11) 4703-4716; DOI: https://doi.org/10.1105/tpc.112.104463

      Exo70B2, a subunit of the exocyst complex, which is involved in exocytosis, is targeted for degradation by the ubiquitin ligase PUB22 upon activation of the immune system. This work also reveals that Exo70B2 is required for the activation of PAMP-triggered responses.

  7. Angenent, Gerco C.

    1. The Tomato FRUITFULL Homologs TDR4/FUL1 and MBP7/FUL2 Regulate Ethylene-Independent Aspects of Fruit Ripening
      You have accessRestricted Access
      The Tomato FRUITFULL Homologs TDR4/FUL1 and MBP7/FUL2 Regulate Ethylene-Independent Aspects of Fruit Ripening
      Marian Bemer, Rumyana Karlova, Ana Rosa Ballester, Yury M. Tikunov, Arnaud G. Bovy, Mieke Wolters-Arts, Priscilla de Barros Rossetto, Gerco C. Angenent, Ruud A. de Maagd
      Plant Cell Nov 2012, 24 (11) 4437-4451; DOI: https://doi.org/10.1105/tpc.112.103283

      Ripening of the tomato fruit is accompanied by an increase in ethylene production and involves color changes, altered sugar metabolism, tissue softening, and the synthesis of aroma volatiles. This study shows that the MADS domain transcription factors FUL1 and FUL2 play a role in the regulation of these ripening processes, but in an ethylene-independent manner.

  8. Arenas-Huertero, Catalina

    1. Genome-Wide Analysis Uncovers Regulation of Long Intergenic Noncoding RNAs in <em>Arabidopsis</em>
      You have accessRestricted Access
      Genome-Wide Analysis Uncovers Regulation of Long Intergenic Noncoding RNAs in Arabidopsis
      Jun Liu, Choonkyun Jung, Jun Xu, Huan Wang, Shulin Deng, Lucia Bernad, Catalina Arenas-Huertero, Nam-Hai Chua
      Plant Cell Nov 2012, 24 (11) 4333-4345; DOI: https://doi.org/10.1105/tpc.112.102855

      This work identifies 6480 long intergenic noncoding RNAs in Arabidopsis, many of which show organ-specific and stress-responsive expression. The biogenesis of a group of long intergenic noncoding RNAs is coregulated by the RNA processing proteins SERRATE, CBP20, and CBP80.

B

  1. Ballester, Ana Rosa

    1. The Tomato FRUITFULL Homologs TDR4/FUL1 and MBP7/FUL2 Regulate Ethylene-Independent Aspects of Fruit Ripening
      You have accessRestricted Access
      The Tomato FRUITFULL Homologs TDR4/FUL1 and MBP7/FUL2 Regulate Ethylene-Independent Aspects of Fruit Ripening
      Marian Bemer, Rumyana Karlova, Ana Rosa Ballester, Yury M. Tikunov, Arnaud G. Bovy, Mieke Wolters-Arts, Priscilla de Barros Rossetto, Gerco C. Angenent, Ruud A. de Maagd
      Plant Cell Nov 2012, 24 (11) 4437-4451; DOI: https://doi.org/10.1105/tpc.112.103283

      Ripening of the tomato fruit is accompanied by an increase in ethylene production and involves color changes, altered sugar metabolism, tissue softening, and the synthesis of aroma volatiles. This study shows that the MADS domain transcription factors FUL1 and FUL2 play a role in the regulation of these ripening processes, but in an ethylene-independent manner.

  2. Bassard, Jean-Etienne

    1. Protein–Protein and Protein–Membrane Associations in the Lignin Pathway
      Open Access
      Protein–Protein and Protein–Membrane Associations in the Lignin Pathway
      Jean-Etienne Bassard, Ludovic Richert, Jan Geerinck, Hugues Renault, Frédéric Duval, Pascaline Ullmann, Martine Schmitt, Etienne Meyer, Jerôme Mutterer, Wout Boerjan, Geert De Jaeger, Yves Mely, Alain Goossens, Danièle Werck-Reichhart
      Plant Cell Nov 2012, 24 (11) 4465-4482; DOI: https://doi.org/10.1105/tpc.112.102566

      Analysis of the supramolecular organization of enzymes in the lignin pathway shows that cytochrome P450s oligomerize and move along with the very mobile plant endoplasmic reticulum. Their expression favors relocalization of their soluble partner proteins nearer the membrane and association of sequential enzymes in the pathway.

  3. Bassham, Diane C.

    1. Degradation of the Endoplasmic Reticulum by Autophagy during Endoplasmic Reticulum Stress in <em>Arabidopsis</em>
      You have accessRestricted Access
      Degradation of the Endoplasmic Reticulum by Autophagy during Endoplasmic Reticulum Stress in Arabidopsis
      Yimo Liu, Junmarie Soto Burgos, Yan Deng, Renu Srivastava, Stephen H. Howell, Diane C. Bassham
      Plant Cell Nov 2012, 24 (11) 4635-4651; DOI: https://doi.org/10.1105/tpc.112.101535

      Upon accumulation of unfolded proteins in the endoplasmic reticulum (ER), cells activate an ER stress response to enable plants to tolerate these conditions. This work shows that one facet of this response is the activation of the autophagy pathway for degradation of ER fragments in the vacuole, which is regulated by the IRE1b splicing factor.

  4. Bellizzi, Maria

    1. The <em>Magnaporthe oryzae</em> Effector AvrPiz-t Targets the RING E3 Ubiquitin Ligase APIP6 to Suppress Pathogen-Associated Molecular Pattern–Triggered Immunity in Rice
      Open Access
      The Magnaporthe oryzae Effector AvrPiz-t Targets the RING E3 Ubiquitin Ligase APIP6 to Suppress Pathogen-Associated Molecular Pattern–Triggered Immunity in Rice
      Chan-Ho Park, Songbiao Chen, Gautam Shirsekar, Bo Zhou, Chang Hyun Khang, Pattavipha Songkumarn, Ahmed J. Afzal, Yuese Ning, Ruyi Wang, Maria Bellizzi, Barbara Valent, Guo-Liang Wang
      Plant Cell Nov 2012, 24 (11) 4748-4762; DOI: https://doi.org/10.1105/tpc.112.105429

      This work shows that the Magnaporthe oryzae effector AvrPiz-t enters into rice cells to target the RING E3 ubiquitin ligase APIP6 for suppression of PAMP-triggered immunity in rice. It also describes that APIP6 degrades AvrPiz-t in planta and positively regulates basal defense to M. oryzae.

  5. Bemer, Marian

    1. The Tomato FRUITFULL Homologs TDR4/FUL1 and MBP7/FUL2 Regulate Ethylene-Independent Aspects of Fruit Ripening
      You have accessRestricted Access
      The Tomato FRUITFULL Homologs TDR4/FUL1 and MBP7/FUL2 Regulate Ethylene-Independent Aspects of Fruit Ripening
      Marian Bemer, Rumyana Karlova, Ana Rosa Ballester, Yury M. Tikunov, Arnaud G. Bovy, Mieke Wolters-Arts, Priscilla de Barros Rossetto, Gerco C. Angenent, Ruud A. de Maagd
      Plant Cell Nov 2012, 24 (11) 4437-4451; DOI: https://doi.org/10.1105/tpc.112.103283

      Ripening of the tomato fruit is accompanied by an increase in ethylene production and involves color changes, altered sugar metabolism, tissue softening, and the synthesis of aroma volatiles. This study shows that the MADS domain transcription factors FUL1 and FUL2 play a role in the regulation of these ripening processes, but in an ethylene-independent manner.

  6. Benning, Christoph

    1. A Galactoglycerolipid Lipase Is Required for Triacylglycerol Accumulation and Survival Following Nitrogen Deprivation in <em>Chlamydomonas reinhardtii</em>
      You have accessRestricted Access
      A Galactoglycerolipid Lipase Is Required for Triacylglycerol Accumulation and Survival Following Nitrogen Deprivation in Chlamydomonas reinhardtii
      Xiaobo Li, Eric R. Moellering, Bensheng Liu, Cassandra Johnny, Marie Fedewa, Barbara B. Sears, Min-Hao Kuo, Christoph Benning
      Plant Cell Nov 2012, 24 (11) 4670-4686; DOI: https://doi.org/10.1105/tpc.112.105106

      A mutant of Chlamydomonas reinhardtii with impaired oil accumulation is shown to be deficient in a lipase with specificity for newly assembled monogalactolipids. Passage of fatty acids synthesized in the chloroplast through a transient chloroplast membrane lipid pool into triacylglycerols is proposed. A role of oil biosynthesis for survival following nutrient deprivation is demonstrated.

  7. Berendzen, Kenneth Wayne

    1. Reevaluation of the Reliability and Usefulness of the Somatic Homologous Recombination Reporter Lines
      You have accessRestricted Access
      Reevaluation of the Reliability and Usefulness of the Somatic Homologous Recombination Reporter Lines
      Bekir Ülker, Carl Maximilian Hommelsheim, Tobias Berson, Stefan Thomas, Balakumaran Chandrasekar, Ahmet Can Olcay, Kenneth Wayne Berendzen, Lamprinos Frantzeskakis
      Plant Cell Nov 2012, 24 (11) 4314-4323; DOI: https://doi.org/10.1105/tpc.112.100404
  8. Bernad, Lucia

    1. Genome-Wide Analysis Uncovers Regulation of Long Intergenic Noncoding RNAs in <em>Arabidopsis</em>
      You have accessRestricted Access
      Genome-Wide Analysis Uncovers Regulation of Long Intergenic Noncoding RNAs in Arabidopsis
      Jun Liu, Choonkyun Jung, Jun Xu, Huan Wang, Shulin Deng, Lucia Bernad, Catalina Arenas-Huertero, Nam-Hai Chua
      Plant Cell Nov 2012, 24 (11) 4333-4345; DOI: https://doi.org/10.1105/tpc.112.102855

      This work identifies 6480 long intergenic noncoding RNAs in Arabidopsis, many of which show organ-specific and stress-responsive expression. The biogenesis of a group of long intergenic noncoding RNAs is coregulated by the RNA processing proteins SERRATE, CBP20, and CBP80.

  9. Berson, Tobias

    1. Reevaluation of the Reliability and Usefulness of the Somatic Homologous Recombination Reporter Lines
      You have accessRestricted Access
      Reevaluation of the Reliability and Usefulness of the Somatic Homologous Recombination Reporter Lines
      Bekir Ülker, Carl Maximilian Hommelsheim, Tobias Berson, Stefan Thomas, Balakumaran Chandrasekar, Ahmet Can Olcay, Kenneth Wayne Berendzen, Lamprinos Frantzeskakis
      Plant Cell Nov 2012, 24 (11) 4314-4323; DOI: https://doi.org/10.1105/tpc.112.100404
  10. Boerjan, Wout

    1. Protein–Protein and Protein–Membrane Associations in the Lignin Pathway
      Open Access
      Protein–Protein and Protein–Membrane Associations in the Lignin Pathway
      Jean-Etienne Bassard, Ludovic Richert, Jan Geerinck, Hugues Renault, Frédéric Duval, Pascaline Ullmann, Martine Schmitt, Etienne Meyer, Jerôme Mutterer, Wout Boerjan, Geert De Jaeger, Yves Mely, Alain Goossens, Danièle Werck-Reichhart
      Plant Cell Nov 2012, 24 (11) 4465-4482; DOI: https://doi.org/10.1105/tpc.112.102566

      Analysis of the supramolecular organization of enzymes in the lignin pathway shows that cytochrome P450s oligomerize and move along with the very mobile plant endoplasmic reticulum. Their expression favors relocalization of their soluble partner proteins nearer the membrane and association of sequential enzymes in the pathway.

  11. Borisov, Alexei Y.

    1. <em>NODULE ROOT</em> and <em>COCHLEATA</em> Maintain Nodule Development and Are Legume Orthologs of <em>Arabidopsis BLADE-ON-PETIOLE</em> Genes
      Open Access
      NODULE ROOT and COCHLEATA Maintain Nodule Development and Are Legume Orthologs of Arabidopsis BLADE-ON-PETIOLE Genes
      Jean-Malo Couzigou, Vladimir Zhukov, Samuel Mondy, Ghada Abu el Heba, Viviane Cosson, T.H. Noel Ellis, Mike Ambrose, Jiangqi Wen, Million Tadege, Igor Tikhonovich, Kirankumar S. Mysore, Joanna Putterill, Julie Hofer, Alexei Y. Borisov, Pascal Ratet
      Plant Cell Nov 2012, 24 (11) 4498-4510; DOI: https://doi.org/10.1105/tpc.112.103747

      Medicago truncatula NOOT and Pisum sativum COCH were found to maintain nodule identity during symbiotic interactions with rhizobia and were identified as orthologs of Arabidopsis BLADE-ON-PETIOLE genes, which are involved in leaf and flower development.

  12. Böttcher, Christine

    1. Crystal Structure of an Indole-3-Acetic Acid Amido Synthetase from Grapevine Involved in Auxin Homeostasis
      You have accessRestricted Access
      Crystal Structure of an Indole-3-Acetic Acid Amido Synthetase from Grapevine Involved in Auxin Homeostasis
      Thomas S. Peat, Christine Böttcher, Janet Newman, Del Lucent, Nathan Cowieson, Christopher Davies
      Plant Cell Nov 2012, 24 (11) 4525-4538; DOI: https://doi.org/10.1105/tpc.112.102921

      The crystal structure of an indole-3-acetic acid amido synthetase from Vitis vinifera involved in auxin homeostasis is presented. Residues likely to be involved in acyl group, amino acid, and ATP substrate binding have been identified, and this information provides a tool for designing new, effective auxins.

  13. Bovy, Arnaud G.

    1. The Tomato FRUITFULL Homologs TDR4/FUL1 and MBP7/FUL2 Regulate Ethylene-Independent Aspects of Fruit Ripening
      You have accessRestricted Access
      The Tomato FRUITFULL Homologs TDR4/FUL1 and MBP7/FUL2 Regulate Ethylene-Independent Aspects of Fruit Ripening
      Marian Bemer, Rumyana Karlova, Ana Rosa Ballester, Yury M. Tikunov, Arnaud G. Bovy, Mieke Wolters-Arts, Priscilla de Barros Rossetto, Gerco C. Angenent, Ruud A. de Maagd
      Plant Cell Nov 2012, 24 (11) 4437-4451; DOI: https://doi.org/10.1105/tpc.112.103283

      Ripening of the tomato fruit is accompanied by an increase in ethylene production and involves color changes, altered sugar metabolism, tissue softening, and the synthesis of aroma volatiles. This study shows that the MADS domain transcription factors FUL1 and FUL2 play a role in the regulation of these ripening processes, but in an ethylene-independent manner.

  14. Braam, Janet

    1. <em>XTH31,</em> Encoding an in Vitro XEH/XET-Active Enzyme, Regulates Aluminum Sensitivity by Modulating in Vivo XET Action, Cell Wall Xyloglucan Content, and Aluminum Binding Capacity in <em>Arabidopsis</em>
      You have accessRestricted Access
      XTH31, Encoding an in Vitro XEH/XET-Active Enzyme, Regulates Aluminum Sensitivity by Modulating in Vivo XET Action, Cell Wall Xyloglucan Content, and Aluminum Binding Capacity in Arabidopsis
      Xiao Fang Zhu, Yuan Zhi Shi, Gui Jie Lei, Stephen C. Fry, Bao Cai Zhang, Yi Hua Zhou, Janet Braam, Tao Jiang, Xiao Yan Xu, Chuan Zao Mao, Yuan Jiang Pan, Jian Li Yang, Ping Wu, Shao Jian Zheng
      Plant Cell Nov 2012, 24 (11) 4731-4747; DOI: https://doi.org/10.1105/tpc.112.106039

      Hemicellulose can retain a large amount of Al. This study demonstrates that an important component of hemicellulose, xyloglucan, can bind Al, and knockout of XTH31 increases Al resistance in Arabidopsis by decreasing xyloglucan endotransglucosylase action and the accumulation of xyloglucan in hemicellulose, which in turn reduces the retention of Al in the cell wall, thus excluding Al from roots.

  15. Bradbury, Louis M.T.

    1. The MORPH Algorithm: Ranking Candidate Genes for Membership in <em>Arabidopsis</em> and Tomato Pathways
      You have accessRestricted Access
      The MORPH Algorithm: Ranking Candidate Genes for Membership in Arabidopsis and Tomato Pathways
      Oren Tzfadia, David Amar, Louis M.T. Bradbury, Eleanore T. Wurtzel, Ron Shamir
      Plant Cell Nov 2012, 24 (11) 4389-4406; DOI: https://doi.org/10.1105/tpc.112.104513

      A fundamental challenge in plant biology is to discover the unknown connections within and between pathways and to associate previously unknown genes with specific biological processes. MORPH is a computational method for predicting genes that function in or regulate a biological pathway. MORPH fills pathway gaps and defines complex biological networks as shown for Arabidopsis and tomato.

  16. Briggs, Steven P.

    1. Identification of PAN2 by Quantitative Proteomics as a Leucine-Rich Repeat–Receptor-Like Kinase Acting Upstream of PAN1 to Polarize Cell Division in Maize
      Open Access
      Identification of PAN2 by Quantitative Proteomics as a Leucine-Rich Repeat–Receptor-Like Kinase Acting Upstream of PAN1 to Polarize Cell Division in Maize
      Xiaoguo Zhang, Michelle Facette, John A. Humphries, Zhouxin Shen, Yeri Park, Dena Sutimantanapi, Anne W. Sylvester, Steven P. Briggs, Laurie G. Smith
      Plant Cell Nov 2012, 24 (11) 4577-4589; DOI: https://doi.org/10.1105/tpc.112.104125

      PAN2 functions with PAN1, a Leu-rich repeat–receptor-like kinase (LRR-RLK) to polarize the divisions that form stomatal subsidiary cells in maize. Quantitative proteomics was used to identify PAN2 as a second LRR-RLK. PAN2 functions upstream of PAN1, potentially perceiving extracellular cues that initiate or amplify premitotic subsidiary mother cell polarity.

  17. Burgos, Junmarie Soto

    1. Degradation of the Endoplasmic Reticulum by Autophagy during Endoplasmic Reticulum Stress in <em>Arabidopsis</em>
      You have accessRestricted Access
      Degradation of the Endoplasmic Reticulum by Autophagy during Endoplasmic Reticulum Stress in Arabidopsis
      Yimo Liu, Junmarie Soto Burgos, Yan Deng, Renu Srivastava, Stephen H. Howell, Diane C. Bassham
      Plant Cell Nov 2012, 24 (11) 4635-4651; DOI: https://doi.org/10.1105/tpc.112.101535

      Upon accumulation of unfolded proteins in the endoplasmic reticulum (ER), cells activate an ER stress response to enable plants to tolerate these conditions. This work shows that one facet of this response is the activation of the autophagy pathway for degradation of ER fragments in the vacuole, which is regulated by the IRE1b splicing factor.

C

  1. Cai, Chao

    1. FIMBRIN1 Is Involved in Lily Pollen Tube Growth by Stabilizing the Actin Fringe
      Open Access
      FIMBRIN1 Is Involved in Lily Pollen Tube Growth by Stabilizing the Actin Fringe
      Hui Su, Jinsheng Zhu, Chao Cai, Weike Pei, Jiaojiao Wang, Huaijian Dong, Haiyun Ren
      Plant Cell Nov 2012, 24 (11) 4539-4554; DOI: https://doi.org/10.1105/tpc.112.099358

      Fimbrin family proteins have long been known as actin binding proteins that regulate the formation of higher-order actin filament structures. FIM1, a fimbrin homolog from Lilium longiflorum, is found to cross-link actin microfilaments into bundles in vitro and is demonstrated to play important roles in the maintenance of the actin fringe in pollen tubes.

  2. Cannon, Steven B.

    1. Genome-Wide Characterization of Nonreference Transposons Reveals Evolutionary Propensities of Transposons in Soybean
      You have accessRestricted Access
      Genome-Wide Characterization of Nonreference Transposons Reveals Evolutionary Propensities of Transposons in Soybean
      Zhixi Tian, Meixia Zhao, Maoyun She, Jianchang Du, Steven B. Cannon, Xin Liu, Xun Xu, Xinpeng Qi, Man-Wah Li, Hon-Ming Lam, Jianxin Ma
      Plant Cell Nov 2012, 24 (11) 4422-4436; DOI: https://doi.org/10.1105/tpc.112.103630

      The authors developed a strategy to identify putative transposon insertions that are present in a resequenced soybean population but absent in the soybean reference genome. Comparison of the distribution patterns of these elements and the patterns in the reference genome revealed evolutionary processes that reshaped the landscape of transposons after their integration in the host genome.

  3. Cao, Xiaofeng

    1. Identification and Characterization of an Epi-Allele of <em>FIE1</em> Reveals a Regulatory Linkage between Two Epigenetic Marks in Rice
      Open Access
      Identification and Characterization of an Epi-Allele of FIE1 Reveals a Regulatory Linkage between Two Epigenetic Marks in Rice
      Liguo Zhang, Zhijun Cheng, Ruizhen Qin, Yang Qiu, Jiu-Lin Wang, Xiekui Cui, Lianfeng Gu, Xin Zhang, Xiuping Guo, Dan Wang, Ling Jiang, Chuan-yin Wu, Haiyang Wang, Xiaofeng Cao, Jianmin Wan
      Plant Cell Nov 2012, 24 (11) 4407-4421; DOI: https://doi.org/10.1105/tpc.112.102269

      This work identifies an epi-allele of rice Fertilization Independent Endosperm1 (FIE1) with DNA hypomethylation, reduced H3 Lys 9 dimethylation, increased H3 Lys 4 trimethylation, ectopic FIE1 expression, and loss imprinting, plus altered H3 Lys 27 trimethylation and perturbed expression of hundreds of genes. This suggests a regulatory link among these epigenetic marks.

  4. Carlsson, Anders S.

    1. Metabolic Interactions between the Lands Cycle and the Kennedy Pathway of Glycerolipid Synthesis in <em>Arabidopsis</em> Developing Seeds
      You have accessRestricted Access
      Metabolic Interactions between the Lands Cycle and the Kennedy Pathway of Glycerolipid Synthesis in Arabidopsis Developing Seeds
      Liping Wang, Wenyun Shen, Michael Kazachkov, Guanqun Chen, Qilin Chen, Anders S. Carlsson, Sten Stymne, Randall J. Weselake, Jitao Zou
      Plant Cell Nov 2012, 24 (11) 4652-4669; DOI: https://doi.org/10.1105/tpc.112.104604

      The Kennedy pathway and the Lands cycle are two principal metabolic modules of glycerolipid metabolism. This work examines the crosstalk of these two pathways and shows that loss of Lands cycle activity leads to an enhanced de novo phosphatidylcholine PC synthesis through the Kennedy pathway and PC turnover in Arabidopsis developing seeds.

  5. Chandrasekar, Balakumaran

    1. Reevaluation of the Reliability and Usefulness of the Somatic Homologous Recombination Reporter Lines
      You have accessRestricted Access
      Reevaluation of the Reliability and Usefulness of the Somatic Homologous Recombination Reporter Lines
      Bekir Ülker, Carl Maximilian Hommelsheim, Tobias Berson, Stefan Thomas, Balakumaran Chandrasekar, Ahmet Can Olcay, Kenneth Wayne Berendzen, Lamprinos Frantzeskakis
      Plant Cell Nov 2012, 24 (11) 4314-4323; DOI: https://doi.org/10.1105/tpc.112.100404
  6. Chen, Guanqun

    1. Metabolic Interactions between the Lands Cycle and the Kennedy Pathway of Glycerolipid Synthesis in <em>Arabidopsis</em> Developing Seeds
      You have accessRestricted Access
      Metabolic Interactions between the Lands Cycle and the Kennedy Pathway of Glycerolipid Synthesis in Arabidopsis Developing Seeds
      Liping Wang, Wenyun Shen, Michael Kazachkov, Guanqun Chen, Qilin Chen, Anders S. Carlsson, Sten Stymne, Randall J. Weselake, Jitao Zou
      Plant Cell Nov 2012, 24 (11) 4652-4669; DOI: https://doi.org/10.1105/tpc.112.104604

      The Kennedy pathway and the Lands cycle are two principal metabolic modules of glycerolipid metabolism. This work examines the crosstalk of these two pathways and shows that loss of Lands cycle activity leads to an enhanced de novo phosphatidylcholine PC synthesis through the Kennedy pathway and PC turnover in Arabidopsis developing seeds.

  7. Chen, Haodong

    1. <em>Arabidopsis</em> FHY3 and HY5 Positively Mediate Induction of <em>COP1</em> Transcription in Response to Photomorphogenic UV-B Light
      Open Access
      Arabidopsis FHY3 and HY5 Positively Mediate Induction of COP1 Transcription in Response to Photomorphogenic UV-B Light
      Xi Huang, Xinhao Ouyang, Panyu Yang, On Sun Lau, Gang Li, Jigang Li, Haodong Chen, Xing Wang Deng
      Plant Cell Nov 2012, 24 (11) 4590-4606; DOI: https://doi.org/10.1105/tpc.112.103994

      In UV-B–induced photomorphogenesis in Arabidopsis, COP1 is a UV-B–inducible gene and FHY3 and HY5 directly activate COP1, dependent on UV-B, by binding to the COP1 promoter to ensure photomorphogenic UV-B signaling. The working mode of FHY3 and HY5 in UV-B–specific signaling is distinct from that in far-red light and circadian conditions.

  8. Chen, Qilin

    1. Metabolic Interactions between the Lands Cycle and the Kennedy Pathway of Glycerolipid Synthesis in <em>Arabidopsis</em> Developing Seeds
      You have accessRestricted Access
      Metabolic Interactions between the Lands Cycle and the Kennedy Pathway of Glycerolipid Synthesis in Arabidopsis Developing Seeds
      Liping Wang, Wenyun Shen, Michael Kazachkov, Guanqun Chen, Qilin Chen, Anders S. Carlsson, Sten Stymne, Randall J. Weselake, Jitao Zou
      Plant Cell Nov 2012, 24 (11) 4652-4669; DOI: https://doi.org/10.1105/tpc.112.104604

      The Kennedy pathway and the Lands cycle are two principal metabolic modules of glycerolipid metabolism. This work examines the crosstalk of these two pathways and shows that loss of Lands cycle activity leads to an enhanced de novo phosphatidylcholine PC synthesis through the Kennedy pathway and PC turnover in Arabidopsis developing seeds.

  9. Chen, Songbiao

    1. The <em>Magnaporthe oryzae</em> Effector AvrPiz-t Targets the RING E3 Ubiquitin Ligase APIP6 to Suppress Pathogen-Associated Molecular Pattern–Triggered Immunity in Rice
      Open Access
      The Magnaporthe oryzae Effector AvrPiz-t Targets the RING E3 Ubiquitin Ligase APIP6 to Suppress Pathogen-Associated Molecular Pattern–Triggered Immunity in Rice
      Chan-Ho Park, Songbiao Chen, Gautam Shirsekar, Bo Zhou, Chang Hyun Khang, Pattavipha Songkumarn, Ahmed J. Afzal, Yuese Ning, Ruyi Wang, Maria Bellizzi, Barbara Valent, Guo-Liang Wang
      Plant Cell Nov 2012, 24 (11) 4748-4762; DOI: https://doi.org/10.1105/tpc.112.105429

      This work shows that the Magnaporthe oryzae effector AvrPiz-t enters into rice cells to target the RING E3 ubiquitin ligase APIP6 for suppression of PAMP-triggered immunity in rice. It also describes that APIP6 degrades AvrPiz-t in planta and positively regulates basal defense to M. oryzae.

  10. Chen, Ying

    1. Regulatory Impact of RNA Secondary Structure across the <em>Arabidopsis</em> Transcriptome
      Open Access
      Regulatory Impact of RNA Secondary Structure across the Arabidopsis Transcriptome
      Fan Li, Qi Zheng, Lee E. Vandivier, Matthew R. Willmann, Ying Chen, Brian D. Gregory
      Plant Cell Nov 2012, 24 (11) 4346-4359; DOI: https://doi.org/10.1105/tpc.112.104232

      This study employs a high-throughput, sequencing-based, structure-mapping approach to investigate RNA secondary structure throughout the Arabidopsis transcriptome. By combining these structural insights with a number of other RNA sequencing–based approaches, it provides a global assessment of RNA folding and its significant regulatory effects in a plant transcriptome.

  11. Cheng, Jiye

    1. The Coronatine Toxin of <em>Pseudomonas syringae</em> Is a Multifunctional Suppressor of <em>Arabidopsis</em> Defense
      Open Access
      The Coronatine Toxin of Pseudomonas syringae Is a Multifunctional Suppressor of Arabidopsis Defense
      Xueqing Geng, Jiye Cheng, Anju Gangadharan, David Mackey
      Plant Cell Nov 2012, 24 (11) 4763-4774; DOI: https://doi.org/10.1105/tpc.112.105312

      The bacterial phytotoxin coronatine mimics a plant hormone, jasmonic acid, and thus antagonizes signaling by another plant hormone, salicylic acid, important for plant defense. This study demonstrates that coronatine also suppresses SA-independent host defense, including the production of defense-promoting indole glucosinolates and has a target other than the jasmonic acid receptor.

  12. Cheng, Zhijun

    1. Identification and Characterization of an Epi-Allele of <em>FIE1</em> Reveals a Regulatory Linkage between Two Epigenetic Marks in Rice
      Open Access
      Identification and Characterization of an Epi-Allele of FIE1 Reveals a Regulatory Linkage between Two Epigenetic Marks in Rice
      Liguo Zhang, Zhijun Cheng, Ruizhen Qin, Yang Qiu, Jiu-Lin Wang, Xiekui Cui, Lianfeng Gu, Xin Zhang, Xiuping Guo, Dan Wang, Ling Jiang, Chuan-yin Wu, Haiyang Wang, Xiaofeng Cao, Jianmin Wan
      Plant Cell Nov 2012, 24 (11) 4407-4421; DOI: https://doi.org/10.1105/tpc.112.102269

      This work identifies an epi-allele of rice Fertilization Independent Endosperm1 (FIE1) with DNA hypomethylation, reduced H3 Lys 9 dimethylation, increased H3 Lys 4 trimethylation, ectopic FIE1 expression, and loss imprinting, plus altered H3 Lys 27 trimethylation and perturbed expression of hundreds of genes. This suggests a regulatory link among these epigenetic marks.

  13. Chua, Nam-Hai

    1. Genome-Wide Analysis Uncovers Regulation of Long Intergenic Noncoding RNAs in <em>Arabidopsis</em>
      You have accessRestricted Access
      Genome-Wide Analysis Uncovers Regulation of Long Intergenic Noncoding RNAs in Arabidopsis
      Jun Liu, Choonkyun Jung, Jun Xu, Huan Wang, Shulin Deng, Lucia Bernad, Catalina Arenas-Huertero, Nam-Hai Chua
      Plant Cell Nov 2012, 24 (11) 4333-4345; DOI: https://doi.org/10.1105/tpc.112.102855

      This work identifies 6480 long intergenic noncoding RNAs in Arabidopsis, many of which show organ-specific and stress-responsive expression. The biogenesis of a group of long intergenic noncoding RNAs is coregulated by the RNA processing proteins SERRATE, CBP20, and CBP80.

  14. Coerper, Daniel

    1. The Novel Plant Protein INAPERTURATE POLLEN1 Marks Distinct Cellular Domains and Controls Formation of Apertures in the <em>Arabidopsis</em> Pollen Exine
      You have accessRestricted Access
      The Novel Plant Protein INAPERTURATE POLLEN1 Marks Distinct Cellular Domains and Controls Formation of Apertures in the Arabidopsis Pollen Exine
      Anna A. Dobritsa, Daniel Coerper
      Plant Cell Nov 2012, 24 (11) 4452-4464; DOI: https://doi.org/10.1105/tpc.112.101220

      Pollen grains are protected by beautiful and elaborate cell walls, exines. This work examines the formation of one distinct patterning element of pollen surfaces, apertures, or areas where exine is not deposited. It demonstrates that the formation of apertures depends on the novel plant protein INP1, which is directed to aperture areas and regulates aperture length in a dosage-dependent manner.

  15. Cosson, Viviane

    1. <em>NODULE ROOT</em> and <em>COCHLEATA</em> Maintain Nodule Development and Are Legume Orthologs of <em>Arabidopsis BLADE-ON-PETIOLE</em> Genes
      Open Access
      NODULE ROOT and COCHLEATA Maintain Nodule Development and Are Legume Orthologs of Arabidopsis BLADE-ON-PETIOLE Genes
      Jean-Malo Couzigou, Vladimir Zhukov, Samuel Mondy, Ghada Abu el Heba, Viviane Cosson, T.H. Noel Ellis, Mike Ambrose, Jiangqi Wen, Million Tadege, Igor Tikhonovich, Kirankumar S. Mysore, Joanna Putterill, Julie Hofer, Alexei Y. Borisov, Pascal Ratet
      Plant Cell Nov 2012, 24 (11) 4498-4510; DOI: https://doi.org/10.1105/tpc.112.103747

      Medicago truncatula NOOT and Pisum sativum COCH were found to maintain nodule identity during symbiotic interactions with rhizobia and were identified as orthologs of Arabidopsis BLADE-ON-PETIOLE genes, which are involved in leaf and flower development.

  16. Couzigou, Jean-Malo

    1. <em>NODULE ROOT</em> and <em>COCHLEATA</em> Maintain Nodule Development and Are Legume Orthologs of <em>Arabidopsis BLADE-ON-PETIOLE</em> Genes
      Open Access
      NODULE ROOT and COCHLEATA Maintain Nodule Development and Are Legume Orthologs of Arabidopsis BLADE-ON-PETIOLE Genes
      Jean-Malo Couzigou, Vladimir Zhukov, Samuel Mondy, Ghada Abu el Heba, Viviane Cosson, T.H. Noel Ellis, Mike Ambrose, Jiangqi Wen, Million Tadege, Igor Tikhonovich, Kirankumar S. Mysore, Joanna Putterill, Julie Hofer, Alexei Y. Borisov, Pascal Ratet
      Plant Cell Nov 2012, 24 (11) 4498-4510; DOI: https://doi.org/10.1105/tpc.112.103747

      Medicago truncatula NOOT and Pisum sativum COCH were found to maintain nodule identity during symbiotic interactions with rhizobia and were identified as orthologs of Arabidopsis BLADE-ON-PETIOLE genes, which are involved in leaf and flower development.

  17. Cowieson, Nathan

    1. Crystal Structure of an Indole-3-Acetic Acid Amido Synthetase from Grapevine Involved in Auxin Homeostasis
      You have accessRestricted Access
      Crystal Structure of an Indole-3-Acetic Acid Amido Synthetase from Grapevine Involved in Auxin Homeostasis
      Thomas S. Peat, Christine Böttcher, Janet Newman, Del Lucent, Nathan Cowieson, Christopher Davies
      Plant Cell Nov 2012, 24 (11) 4525-4538; DOI: https://doi.org/10.1105/tpc.112.102921

      The crystal structure of an indole-3-acetic acid amido synthetase from Vitis vinifera involved in auxin homeostasis is presented. Residues likely to be involved in acyl group, amino acid, and ATP substrate binding have been identified, and this information provides a tool for designing new, effective auxins.

  18. Crespo, José L.

    1. Cysteine-Generated Sulfide in the Cytosol Negatively Regulates Autophagy and Modulates the Transcriptional Profile in <em>Arabidopsis</em>
      You have accessRestricted Access
      Cysteine-Generated Sulfide in the Cytosol Negatively Regulates Autophagy and Modulates the Transcriptional Profile in Arabidopsis
      Consolación Álvarez, Irene García, Inmaculada Moreno, María Esther Pérez-Pérez, José L. Crespo, Luis C. Romero, Cecilia Gotor
      Plant Cell Nov 2012, 24 (11) 4621-4634; DOI: https://doi.org/10.1105/tpc.112.105403

      This article highlights the role of hydrogen sulfide as a relevant signaling molecule in plants, of comparable importance as described in animals. This study shows the regulatory role of sulfide generated by the cytosolic l-Cys desulfhydrase 1 enzyme on autophagy in eukaryotes.

  19. Cui, Xiekui

    1. Identification and Characterization of an Epi-Allele of <em>FIE1</em> Reveals a Regulatory Linkage between Two Epigenetic Marks in Rice
      Open Access
      Identification and Characterization of an Epi-Allele of FIE1 Reveals a Regulatory Linkage between Two Epigenetic Marks in Rice
      Liguo Zhang, Zhijun Cheng, Ruizhen Qin, Yang Qiu, Jiu-Lin Wang, Xiekui Cui, Lianfeng Gu, Xin Zhang, Xiuping Guo, Dan Wang, Ling Jiang, Chuan-yin Wu, Haiyang Wang, Xiaofeng Cao, Jianmin Wan
      Plant Cell Nov 2012, 24 (11) 4407-4421; DOI: https://doi.org/10.1105/tpc.112.102269

      This work identifies an epi-allele of rice Fertilization Independent Endosperm1 (FIE1) with DNA hypomethylation, reduced H3 Lys 9 dimethylation, increased H3 Lys 4 trimethylation, ectopic FIE1 expression, and loss imprinting, plus altered H3 Lys 27 trimethylation and perturbed expression of hundreds of genes. This suggests a regulatory link among these epigenetic marks.

D

  1. Davies, Christopher

    1. Crystal Structure of an Indole-3-Acetic Acid Amido Synthetase from Grapevine Involved in Auxin Homeostasis
      You have accessRestricted Access
      Crystal Structure of an Indole-3-Acetic Acid Amido Synthetase from Grapevine Involved in Auxin Homeostasis
      Thomas S. Peat, Christine Böttcher, Janet Newman, Del Lucent, Nathan Cowieson, Christopher Davies
      Plant Cell Nov 2012, 24 (11) 4525-4538; DOI: https://doi.org/10.1105/tpc.112.102921

      The crystal structure of an indole-3-acetic acid amido synthetase from Vitis vinifera involved in auxin homeostasis is presented. Residues likely to be involved in acyl group, amino acid, and ATP substrate binding have been identified, and this information provides a tool for designing new, effective auxins.

  2. De Jaeger, Geert

    1. Protein–Protein and Protein–Membrane Associations in the Lignin Pathway
      Open Access
      Protein–Protein and Protein–Membrane Associations in the Lignin Pathway
      Jean-Etienne Bassard, Ludovic Richert, Jan Geerinck, Hugues Renault, Frédéric Duval, Pascaline Ullmann, Martine Schmitt, Etienne Meyer, Jerôme Mutterer, Wout Boerjan, Geert De Jaeger, Yves Mely, Alain Goossens, Danièle Werck-Reichhart
      Plant Cell Nov 2012, 24 (11) 4465-4482; DOI: https://doi.org/10.1105/tpc.112.102566

      Analysis of the supramolecular organization of enzymes in the lignin pathway shows that cytochrome P450s oligomerize and move along with the very mobile plant endoplasmic reticulum. Their expression favors relocalization of their soluble partner proteins nearer the membrane and association of sequential enzymes in the pathway.

  3. de Maagd, Ruud A.

    1. The Tomato FRUITFULL Homologs TDR4/FUL1 and MBP7/FUL2 Regulate Ethylene-Independent Aspects of Fruit Ripening
      You have accessRestricted Access
      The Tomato FRUITFULL Homologs TDR4/FUL1 and MBP7/FUL2 Regulate Ethylene-Independent Aspects of Fruit Ripening
      Marian Bemer, Rumyana Karlova, Ana Rosa Ballester, Yury M. Tikunov, Arnaud G. Bovy, Mieke Wolters-Arts, Priscilla de Barros Rossetto, Gerco C. Angenent, Ruud A. de Maagd
      Plant Cell Nov 2012, 24 (11) 4437-4451; DOI: https://doi.org/10.1105/tpc.112.103283

      Ripening of the tomato fruit is accompanied by an increase in ethylene production and involves color changes, altered sugar metabolism, tissue softening, and the synthesis of aroma volatiles. This study shows that the MADS domain transcription factors FUL1 and FUL2 play a role in the regulation of these ripening processes, but in an ethylene-independent manner.

  4. Deng, Shulin

    1. Genome-Wide Analysis Uncovers Regulation of Long Intergenic Noncoding RNAs in <em>Arabidopsis</em>
      You have accessRestricted Access
      Genome-Wide Analysis Uncovers Regulation of Long Intergenic Noncoding RNAs in Arabidopsis
      Jun Liu, Choonkyun Jung, Jun Xu, Huan Wang, Shulin Deng, Lucia Bernad, Catalina Arenas-Huertero, Nam-Hai Chua
      Plant Cell Nov 2012, 24 (11) 4333-4345; DOI: https://doi.org/10.1105/tpc.112.102855

      This work identifies 6480 long intergenic noncoding RNAs in Arabidopsis, many of which show organ-specific and stress-responsive expression. The biogenesis of a group of long intergenic noncoding RNAs is coregulated by the RNA processing proteins SERRATE, CBP20, and CBP80.

  5. Deng, Xing Wang

    1. <em>Arabidopsis</em> FHY3 and HY5 Positively Mediate Induction of <em>COP1</em> Transcription in Response to Photomorphogenic UV-B Light
      Open Access
      Arabidopsis FHY3 and HY5 Positively Mediate Induction of COP1 Transcription in Response to Photomorphogenic UV-B Light
      Xi Huang, Xinhao Ouyang, Panyu Yang, On Sun Lau, Gang Li, Jigang Li, Haodong Chen, Xing Wang Deng
      Plant Cell Nov 2012, 24 (11) 4590-4606; DOI: https://doi.org/10.1105/tpc.112.103994

      In UV-B–induced photomorphogenesis in Arabidopsis, COP1 is a UV-B–inducible gene and FHY3 and HY5 directly activate COP1, dependent on UV-B, by binding to the COP1 promoter to ensure photomorphogenic UV-B signaling. The working mode of FHY3 and HY5 in UV-B–specific signaling is distinct from that in far-red light and circadian conditions.

  6. Deng, Yan

    1. Degradation of the Endoplasmic Reticulum by Autophagy during Endoplasmic Reticulum Stress in <em>Arabidopsis</em>
      You have accessRestricted Access
      Degradation of the Endoplasmic Reticulum by Autophagy during Endoplasmic Reticulum Stress in Arabidopsis
      Yimo Liu, Junmarie Soto Burgos, Yan Deng, Renu Srivastava, Stephen H. Howell, Diane C. Bassham
      Plant Cell Nov 2012, 24 (11) 4635-4651; DOI: https://doi.org/10.1105/tpc.112.101535

      Upon accumulation of unfolded proteins in the endoplasmic reticulum (ER), cells activate an ER stress response to enable plants to tolerate these conditions. This work shows that one facet of this response is the activation of the autophagy pathway for degradation of ER fragments in the vacuole, which is regulated by the IRE1b splicing factor.

  7. Dobritsa, Anna A.

    1. The Novel Plant Protein INAPERTURATE POLLEN1 Marks Distinct Cellular Domains and Controls Formation of Apertures in the <em>Arabidopsis</em> Pollen Exine
      You have accessRestricted Access
      The Novel Plant Protein INAPERTURATE POLLEN1 Marks Distinct Cellular Domains and Controls Formation of Apertures in the Arabidopsis Pollen Exine
      Anna A. Dobritsa, Daniel Coerper
      Plant Cell Nov 2012, 24 (11) 4452-4464; DOI: https://doi.org/10.1105/tpc.112.101220

      Pollen grains are protected by beautiful and elaborate cell walls, exines. This work examines the formation of one distinct patterning element of pollen surfaces, apertures, or areas where exine is not deposited. It demonstrates that the formation of apertures depends on the novel plant protein INP1, which is directed to aperture areas and regulates aperture length in a dosage-dependent manner.

  8. Dong, Huaijian

    1. FIMBRIN1 Is Involved in Lily Pollen Tube Growth by Stabilizing the Actin Fringe
      Open Access
      FIMBRIN1 Is Involved in Lily Pollen Tube Growth by Stabilizing the Actin Fringe
      Hui Su, Jinsheng Zhu, Chao Cai, Weike Pei, Jiaojiao Wang, Huaijian Dong, Haiyun Ren
      Plant Cell Nov 2012, 24 (11) 4539-4554; DOI: https://doi.org/10.1105/tpc.112.099358

      Fimbrin family proteins have long been known as actin binding proteins that regulate the formation of higher-order actin filament structures. FIM1, a fimbrin homolog from Lilium longiflorum, is found to cross-link actin microfilaments into bundles in vitro and is demonstrated to play important roles in the maintenance of the actin fringe in pollen tubes.

  9. Drechsel, Gabriele

    1. Polypyrimidine Tract Binding Protein Homologs from <em>Arabidopsis</em> Are Key Regulators of Alternative Splicing with Implications in Fundamental Developmental Processes
      You have accessRestricted Access
      Polypyrimidine Tract Binding Protein Homologs from Arabidopsis Are Key Regulators of Alternative Splicing with Implications in Fundamental Developmental Processes
      Christina Rühl, Eva Stauffer, André Kahles, Gabriele Wagner, Gabriele Drechsel, Gunnar Rätsch, Andreas Wachter
      Plant Cell Nov 2012, 24 (11) 4360-4375; DOI: https://doi.org/10.1105/tpc.112.103622

      Alternative precursor mRNA splicing massively expands the transcriptome diversity in higher eukaryotes. In this report, we describe Arabidopsis Polypyrimidine tract binding protein homologs as critical components of the plant splicing code and provide links between regulated alternative splicing events and seed germination as well as flowering time control.

  10. Du, Jianchang

    1. Genome-Wide Characterization of Nonreference Transposons Reveals Evolutionary Propensities of Transposons in Soybean
      You have accessRestricted Access
      Genome-Wide Characterization of Nonreference Transposons Reveals Evolutionary Propensities of Transposons in Soybean
      Zhixi Tian, Meixia Zhao, Maoyun She, Jianchang Du, Steven B. Cannon, Xin Liu, Xun Xu, Xinpeng Qi, Man-Wah Li, Hon-Ming Lam, Jianxin Ma
      Plant Cell Nov 2012, 24 (11) 4422-4436; DOI: https://doi.org/10.1105/tpc.112.103630

      The authors developed a strategy to identify putative transposon insertions that are present in a resequenced soybean population but absent in the soybean reference genome. Comparison of the distribution patterns of these elements and the patterns in the reference genome revealed evolutionary processes that reshaped the landscape of transposons after their integration in the host genome.

  11. Duval, Frédéric

    1. Protein–Protein and Protein–Membrane Associations in the Lignin Pathway
      Open Access
      Protein–Protein and Protein–Membrane Associations in the Lignin Pathway
      Jean-Etienne Bassard, Ludovic Richert, Jan Geerinck, Hugues Renault, Frédéric Duval, Pascaline Ullmann, Martine Schmitt, Etienne Meyer, Jerôme Mutterer, Wout Boerjan, Geert De Jaeger, Yves Mely, Alain Goossens, Danièle Werck-Reichhart
      Plant Cell Nov 2012, 24 (11) 4465-4482; DOI: https://doi.org/10.1105/tpc.112.102566

      Analysis of the supramolecular organization of enzymes in the lignin pathway shows that cytochrome P450s oligomerize and move along with the very mobile plant endoplasmic reticulum. Their expression favors relocalization of their soluble partner proteins nearer the membrane and association of sequential enzymes in the pathway.

E

  1. Ellis, T.H. Noel

    1. <em>NODULE ROOT</em> and <em>COCHLEATA</em> Maintain Nodule Development and Are Legume Orthologs of <em>Arabidopsis BLADE-ON-PETIOLE</em> Genes
      Open Access
      NODULE ROOT and COCHLEATA Maintain Nodule Development and Are Legume Orthologs of Arabidopsis BLADE-ON-PETIOLE Genes
      Jean-Malo Couzigou, Vladimir Zhukov, Samuel Mondy, Ghada Abu el Heba, Viviane Cosson, T.H. Noel Ellis, Mike Ambrose, Jiangqi Wen, Million Tadege, Igor Tikhonovich, Kirankumar S. Mysore, Joanna Putterill, Julie Hofer, Alexei Y. Borisov, Pascal Ratet
      Plant Cell Nov 2012, 24 (11) 4498-4510; DOI: https://doi.org/10.1105/tpc.112.103747

      Medicago truncatula NOOT and Pisum sativum COCH were found to maintain nodule identity during symbiotic interactions with rhizobia and were identified as orthologs of Arabidopsis BLADE-ON-PETIOLE genes, which are involved in leaf and flower development.

F

  1. Facette, Michelle

    1. Identification of PAN2 by Quantitative Proteomics as a Leucine-Rich Repeat–Receptor-Like Kinase Acting Upstream of PAN1 to Polarize Cell Division in Maize
      Open Access
      Identification of PAN2 by Quantitative Proteomics as a Leucine-Rich Repeat–Receptor-Like Kinase Acting Upstream of PAN1 to Polarize Cell Division in Maize
      Xiaoguo Zhang, Michelle Facette, John A. Humphries, Zhouxin Shen, Yeri Park, Dena Sutimantanapi, Anne W. Sylvester, Steven P. Briggs, Laurie G. Smith
      Plant Cell Nov 2012, 24 (11) 4577-4589; DOI: https://doi.org/10.1105/tpc.112.104125

      PAN2 functions with PAN1, a Leu-rich repeat–receptor-like kinase (LRR-RLK) to polarize the divisions that form stomatal subsidiary cells in maize. Quantitative proteomics was used to identify PAN2 as a second LRR-RLK. PAN2 functions upstream of PAN1, potentially perceiving extracellular cues that initiate or amplify premitotic subsidiary mother cell polarity.

  2. Farquharson, Kathleen L.

    1. Polarization of Subsidiary Cell Division in Maize Stomatal Complexes
      You have accessRestricted Access
      Polarization of Subsidiary Cell Division in Maize Stomatal Complexes
      Kathleen L. Farquharson
      Plant Cell Nov 2012, 24 (11) 4313; DOI: https://doi.org/10.1105/tpc.112.241112
  3. Fedewa, Marie

    1. A Galactoglycerolipid Lipase Is Required for Triacylglycerol Accumulation and Survival Following Nitrogen Deprivation in <em>Chlamydomonas reinhardtii</em>
      You have accessRestricted Access
      A Galactoglycerolipid Lipase Is Required for Triacylglycerol Accumulation and Survival Following Nitrogen Deprivation in Chlamydomonas reinhardtii
      Xiaobo Li, Eric R. Moellering, Bensheng Liu, Cassandra Johnny, Marie Fedewa, Barbara B. Sears, Min-Hao Kuo, Christoph Benning
      Plant Cell Nov 2012, 24 (11) 4670-4686; DOI: https://doi.org/10.1105/tpc.112.105106

      A mutant of Chlamydomonas reinhardtii with impaired oil accumulation is shown to be deficient in a lipase with specificity for newly assembled monogalactolipids. Passage of fatty acids synthesized in the chloroplast through a transient chloroplast membrane lipid pool into triacylglycerols is proposed. A role of oil biosynthesis for survival following nutrient deprivation is demonstrated.

  4. Frantzeskakis, Lamprinos

    1. Reevaluation of the Reliability and Usefulness of the Somatic Homologous Recombination Reporter Lines
      You have accessRestricted Access
      Reevaluation of the Reliability and Usefulness of the Somatic Homologous Recombination Reporter Lines
      Bekir Ülker, Carl Maximilian Hommelsheim, Tobias Berson, Stefan Thomas, Balakumaran Chandrasekar, Ahmet Can Olcay, Kenneth Wayne Berendzen, Lamprinos Frantzeskakis
      Plant Cell Nov 2012, 24 (11) 4314-4323; DOI: https://doi.org/10.1105/tpc.112.100404
  5. Fry, Stephen C.

    1. <em>XTH31,</em> Encoding an in Vitro XEH/XET-Active Enzyme, Regulates Aluminum Sensitivity by Modulating in Vivo XET Action, Cell Wall Xyloglucan Content, and Aluminum Binding Capacity in <em>Arabidopsis</em>
      You have accessRestricted Access
      XTH31, Encoding an in Vitro XEH/XET-Active Enzyme, Regulates Aluminum Sensitivity by Modulating in Vivo XET Action, Cell Wall Xyloglucan Content, and Aluminum Binding Capacity in Arabidopsis
      Xiao Fang Zhu, Yuan Zhi Shi, Gui Jie Lei, Stephen C. Fry, Bao Cai Zhang, Yi Hua Zhou, Janet Braam, Tao Jiang, Xiao Yan Xu, Chuan Zao Mao, Yuan Jiang Pan, Jian Li Yang, Ping Wu, Shao Jian Zheng
      Plant Cell Nov 2012, 24 (11) 4731-4747; DOI: https://doi.org/10.1105/tpc.112.106039

      Hemicellulose can retain a large amount of Al. This study demonstrates that an important component of hemicellulose, xyloglucan, can bind Al, and knockout of XTH31 increases Al resistance in Arabidopsis by decreasing xyloglucan endotransglucosylase action and the accumulation of xyloglucan in hemicellulose, which in turn reduces the retention of Al in the cell wall, thus excluding Al from roots.

  6. Fujiwara, Sumire

    1. A Triantagonistic Basic Helix-Loop-Helix System Regulates Cell Elongation in <em>Arabidopsis</em>
      Open Access
      A Triantagonistic Basic Helix-Loop-Helix System Regulates Cell Elongation in Arabidopsis
      Miho Ikeda, Sumire Fujiwara, Nobutaka Mitsuda, Masaru Ohme-Takagi
      Plant Cell Nov 2012, 24 (11) 4483-4497; DOI: https://doi.org/10.1105/tpc.112.105023

      This work identifies three basic helix-loop-helix (bHLH) transcription factors that competitively regulate cell elongation. In this tri-antagonistic system, a negative regulatory bHLH interacts with and interferes with the function of an activator bHLH that activates genes for cell elongation. A third bHLH inactivates the negative bHLH; this double negative regulation activates cell elongation.

G

  1. Gaffney, Bobby

    1. Genome-Wide Control of Polyadenylation Site Choice by CPSF30 in <em>Arabidopsis</em>
      Open Access
      Genome-Wide Control of Polyadenylation Site Choice by CPSF30 in Arabidopsis
      Patrick E. Thomas, Xiaohui Wu, Man Liu, Bobby Gaffney, Guoli Ji, Qingshun Q. Li, Arthur G. Hunt
      Plant Cell Nov 2012, 24 (11) 4376-4388; DOI: https://doi.org/10.1105/tpc.112.096107

      This work shows that poly(A) site choice is affected in 45% or more of all genes in an Arabidopsis thaliana mutant that lacks a core polyadenylation factor subunit and that a novel poly(A) signal exists that can function in the absence of the affected protein. These results provide new insight into mechanisms of alternative polyadenylation in plants.

  2. Gangadharan, Anju

    1. The Coronatine Toxin of <em>Pseudomonas syringae</em> Is a Multifunctional Suppressor of <em>Arabidopsis</em> Defense
      Open Access
      The Coronatine Toxin of Pseudomonas syringae Is a Multifunctional Suppressor of Arabidopsis Defense
      Xueqing Geng, Jiye Cheng, Anju Gangadharan, David Mackey
      Plant Cell Nov 2012, 24 (11) 4763-4774; DOI: https://doi.org/10.1105/tpc.112.105312

      The bacterial phytotoxin coronatine mimics a plant hormone, jasmonic acid, and thus antagonizes signaling by another plant hormone, salicylic acid, important for plant defense. This study demonstrates that coronatine also suppresses SA-independent host defense, including the production of defense-promoting indole glucosinolates and has a target other than the jasmonic acid receptor.

  3. García, Irene

    1. Cysteine-Generated Sulfide in the Cytosol Negatively Regulates Autophagy and Modulates the Transcriptional Profile in <em>Arabidopsis</em>
      You have accessRestricted Access
      Cysteine-Generated Sulfide in the Cytosol Negatively Regulates Autophagy and Modulates the Transcriptional Profile in Arabidopsis
      Consolación Álvarez, Irene García, Inmaculada Moreno, María Esther Pérez-Pérez, José L. Crespo, Luis C. Romero, Cecilia Gotor
      Plant Cell Nov 2012, 24 (11) 4621-4634; DOI: https://doi.org/10.1105/tpc.112.105403

      This article highlights the role of hydrogen sulfide as a relevant signaling molecule in plants, of comparable importance as described in animals. This study shows the regulatory role of sulfide generated by the cytosolic l-Cys desulfhydrase 1 enzyme on autophagy in eukaryotes.

  4. Geerinck, Jan

    1. Protein–Protein and Protein–Membrane Associations in the Lignin Pathway
      Open Access
      Protein–Protein and Protein–Membrane Associations in the Lignin Pathway
      Jean-Etienne Bassard, Ludovic Richert, Jan Geerinck, Hugues Renault, Frédéric Duval, Pascaline Ullmann, Martine Schmitt, Etienne Meyer, Jerôme Mutterer, Wout Boerjan, Geert De Jaeger, Yves Mely, Alain Goossens, Danièle Werck-Reichhart
      Plant Cell Nov 2012, 24 (11) 4465-4482; DOI: https://doi.org/10.1105/tpc.112.102566

      Analysis of the supramolecular organization of enzymes in the lignin pathway shows that cytochrome P450s oligomerize and move along with the very mobile plant endoplasmic reticulum. Their expression favors relocalization of their soluble partner proteins nearer the membrane and association of sequential enzymes in the pathway.

  5. Geng, Xueqing

    1. The Coronatine Toxin of <em>Pseudomonas syringae</em> Is a Multifunctional Suppressor of <em>Arabidopsis</em> Defense
      Open Access
      The Coronatine Toxin of Pseudomonas syringae Is a Multifunctional Suppressor of Arabidopsis Defense
      Xueqing Geng, Jiye Cheng, Anju Gangadharan, David Mackey
      Plant Cell Nov 2012, 24 (11) 4763-4774; DOI: https://doi.org/10.1105/tpc.112.105312

      The bacterial phytotoxin coronatine mimics a plant hormone, jasmonic acid, and thus antagonizes signaling by another plant hormone, salicylic acid, important for plant defense. This study demonstrates that coronatine also suppresses SA-independent host defense, including the production of defense-promoting indole glucosinolates and has a target other than the jasmonic acid receptor.

  6. Goossens, Alain

    1. Protein–Protein and Protein–Membrane Associations in the Lignin Pathway
      Open Access
      Protein–Protein and Protein–Membrane Associations in the Lignin Pathway
      Jean-Etienne Bassard, Ludovic Richert, Jan Geerinck, Hugues Renault, Frédéric Duval, Pascaline Ullmann, Martine Schmitt, Etienne Meyer, Jerôme Mutterer, Wout Boerjan, Geert De Jaeger, Yves Mely, Alain Goossens, Danièle Werck-Reichhart
      Plant Cell Nov 2012, 24 (11) 4465-4482; DOI: https://doi.org/10.1105/tpc.112.102566

      Analysis of the supramolecular organization of enzymes in the lignin pathway shows that cytochrome P450s oligomerize and move along with the very mobile plant endoplasmic reticulum. Their expression favors relocalization of their soluble partner proteins nearer the membrane and association of sequential enzymes in the pathway.

  7. Goring, Daphne R.

    1. The <em>ARC1</em> E3 Ligase Gene Is Frequently Deleted in Self-Compatible Brassicaceae Species and Has a Conserved Role in <em>Arabidopsis lyrata</em> Self-Pollen Rejection
      You have accessRestricted Access
      The ARC1 E3 Ligase Gene Is Frequently Deleted in Self-Compatible Brassicaceae Species and Has a Conserved Role in Arabidopsis lyrata Self-Pollen Rejection
      Emily Indriolo, Pirashaanthy Tharmapalan, Stephen I. Wright, Daphne R. Goring
      Plant Cell Nov 2012, 24 (11) 4607-4620; DOI: https://doi.org/10.1105/tpc.112.104943

      The ARC1 E3 ubiquitin ligase was previously shown to be required for self-pollen rejection in Brassica, and this report shows that its function is conserved in other Brassicaceae species. ARC1 was found to be required for self-pollen rejection in Arabidopsis lyrata and was frequently deleted in genomes of Brassicaceae species that had lost this self-incompatibility trait.

  8. Gotor, Cecilia

    1. Cysteine-Generated Sulfide in the Cytosol Negatively Regulates Autophagy and Modulates the Transcriptional Profile in <em>Arabidopsis</em>
      You have accessRestricted Access
      Cysteine-Generated Sulfide in the Cytosol Negatively Regulates Autophagy and Modulates the Transcriptional Profile in Arabidopsis
      Consolación Álvarez, Irene García, Inmaculada Moreno, María Esther Pérez-Pérez, José L. Crespo, Luis C. Romero, Cecilia Gotor
      Plant Cell Nov 2012, 24 (11) 4621-4634; DOI: https://doi.org/10.1105/tpc.112.105403

      This article highlights the role of hydrogen sulfide as a relevant signaling molecule in plants, of comparable importance as described in animals. This study shows the regulatory role of sulfide generated by the cytosolic l-Cys desulfhydrase 1 enzyme on autophagy in eukaryotes.

  9. Gregory, Brian D.

    1. Regulatory Impact of RNA Secondary Structure across the <em>Arabidopsis</em> Transcriptome
      Open Access
      Regulatory Impact of RNA Secondary Structure across the Arabidopsis Transcriptome
      Fan Li, Qi Zheng, Lee E. Vandivier, Matthew R. Willmann, Ying Chen, Brian D. Gregory
      Plant Cell Nov 2012, 24 (11) 4346-4359; DOI: https://doi.org/10.1105/tpc.112.104232

      This study employs a high-throughput, sequencing-based, structure-mapping approach to investigate RNA secondary structure throughout the Arabidopsis transcriptome. By combining these structural insights with a number of other RNA sequencing–based approaches, it provides a global assessment of RNA folding and its significant regulatory effects in a plant transcriptome.

  10. Greiner, Andre

    1. Phototropin Influence on Eyespot Development and Regulation of Phototactic Behavior in <em>Chlamydomonas reinhardtii</em>
      You have accessRestricted Access
      Phototropin Influence on Eyespot Development and Regulation of Phototactic Behavior in Chlamydomonas reinhardtii
      Jessica Trippens, Andre Greiner, Jana Schellwat, Martin Neukam, Theresa Rottmann, Yinghong Lu, Suneel Kateriya, Peter Hegemann, Georg Kreimer
      Plant Cell Nov 2012, 24 (11) 4687-4702; DOI: https://doi.org/10.1105/tpc.112.103523

      This study shows that an eyespot is a dynamic organelle and that the blue light photoreceptor phototropin is involved in the regulation of eyespot size and level of channelrhodopsin 1, which is the primary photoreceptor for photo-movement responses. This work also describes that, in addition to the C-terminal kinase domain, the N-terminal photoreceptor domains have independent signaling functions.

  11. Gu, Lianfeng

    1. Identification and Characterization of an Epi-Allele of <em>FIE1</em> Reveals a Regulatory Linkage between Two Epigenetic Marks in Rice
      Open Access
      Identification and Characterization of an Epi-Allele of FIE1 Reveals a Regulatory Linkage between Two Epigenetic Marks in Rice
      Liguo Zhang, Zhijun Cheng, Ruizhen Qin, Yang Qiu, Jiu-Lin Wang, Xiekui Cui, Lianfeng Gu, Xin Zhang, Xiuping Guo, Dan Wang, Ling Jiang, Chuan-yin Wu, Haiyang Wang, Xiaofeng Cao, Jianmin Wan
      Plant Cell Nov 2012, 24 (11) 4407-4421; DOI: https://doi.org/10.1105/tpc.112.102269

      This work identifies an epi-allele of rice Fertilization Independent Endosperm1 (FIE1) with DNA hypomethylation, reduced H3 Lys 9 dimethylation, increased H3 Lys 4 trimethylation, ectopic FIE1 expression, and loss imprinting, plus altered H3 Lys 27 trimethylation and perturbed expression of hundreds of genes. This suggests a regulatory link among these epigenetic marks.

  12. Gu, Yangnan

    1. The KEEP ON GOING Protein of <em>Arabidopsis</em> Regulates Intracellular Protein Trafficking and Is Degraded during Fungal Infection
      Open Access
      The KEEP ON GOING Protein of Arabidopsis Regulates Intracellular Protein Trafficking and Is Degraded during Fungal Infection
      Yangnan Gu, Roger W. Innes
      Plant Cell Nov 2012, 24 (11) 4717-4730; DOI: https://doi.org/10.1105/tpc.112.105254

      The targeting of proteins to specific locations within a cell is a dynamic process that requires sophisticated sorting mechanisms. This work shows that Arabidopsis KEEP ON GOING plays a central role in regulating movement of proteins from the plasma membrane to the central vacuole and in the secretion of defense proteins to the extracellular space.

  13. Guo, Xiuping

    1. Identification and Characterization of an Epi-Allele of <em>FIE1</em> Reveals a Regulatory Linkage between Two Epigenetic Marks in Rice
      Open Access
      Identification and Characterization of an Epi-Allele of FIE1 Reveals a Regulatory Linkage between Two Epigenetic Marks in Rice
      Liguo Zhang, Zhijun Cheng, Ruizhen Qin, Yang Qiu, Jiu-Lin Wang, Xiekui Cui, Lianfeng Gu, Xin Zhang, Xiuping Guo, Dan Wang, Ling Jiang, Chuan-yin Wu, Haiyang Wang, Xiaofeng Cao, Jianmin Wan
      Plant Cell Nov 2012, 24 (11) 4407-4421; DOI: https://doi.org/10.1105/tpc.112.102269

      This work identifies an epi-allele of rice Fertilization Independent Endosperm1 (FIE1) with DNA hypomethylation, reduced H3 Lys 9 dimethylation, increased H3 Lys 4 trimethylation, ectopic FIE1 expression, and loss imprinting, plus altered H3 Lys 27 trimethylation and perturbed expression of hundreds of genes. This suggests a regulatory link among these epigenetic marks.

H

  1. Hegemann, Peter

    1. Phototropin Influence on Eyespot Development and Regulation of Phototactic Behavior in <em>Chlamydomonas reinhardtii</em>
      You have accessRestricted Access
      Phototropin Influence on Eyespot Development and Regulation of Phototactic Behavior in Chlamydomonas reinhardtii
      Jessica Trippens, Andre Greiner, Jana Schellwat, Martin Neukam, Theresa Rottmann, Yinghong Lu, Suneel Kateriya, Peter Hegemann, Georg Kreimer
      Plant Cell Nov 2012, 24 (11) 4687-4702; DOI: https://doi.org/10.1105/tpc.112.103523

      This study shows that an eyespot is a dynamic organelle and that the blue light photoreceptor phototropin is involved in the regulation of eyespot size and level of channelrhodopsin 1, which is the primary photoreceptor for photo-movement responses. This work also describes that, in addition to the C-terminal kinase domain, the N-terminal photoreceptor domains have independent signaling functions.

  2. Hofer, Julie

    1. <em>NODULE ROOT</em> and <em>COCHLEATA</em> Maintain Nodule Development and Are Legume Orthologs of <em>Arabidopsis BLADE-ON-PETIOLE</em> Genes
      Open Access
      NODULE ROOT and COCHLEATA Maintain Nodule Development and Are Legume Orthologs of Arabidopsis BLADE-ON-PETIOLE Genes
      Jean-Malo Couzigou, Vladimir Zhukov, Samuel Mondy, Ghada Abu el Heba, Viviane Cosson, T.H. Noel Ellis, Mike Ambrose, Jiangqi Wen, Million Tadege, Igor Tikhonovich, Kirankumar S. Mysore, Joanna Putterill, Julie Hofer, Alexei Y. Borisov, Pascal Ratet
      Plant Cell Nov 2012, 24 (11) 4498-4510; DOI: https://doi.org/10.1105/tpc.112.103747

      Medicago truncatula NOOT and Pisum sativum COCH were found to maintain nodule identity during symbiotic interactions with rhizobia and were identified as orthologs of Arabidopsis BLADE-ON-PETIOLE genes, which are involved in leaf and flower development.

  3. Hofmann, Nancy R.

    1. Ubiquitination and Exocytosis in Plant Immunity
      You have accessRestricted Access
      Ubiquitination and Exocytosis in Plant Immunity
      Nancy R. Hofmann
      Plant Cell Nov 2012, 24 (11) 4312; DOI: https://doi.org/10.1105/tpc.112.241111
  4. Hohn, Barbara

    1. In Planta Somatic Homologous Recombination Assay Revisited: A Successful and Versatile, but Delicate Tool
      You have accessRestricted Access
      In Planta Somatic Homologous Recombination Assay Revisited: A Successful and Versatile, but Delicate Tool
      Holger Puchta, Barbara Hohn
      Plant Cell Nov 2012, 24 (11) 4324-4331; DOI: https://doi.org/10.1105/tpc.112.101824
  5. Hommelsheim, Carl Maximilian

    1. Reevaluation of the Reliability and Usefulness of the Somatic Homologous Recombination Reporter Lines
      You have accessRestricted Access
      Reevaluation of the Reliability and Usefulness of the Somatic Homologous Recombination Reporter Lines
      Bekir Ülker, Carl Maximilian Hommelsheim, Tobias Berson, Stefan Thomas, Balakumaran Chandrasekar, Ahmet Can Olcay, Kenneth Wayne Berendzen, Lamprinos Frantzeskakis
      Plant Cell Nov 2012, 24 (11) 4314-4323; DOI: https://doi.org/10.1105/tpc.112.100404
  6. Howell, Stephen H.

    1. Degradation of the Endoplasmic Reticulum by Autophagy during Endoplasmic Reticulum Stress in <em>Arabidopsis</em>
      You have accessRestricted Access
      Degradation of the Endoplasmic Reticulum by Autophagy during Endoplasmic Reticulum Stress in Arabidopsis
      Yimo Liu, Junmarie Soto Burgos, Yan Deng, Renu Srivastava, Stephen H. Howell, Diane C. Bassham
      Plant Cell Nov 2012, 24 (11) 4635-4651; DOI: https://doi.org/10.1105/tpc.112.101535

      Upon accumulation of unfolded proteins in the endoplasmic reticulum (ER), cells activate an ER stress response to enable plants to tolerate these conditions. This work shows that one facet of this response is the activation of the autophagy pathway for degradation of ER fragments in the vacuole, which is regulated by the IRE1b splicing factor.

  7. Huang, Xi

    1. <em>Arabidopsis</em> FHY3 and HY5 Positively Mediate Induction of <em>COP1</em> Transcription in Response to Photomorphogenic UV-B Light
      Open Access
      Arabidopsis FHY3 and HY5 Positively Mediate Induction of COP1 Transcription in Response to Photomorphogenic UV-B Light
      Xi Huang, Xinhao Ouyang, Panyu Yang, On Sun Lau, Gang Li, Jigang Li, Haodong Chen, Xing Wang Deng
      Plant Cell Nov 2012, 24 (11) 4590-4606; DOI: https://doi.org/10.1105/tpc.112.103994

      In UV-B–induced photomorphogenesis in Arabidopsis, COP1 is a UV-B–inducible gene and FHY3 and HY5 directly activate COP1, dependent on UV-B, by binding to the COP1 promoter to ensure photomorphogenic UV-B signaling. The working mode of FHY3 and HY5 in UV-B–specific signaling is distinct from that in far-red light and circadian conditions.

  8. Humphries, John A.

    1. Identification of PAN2 by Quantitative Proteomics as a Leucine-Rich Repeat–Receptor-Like Kinase Acting Upstream of PAN1 to Polarize Cell Division in Maize
      Open Access
      Identification of PAN2 by Quantitative Proteomics as a Leucine-Rich Repeat–Receptor-Like Kinase Acting Upstream of PAN1 to Polarize Cell Division in Maize
      Xiaoguo Zhang, Michelle Facette, John A. Humphries, Zhouxin Shen, Yeri Park, Dena Sutimantanapi, Anne W. Sylvester, Steven P. Briggs, Laurie G. Smith
      Plant Cell Nov 2012, 24 (11) 4577-4589; DOI: https://doi.org/10.1105/tpc.112.104125

      PAN2 functions with PAN1, a Leu-rich repeat–receptor-like kinase (LRR-RLK) to polarize the divisions that form stomatal subsidiary cells in maize. Quantitative proteomics was used to identify PAN2 as a second LRR-RLK. PAN2 functions upstream of PAN1, potentially perceiving extracellular cues that initiate or amplify premitotic subsidiary mother cell polarity.

  9. Hunt, Arthur G.

    1. Genome-Wide Control of Polyadenylation Site Choice by CPSF30 in <em>Arabidopsis</em>
      Open Access
      Genome-Wide Control of Polyadenylation Site Choice by CPSF30 in Arabidopsis
      Patrick E. Thomas, Xiaohui Wu, Man Liu, Bobby Gaffney, Guoli Ji, Qingshun Q. Li, Arthur G. Hunt
      Plant Cell Nov 2012, 24 (11) 4376-4388; DOI: https://doi.org/10.1105/tpc.112.096107

      This work shows that poly(A) site choice is affected in 45% or more of all genes in an Arabidopsis thaliana mutant that lacks a core polyadenylation factor subunit and that a novel poly(A) signal exists that can function in the absence of the affected protein. These results provide new insight into mechanisms of alternative polyadenylation in plants.

I

  1. Ichimura, Kazuya

    1. The Ubiquitin Ligase PUB22 Targets a Subunit of the Exocyst Complex Required for PAMP-Triggered Responses in <em>Arabidopsis</em>
      You have accessRestricted Access
      The Ubiquitin Ligase PUB22 Targets a Subunit of the Exocyst Complex Required for PAMP-Triggered Responses in Arabidopsis
      Martin Stegmann, Ryan G. Anderson, Kazuya Ichimura, Tamara Pecenkova, Patrick Reuter, Viktor Žárský, John M. McDowell, Ken Shirasu, Marco Trujillo
      Plant Cell Nov 2012, 24 (11) 4703-4716; DOI: https://doi.org/10.1105/tpc.112.104463

      Exo70B2, a subunit of the exocyst complex, which is involved in exocytosis, is targeted for degradation by the ubiquitin ligase PUB22 upon activation of the immune system. This work also reveals that Exo70B2 is required for the activation of PAMP-triggered responses.

  2. Ikeda, Miho

    1. A Triantagonistic Basic Helix-Loop-Helix System Regulates Cell Elongation in <em>Arabidopsis</em>
      Open Access
      A Triantagonistic Basic Helix-Loop-Helix System Regulates Cell Elongation in Arabidopsis
      Miho Ikeda, Sumire Fujiwara, Nobutaka Mitsuda, Masaru Ohme-Takagi
      Plant Cell Nov 2012, 24 (11) 4483-4497; DOI: https://doi.org/10.1105/tpc.112.105023

      This work identifies three basic helix-loop-helix (bHLH) transcription factors that competitively regulate cell elongation. In this tri-antagonistic system, a negative regulatory bHLH interacts with and interferes with the function of an activator bHLH that activates genes for cell elongation. A third bHLH inactivates the negative bHLH; this double negative regulation activates cell elongation.

  3. Indriolo, Emily

    1. The <em>ARC1</em> E3 Ligase Gene Is Frequently Deleted in Self-Compatible Brassicaceae Species and Has a Conserved Role in <em>Arabidopsis lyrata</em> Self-Pollen Rejection
      You have accessRestricted Access
      The ARC1 E3 Ligase Gene Is Frequently Deleted in Self-Compatible Brassicaceae Species and Has a Conserved Role in Arabidopsis lyrata Self-Pollen Rejection
      Emily Indriolo, Pirashaanthy Tharmapalan, Stephen I. Wright, Daphne R. Goring
      Plant Cell Nov 2012, 24 (11) 4607-4620; DOI: https://doi.org/10.1105/tpc.112.104943

      The ARC1 E3 ubiquitin ligase was previously shown to be required for self-pollen rejection in Brassica, and this report shows that its function is conserved in other Brassicaceae species. ARC1 was found to be required for self-pollen rejection in Arabidopsis lyrata and was frequently deleted in genomes of Brassicaceae species that had lost this self-incompatibility trait.

  4. Innes, Roger W.

    1. The KEEP ON GOING Protein of <em>Arabidopsis</em> Regulates Intracellular Protein Trafficking and Is Degraded during Fungal Infection
      Open Access
      The KEEP ON GOING Protein of Arabidopsis Regulates Intracellular Protein Trafficking and Is Degraded during Fungal Infection
      Yangnan Gu, Roger W. Innes
      Plant Cell Nov 2012, 24 (11) 4717-4730; DOI: https://doi.org/10.1105/tpc.112.105254

      The targeting of proteins to specific locations within a cell is a dynamic process that requires sophisticated sorting mechanisms. This work shows that Arabidopsis KEEP ON GOING plays a central role in regulating movement of proteins from the plasma membrane to the central vacuole and in the secretion of defense proteins to the extracellular space.

J

  1. Ji, Guoli

    1. Genome-Wide Control of Polyadenylation Site Choice by CPSF30 in <em>Arabidopsis</em>
      Open Access
      Genome-Wide Control of Polyadenylation Site Choice by CPSF30 in Arabidopsis
      Patrick E. Thomas, Xiaohui Wu, Man Liu, Bobby Gaffney, Guoli Ji, Qingshun Q. Li, Arthur G. Hunt
      Plant Cell Nov 2012, 24 (11) 4376-4388; DOI: https://doi.org/10.1105/tpc.112.096107

      This work shows that poly(A) site choice is affected in 45% or more of all genes in an Arabidopsis thaliana mutant that lacks a core polyadenylation factor subunit and that a novel poly(A) signal exists that can function in the absence of the affected protein. These results provide new insight into mechanisms of alternative polyadenylation in plants.

  2. Jiang, Ling

    1. Identification and Characterization of an Epi-Allele of <em>FIE1</em> Reveals a Regulatory Linkage between Two Epigenetic Marks in Rice
      Open Access
      Identification and Characterization of an Epi-Allele of FIE1 Reveals a Regulatory Linkage between Two Epigenetic Marks in Rice
      Liguo Zhang, Zhijun Cheng, Ruizhen Qin, Yang Qiu, Jiu-Lin Wang, Xiekui Cui, Lianfeng Gu, Xin Zhang, Xiuping Guo, Dan Wang, Ling Jiang, Chuan-yin Wu, Haiyang Wang, Xiaofeng Cao, Jianmin Wan
      Plant Cell Nov 2012, 24 (11) 4407-4421; DOI: https://doi.org/10.1105/tpc.112.102269

      This work identifies an epi-allele of rice Fertilization Independent Endosperm1 (FIE1) with DNA hypomethylation, reduced H3 Lys 9 dimethylation, increased H3 Lys 4 trimethylation, ectopic FIE1 expression, and loss imprinting, plus altered H3 Lys 27 trimethylation and perturbed expression of hundreds of genes. This suggests a regulatory link among these epigenetic marks.

  3. Jiang, Tao

    1. <em>XTH31,</em> Encoding an in Vitro XEH/XET-Active Enzyme, Regulates Aluminum Sensitivity by Modulating in Vivo XET Action, Cell Wall Xyloglucan Content, and Aluminum Binding Capacity in <em>Arabidopsis</em>
      You have accessRestricted Access
      XTH31, Encoding an in Vitro XEH/XET-Active Enzyme, Regulates Aluminum Sensitivity by Modulating in Vivo XET Action, Cell Wall Xyloglucan Content, and Aluminum Binding Capacity in Arabidopsis
      Xiao Fang Zhu, Yuan Zhi Shi, Gui Jie Lei, Stephen C. Fry, Bao Cai Zhang, Yi Hua Zhou, Janet Braam, Tao Jiang, Xiao Yan Xu, Chuan Zao Mao, Yuan Jiang Pan, Jian Li Yang, Ping Wu, Shao Jian Zheng
      Plant Cell Nov 2012, 24 (11) 4731-4747; DOI: https://doi.org/10.1105/tpc.112.106039

      Hemicellulose can retain a large amount of Al. This study demonstrates that an important component of hemicellulose, xyloglucan, can bind Al, and knockout of XTH31 increases Al resistance in Arabidopsis by decreasing xyloglucan endotransglucosylase action and the accumulation of xyloglucan in hemicellulose, which in turn reduces the retention of Al in the cell wall, thus excluding Al from roots.

  4. Johnny, Cassandra

    1. A Galactoglycerolipid Lipase Is Required for Triacylglycerol Accumulation and Survival Following Nitrogen Deprivation in <em>Chlamydomonas reinhardtii</em>
      You have accessRestricted Access
      A Galactoglycerolipid Lipase Is Required for Triacylglycerol Accumulation and Survival Following Nitrogen Deprivation in Chlamydomonas reinhardtii
      Xiaobo Li, Eric R. Moellering, Bensheng Liu, Cassandra Johnny, Marie Fedewa, Barbara B. Sears, Min-Hao Kuo, Christoph Benning
      Plant Cell Nov 2012, 24 (11) 4670-4686; DOI: https://doi.org/10.1105/tpc.112.105106

      A mutant of Chlamydomonas reinhardtii with impaired oil accumulation is shown to be deficient in a lipase with specificity for newly assembled monogalactolipids. Passage of fatty acids synthesized in the chloroplast through a transient chloroplast membrane lipid pool into triacylglycerols is proposed. A role of oil biosynthesis for survival following nutrient deprivation is demonstrated.

  5. Jung, Choonkyun

    1. Genome-Wide Analysis Uncovers Regulation of Long Intergenic Noncoding RNAs in <em>Arabidopsis</em>
      You have accessRestricted Access
      Genome-Wide Analysis Uncovers Regulation of Long Intergenic Noncoding RNAs in Arabidopsis
      Jun Liu, Choonkyun Jung, Jun Xu, Huan Wang, Shulin Deng, Lucia Bernad, Catalina Arenas-Huertero, Nam-Hai Chua
      Plant Cell Nov 2012, 24 (11) 4333-4345; DOI: https://doi.org/10.1105/tpc.112.102855

      This work identifies 6480 long intergenic noncoding RNAs in Arabidopsis, many of which show organ-specific and stress-responsive expression. The biogenesis of a group of long intergenic noncoding RNAs is coregulated by the RNA processing proteins SERRATE, CBP20, and CBP80.

K

  1. Kahles, André

    1. Polypyrimidine Tract Binding Protein Homologs from <em>Arabidopsis</em> Are Key Regulators of Alternative Splicing with Implications in Fundamental Developmental Processes
      You have accessRestricted Access
      Polypyrimidine Tract Binding Protein Homologs from Arabidopsis Are Key Regulators of Alternative Splicing with Implications in Fundamental Developmental Processes
      Christina Rühl, Eva Stauffer, André Kahles, Gabriele Wagner, Gabriele Drechsel, Gunnar Rätsch, Andreas Wachter
      Plant Cell Nov 2012, 24 (11) 4360-4375; DOI: https://doi.org/10.1105/tpc.112.103622

      Alternative precursor mRNA splicing massively expands the transcriptome diversity in higher eukaryotes. In this report, we describe Arabidopsis Polypyrimidine tract binding protein homologs as critical components of the plant splicing code and provide links between regulated alternative splicing events and seed germination as well as flowering time control.

  2. Karlova, Rumyana

    1. The Tomato FRUITFULL Homologs TDR4/FUL1 and MBP7/FUL2 Regulate Ethylene-Independent Aspects of Fruit Ripening
      You have accessRestricted Access
      The Tomato FRUITFULL Homologs TDR4/FUL1 and MBP7/FUL2 Regulate Ethylene-Independent Aspects of Fruit Ripening
      Marian Bemer, Rumyana Karlova, Ana Rosa Ballester, Yury M. Tikunov, Arnaud G. Bovy, Mieke Wolters-Arts, Priscilla de Barros Rossetto, Gerco C. Angenent, Ruud A. de Maagd
      Plant Cell Nov 2012, 24 (11) 4437-4451; DOI: https://doi.org/10.1105/tpc.112.103283

      Ripening of the tomato fruit is accompanied by an increase in ethylene production and involves color changes, altered sugar metabolism, tissue softening, and the synthesis of aroma volatiles. This study shows that the MADS domain transcription factors FUL1 and FUL2 play a role in the regulation of these ripening processes, but in an ethylene-independent manner.

  3. Kateriya, Suneel

    1. Phototropin Influence on Eyespot Development and Regulation of Phototactic Behavior in <em>Chlamydomonas reinhardtii</em>
      You have accessRestricted Access
      Phototropin Influence on Eyespot Development and Regulation of Phototactic Behavior in Chlamydomonas reinhardtii
      Jessica Trippens, Andre Greiner, Jana Schellwat, Martin Neukam, Theresa Rottmann, Yinghong Lu, Suneel Kateriya, Peter Hegemann, Georg Kreimer
      Plant Cell Nov 2012, 24 (11) 4687-4702; DOI: https://doi.org/10.1105/tpc.112.103523

      This study shows that an eyespot is a dynamic organelle and that the blue light photoreceptor phototropin is involved in the regulation of eyespot size and level of channelrhodopsin 1, which is the primary photoreceptor for photo-movement responses. This work also describes that, in addition to the C-terminal kinase domain, the N-terminal photoreceptor domains have independent signaling functions.

  4. Kazachkov, Michael

    1. Metabolic Interactions between the Lands Cycle and the Kennedy Pathway of Glycerolipid Synthesis in <em>Arabidopsis</em> Developing Seeds
      You have accessRestricted Access
      Metabolic Interactions between the Lands Cycle and the Kennedy Pathway of Glycerolipid Synthesis in Arabidopsis Developing Seeds
      Liping Wang, Wenyun Shen, Michael Kazachkov, Guanqun Chen, Qilin Chen, Anders S. Carlsson, Sten Stymne, Randall J. Weselake, Jitao Zou
      Plant Cell Nov 2012, 24 (11) 4652-4669; DOI: https://doi.org/10.1105/tpc.112.104604

      The Kennedy pathway and the Lands cycle are two principal metabolic modules of glycerolipid metabolism. This work examines the crosstalk of these two pathways and shows that loss of Lands cycle activity leads to an enhanced de novo phosphatidylcholine PC synthesis through the Kennedy pathway and PC turnover in Arabidopsis developing seeds.

  5. Khang, Chang Hyun

    1. The <em>Magnaporthe oryzae</em> Effector AvrPiz-t Targets the RING E3 Ubiquitin Ligase APIP6 to Suppress Pathogen-Associated Molecular Pattern–Triggered Immunity in Rice
      Open Access
      The Magnaporthe oryzae Effector AvrPiz-t Targets the RING E3 Ubiquitin Ligase APIP6 to Suppress Pathogen-Associated Molecular Pattern–Triggered Immunity in Rice
      Chan-Ho Park, Songbiao Chen, Gautam Shirsekar, Bo Zhou, Chang Hyun Khang, Pattavipha Songkumarn, Ahmed J. Afzal, Yuese Ning, Ruyi Wang, Maria Bellizzi, Barbara Valent, Guo-Liang Wang
      Plant Cell Nov 2012, 24 (11) 4748-4762; DOI: https://doi.org/10.1105/tpc.112.105429

      This work shows that the Magnaporthe oryzae effector AvrPiz-t enters into rice cells to target the RING E3 ubiquitin ligase APIP6 for suppression of PAMP-triggered immunity in rice. It also describes that APIP6 degrades AvrPiz-t in planta and positively regulates basal defense to M. oryzae.

  6. Kong, Yingzhen

    1. A Galacturonic Acid–Containing Xyloglucan Is Involved in <em>Arabidopsis</em> Root Hair Tip Growth
      You have accessRestricted Access
      A Galacturonic Acid–Containing Xyloglucan Is Involved in Arabidopsis Root Hair Tip Growth
      Maria J. Peña, Yingzhen Kong, William S. York, Malcolm A. O’Neill
      Plant Cell Nov 2012, 24 (11) 4511-4524; DOI: https://doi.org/10.1105/tpc.112.103390

      A unique galacturonic acidic–containing xyloglucan was identified in Arabidopsis root hair cell walls and characterized using genetic, biochemical, and chemical methods. Plants with a null mutation in a gene encoding a GT47 glycosyltransferase synthesize xyloglucan that lacks galacturonic acid and have short root hairs. These findings highlight a key role for acidic xyloglucan in root hair growth.

  7. Kreimer, Georg

    1. Phototropin Influence on Eyespot Development and Regulation of Phototactic Behavior in <em>Chlamydomonas reinhardtii</em>
      You have accessRestricted Access
      Phototropin Influence on Eyespot Development and Regulation of Phototactic Behavior in Chlamydomonas reinhardtii
      Jessica Trippens, Andre Greiner, Jana Schellwat, Martin Neukam, Theresa Rottmann, Yinghong Lu, Suneel Kateriya, Peter Hegemann, Georg Kreimer
      Plant Cell Nov 2012, 24 (11) 4687-4702; DOI: https://doi.org/10.1105/tpc.112.103523

      This study shows that an eyespot is a dynamic organelle and that the blue light photoreceptor phototropin is involved in the regulation of eyespot size and level of channelrhodopsin 1, which is the primary photoreceptor for photo-movement responses. This work also describes that, in addition to the C-terminal kinase domain, the N-terminal photoreceptor domains have independent signaling functions.

  8. Kuo, Min-Hao

    1. A Galactoglycerolipid Lipase Is Required for Triacylglycerol Accumulation and Survival Following Nitrogen Deprivation in <em>Chlamydomonas reinhardtii</em>
      You have accessRestricted Access
      A Galactoglycerolipid Lipase Is Required for Triacylglycerol Accumulation and Survival Following Nitrogen Deprivation in Chlamydomonas reinhardtii
      Xiaobo Li, Eric R. Moellering, Bensheng Liu, Cassandra Johnny, Marie Fedewa, Barbara B. Sears, Min-Hao Kuo, Christoph Benning
      Plant Cell Nov 2012, 24 (11) 4670-4686; DOI: https://doi.org/10.1105/tpc.112.105106

      A mutant of Chlamydomonas reinhardtii with impaired oil accumulation is shown to be deficient in a lipase with specificity for newly assembled monogalactolipids. Passage of fatty acids synthesized in the chloroplast through a transient chloroplast membrane lipid pool into triacylglycerols is proposed. A role of oil biosynthesis for survival following nutrient deprivation is demonstrated.

L

  1. Lam, Hon-Ming

    1. Genome-Wide Characterization of Nonreference Transposons Reveals Evolutionary Propensities of Transposons in Soybean
      You have accessRestricted Access
      Genome-Wide Characterization of Nonreference Transposons Reveals Evolutionary Propensities of Transposons in Soybean
      Zhixi Tian, Meixia Zhao, Maoyun She, Jianchang Du, Steven B. Cannon, Xin Liu, Xun Xu, Xinpeng Qi, Man-Wah Li, Hon-Ming Lam, Jianxin Ma
      Plant Cell Nov 2012, 24 (11) 4422-4436; DOI: https://doi.org/10.1105/tpc.112.103630

      The authors developed a strategy to identify putative transposon insertions that are present in a resequenced soybean population but absent in the soybean reference genome. Comparison of the distribution patterns of these elements and the patterns in the reference genome revealed evolutionary processes that reshaped the landscape of transposons after their integration in the host genome.

  2. Lau, On Sun

    1. <em>Arabidopsis</em> FHY3 and HY5 Positively Mediate Induction of <em>COP1</em> Transcription in Response to Photomorphogenic UV-B Light
      Open Access
      Arabidopsis FHY3 and HY5 Positively Mediate Induction of COP1 Transcription in Response to Photomorphogenic UV-B Light
      Xi Huang, Xinhao Ouyang, Panyu Yang, On Sun Lau, Gang Li, Jigang Li, Haodong Chen, Xing Wang Deng
      Plant Cell Nov 2012, 24 (11) 4590-4606; DOI: https://doi.org/10.1105/tpc.112.103994

      In UV-B–induced photomorphogenesis in Arabidopsis, COP1 is a UV-B–inducible gene and FHY3 and HY5 directly activate COP1, dependent on UV-B, by binding to the COP1 promoter to ensure photomorphogenic UV-B signaling. The working mode of FHY3 and HY5 in UV-B–specific signaling is distinct from that in far-red light and circadian conditions.

  3. Lei, Gui Jie

    1. <em>XTH31,</em> Encoding an in Vitro XEH/XET-Active Enzyme, Regulates Aluminum Sensitivity by Modulating in Vivo XET Action, Cell Wall Xyloglucan Content, and Aluminum Binding Capacity in <em>Arabidopsis</em>
      You have accessRestricted Access
      XTH31, Encoding an in Vitro XEH/XET-Active Enzyme, Regulates Aluminum Sensitivity by Modulating in Vivo XET Action, Cell Wall Xyloglucan Content, and Aluminum Binding Capacity in Arabidopsis
      Xiao Fang Zhu, Yuan Zhi Shi, Gui Jie Lei, Stephen C. Fry, Bao Cai Zhang, Yi Hua Zhou, Janet Braam, Tao Jiang, Xiao Yan Xu, Chuan Zao Mao, Yuan Jiang Pan, Jian Li Yang, Ping Wu, Shao Jian Zheng
      Plant Cell Nov 2012, 24 (11) 4731-4747; DOI: https://doi.org/10.1105/tpc.112.106039

      Hemicellulose can retain a large amount of Al. This study demonstrates that an important component of hemicellulose, xyloglucan, can bind Al, and knockout of XTH31 increases Al resistance in Arabidopsis by decreasing xyloglucan endotransglucosylase action and the accumulation of xyloglucan in hemicellulose, which in turn reduces the retention of Al in the cell wall, thus excluding Al from roots.

  4. Li, Fan

    1. Regulatory Impact of RNA Secondary Structure across the <em>Arabidopsis</em> Transcriptome
      Open Access
      Regulatory Impact of RNA Secondary Structure across the Arabidopsis Transcriptome
      Fan Li, Qi Zheng, Lee E. Vandivier, Matthew R. Willmann, Ying Chen, Brian D. Gregory
      Plant Cell Nov 2012, 24 (11) 4346-4359; DOI: https://doi.org/10.1105/tpc.112.104232

      This study employs a high-throughput, sequencing-based, structure-mapping approach to investigate RNA secondary structure throughout the Arabidopsis transcriptome. By combining these structural insights with a number of other RNA sequencing–based approaches, it provides a global assessment of RNA folding and its significant regulatory effects in a plant transcriptome.

  5. Li, Gang

    1. <em>Arabidopsis</em> FHY3 and HY5 Positively Mediate Induction of <em>COP1</em> Transcription in Response to Photomorphogenic UV-B Light
      Open Access
      Arabidopsis FHY3 and HY5 Positively Mediate Induction of COP1 Transcription in Response to Photomorphogenic UV-B Light
      Xi Huang, Xinhao Ouyang, Panyu Yang, On Sun Lau, Gang Li, Jigang Li, Haodong Chen, Xing Wang Deng
      Plant Cell Nov 2012, 24 (11) 4590-4606; DOI: https://doi.org/10.1105/tpc.112.103994

      In UV-B–induced photomorphogenesis in Arabidopsis, COP1 is a UV-B–inducible gene and FHY3 and HY5 directly activate COP1, dependent on UV-B, by binding to the COP1 promoter to ensure photomorphogenic UV-B signaling. The working mode of FHY3 and HY5 in UV-B–specific signaling is distinct from that in far-red light and circadian conditions.

  6. Li, Jigang

    1. <em>Arabidopsis</em> FHY3 and HY5 Positively Mediate Induction of <em>COP1</em> Transcription in Response to Photomorphogenic UV-B Light
      Open Access
      Arabidopsis FHY3 and HY5 Positively Mediate Induction of COP1 Transcription in Response to Photomorphogenic UV-B Light
      Xi Huang, Xinhao Ouyang, Panyu Yang, On Sun Lau, Gang Li, Jigang Li, Haodong Chen, Xing Wang Deng
      Plant Cell Nov 2012, 24 (11) 4590-4606; DOI: https://doi.org/10.1105/tpc.112.103994

      In UV-B–induced photomorphogenesis in Arabidopsis, COP1 is a UV-B–inducible gene and FHY3 and HY5 directly activate COP1, dependent on UV-B, by binding to the COP1 promoter to ensure photomorphogenic UV-B signaling. The working mode of FHY3 and HY5 in UV-B–specific signaling is distinct from that in far-red light and circadian conditions.

  7. Li, Man-Wah

    1. Genome-Wide Characterization of Nonreference Transposons Reveals Evolutionary Propensities of Transposons in Soybean
      You have accessRestricted Access
      Genome-Wide Characterization of Nonreference Transposons Reveals Evolutionary Propensities of Transposons in Soybean
      Zhixi Tian, Meixia Zhao, Maoyun She, Jianchang Du, Steven B. Cannon, Xin Liu, Xun Xu, Xinpeng Qi, Man-Wah Li, Hon-Ming Lam, Jianxin Ma
      Plant Cell Nov 2012, 24 (11) 4422-4436; DOI: https://doi.org/10.1105/tpc.112.103630

      The authors developed a strategy to identify putative transposon insertions that are present in a resequenced soybean population but absent in the soybean reference genome. Comparison of the distribution patterns of these elements and the patterns in the reference genome revealed evolutionary processes that reshaped the landscape of transposons after their integration in the host genome.

  8. Li, Qingshun Q.

    1. Genome-Wide Control of Polyadenylation Site Choice by CPSF30 in <em>Arabidopsis</em>
      Open Access
      Genome-Wide Control of Polyadenylation Site Choice by CPSF30 in Arabidopsis
      Patrick E. Thomas, Xiaohui Wu, Man Liu, Bobby Gaffney, Guoli Ji, Qingshun Q. Li, Arthur G. Hunt
      Plant Cell Nov 2012, 24 (11) 4376-4388; DOI: https://doi.org/10.1105/tpc.112.096107

      This work shows that poly(A) site choice is affected in 45% or more of all genes in an Arabidopsis thaliana mutant that lacks a core polyadenylation factor subunit and that a novel poly(A) signal exists that can function in the absence of the affected protein. These results provide new insight into mechanisms of alternative polyadenylation in plants.

  9. Li, Xiaobo

    1. A Galactoglycerolipid Lipase Is Required for Triacylglycerol Accumulation and Survival Following Nitrogen Deprivation in <em>Chlamydomonas reinhardtii</em>
      You have accessRestricted Access
      A Galactoglycerolipid Lipase Is Required for Triacylglycerol Accumulation and Survival Following Nitrogen Deprivation in Chlamydomonas reinhardtii
      Xiaobo Li, Eric R. Moellering, Bensheng Liu, Cassandra Johnny, Marie Fedewa, Barbara B. Sears, Min-Hao Kuo, Christoph Benning
      Plant Cell Nov 2012, 24 (11) 4670-4686; DOI: https://doi.org/10.1105/tpc.112.105106

      A mutant of Chlamydomonas reinhardtii with impaired oil accumulation is shown to be deficient in a lipase with specificity for newly assembled monogalactolipids. Passage of fatty acids synthesized in the chloroplast through a transient chloroplast membrane lipid pool into triacylglycerols is proposed. A role of oil biosynthesis for survival following nutrient deprivation is demonstrated.

  10. Lin, Feng

    1. Phosphatidic Acid Regulates Microtubule Organization by Interacting with MAP65-1 in Response to Salt Stress in <em>Arabidopsis</em>
      You have accessRestricted Access
      Phosphatidic Acid Regulates Microtubule Organization by Interacting with MAP65-1 in Response to Salt Stress in Arabidopsis
      Qun Zhang, Feng Lin, Tonglin Mao, Jianing Nie, Min Yan, Ming Yuan, Wenhua Zhang
      Plant Cell Nov 2012, 24 (11) 4555-4576; DOI: https://doi.org/10.1105/tpc.112.104182

      A plant phospholipase D (PLDα1) is activated by salt stress, and the produced lipid phosphatidic acid (PA) binds to a microtubule-associated protein MAP65-1. The PA and MAP65-1 interaction is essential for the regulation of microtubule organization and salt tolerance. This finding couples lipid signaling to the cytoskeleton and reveals a lipid-mediated signaling pathway that responds to stress.

  11. Liu, Bensheng

    1. A Galactoglycerolipid Lipase Is Required for Triacylglycerol Accumulation and Survival Following Nitrogen Deprivation in <em>Chlamydomonas reinhardtii</em>
      You have accessRestricted Access
      A Galactoglycerolipid Lipase Is Required for Triacylglycerol Accumulation and Survival Following Nitrogen Deprivation in Chlamydomonas reinhardtii
      Xiaobo Li, Eric R. Moellering, Bensheng Liu, Cassandra Johnny, Marie Fedewa, Barbara B. Sears, Min-Hao Kuo, Christoph Benning
      Plant Cell Nov 2012, 24 (11) 4670-4686; DOI: https://doi.org/10.1105/tpc.112.105106

      A mutant of Chlamydomonas reinhardtii with impaired oil accumulation is shown to be deficient in a lipase with specificity for newly assembled monogalactolipids. Passage of fatty acids synthesized in the chloroplast through a transient chloroplast membrane lipid pool into triacylglycerols is proposed. A role of oil biosynthesis for survival following nutrient deprivation is demonstrated.

  12. Liu, Jun

    1. Genome-Wide Analysis Uncovers Regulation of Long Intergenic Noncoding RNAs in <em>Arabidopsis</em>
      You have accessRestricted Access
      Genome-Wide Analysis Uncovers Regulation of Long Intergenic Noncoding RNAs in Arabidopsis
      Jun Liu, Choonkyun Jung, Jun Xu, Huan Wang, Shulin Deng, Lucia Bernad, Catalina Arenas-Huertero, Nam-Hai Chua
      Plant Cell Nov 2012, 24 (11) 4333-4345; DOI: https://doi.org/10.1105/tpc.112.102855

      This work identifies 6480 long intergenic noncoding RNAs in Arabidopsis, many of which show organ-specific and stress-responsive expression. The biogenesis of a group of long intergenic noncoding RNAs is coregulated by the RNA processing proteins SERRATE, CBP20, and CBP80.

  13. Liu, Man

    1. Genome-Wide Control of Polyadenylation Site Choice by CPSF30 in <em>Arabidopsis</em>
      Open Access
      Genome-Wide Control of Polyadenylation Site Choice by CPSF30 in Arabidopsis
      Patrick E. Thomas, Xiaohui Wu, Man Liu, Bobby Gaffney, Guoli Ji, Qingshun Q. Li, Arthur G. Hunt
      Plant Cell Nov 2012, 24 (11) 4376-4388; DOI: https://doi.org/10.1105/tpc.112.096107

      This work shows that poly(A) site choice is affected in 45% or more of all genes in an Arabidopsis thaliana mutant that lacks a core polyadenylation factor subunit and that a novel poly(A) signal exists that can function in the absence of the affected protein. These results provide new insight into mechanisms of alternative polyadenylation in plants.

  14. Liu, Xin

    1. Genome-Wide Characterization of Nonreference Transposons Reveals Evolutionary Propensities of Transposons in Soybean
      You have accessRestricted Access
      Genome-Wide Characterization of Nonreference Transposons Reveals Evolutionary Propensities of Transposons in Soybean
      Zhixi Tian, Meixia Zhao, Maoyun She, Jianchang Du, Steven B. Cannon, Xin Liu, Xun Xu, Xinpeng Qi, Man-Wah Li, Hon-Ming Lam, Jianxin Ma
      Plant Cell Nov 2012, 24 (11) 4422-4436; DOI: https://doi.org/10.1105/tpc.112.103630

      The authors developed a strategy to identify putative transposon insertions that are present in a resequenced soybean population but absent in the soybean reference genome. Comparison of the distribution patterns of these elements and the patterns in the reference genome revealed evolutionary processes that reshaped the landscape of transposons after their integration in the host genome.

  15. Liu, Yimo

    1. Degradation of the Endoplasmic Reticulum by Autophagy during Endoplasmic Reticulum Stress in <em>Arabidopsis</em>
      You have accessRestricted Access
      Degradation of the Endoplasmic Reticulum by Autophagy during Endoplasmic Reticulum Stress in Arabidopsis
      Yimo Liu, Junmarie Soto Burgos, Yan Deng, Renu Srivastava, Stephen H. Howell, Diane C. Bassham
      Plant Cell Nov 2012, 24 (11) 4635-4651; DOI: https://doi.org/10.1105/tpc.112.101535

      Upon accumulation of unfolded proteins in the endoplasmic reticulum (ER), cells activate an ER stress response to enable plants to tolerate these conditions. This work shows that one facet of this response is the activation of the autophagy pathway for degradation of ER fragments in the vacuole, which is regulated by the IRE1b splicing factor.

  16. Lu, Yinghong

    1. Phototropin Influence on Eyespot Development and Regulation of Phototactic Behavior in <em>Chlamydomonas reinhardtii</em>
      You have accessRestricted Access
      Phototropin Influence on Eyespot Development and Regulation of Phototactic Behavior in Chlamydomonas reinhardtii
      Jessica Trippens, Andre Greiner, Jana Schellwat, Martin Neukam, Theresa Rottmann, Yinghong Lu, Suneel Kateriya, Peter Hegemann, Georg Kreimer
      Plant Cell Nov 2012, 24 (11) 4687-4702; DOI: https://doi.org/10.1105/tpc.112.103523

      This study shows that an eyespot is a dynamic organelle and that the blue light photoreceptor phototropin is involved in the regulation of eyespot size and level of channelrhodopsin 1, which is the primary photoreceptor for photo-movement responses. This work also describes that, in addition to the C-terminal kinase domain, the N-terminal photoreceptor domains have independent signaling functions.

  17. Lucent, Del

    1. Crystal Structure of an Indole-3-Acetic Acid Amido Synthetase from Grapevine Involved in Auxin Homeostasis
      You have accessRestricted Access
      Crystal Structure of an Indole-3-Acetic Acid Amido Synthetase from Grapevine Involved in Auxin Homeostasis
      Thomas S. Peat, Christine Böttcher, Janet Newman, Del Lucent, Nathan Cowieson, Christopher Davies
      Plant Cell Nov 2012, 24 (11) 4525-4538; DOI: https://doi.org/10.1105/tpc.112.102921

      The crystal structure of an indole-3-acetic acid amido synthetase from Vitis vinifera involved in auxin homeostasis is presented. Residues likely to be involved in acyl group, amino acid, and ATP substrate binding have been identified, and this information provides a tool for designing new, effective auxins.

M

  1. Ma, Jianxin

    1. Genome-Wide Characterization of Nonreference Transposons Reveals Evolutionary Propensities of Transposons in Soybean
      You have accessRestricted Access
      Genome-Wide Characterization of Nonreference Transposons Reveals Evolutionary Propensities of Transposons in Soybean
      Zhixi Tian, Meixia Zhao, Maoyun She, Jianchang Du, Steven B. Cannon, Xin Liu, Xun Xu, Xinpeng Qi, Man-Wah Li, Hon-Ming Lam, Jianxin Ma
      Plant Cell Nov 2012, 24 (11) 4422-4436; DOI: https://doi.org/10.1105/tpc.112.103630

      The authors developed a strategy to identify putative transposon insertions that are present in a resequenced soybean population but absent in the soybean reference genome. Comparison of the distribution patterns of these elements and the patterns in the reference genome revealed evolutionary processes that reshaped the landscape of transposons after their integration in the host genome.

  2. Mach, Jennifer

    1. Open Wide! Exine Patterning and Aperture Formation in <em>Arabidopsis</em> Pollen
      You have accessRestricted Access
      Open Wide! Exine Patterning and Aperture Formation in Arabidopsis Pollen
      Jennifer Mach
      Plant Cell Nov 2012, 24 (11) 4311; DOI: https://doi.org/10.1105/tpc.112.241110
  3. Mackey, David

    1. The Coronatine Toxin of <em>Pseudomonas syringae</em> Is a Multifunctional Suppressor of <em>Arabidopsis</em> Defense
      Open Access
      The Coronatine Toxin of Pseudomonas syringae Is a Multifunctional Suppressor of Arabidopsis Defense
      Xueqing Geng, Jiye Cheng, Anju Gangadharan, David Mackey
      Plant Cell Nov 2012, 24 (11) 4763-4774; DOI: https://doi.org/10.1105/tpc.112.105312

      The bacterial phytotoxin coronatine mimics a plant hormone, jasmonic acid, and thus antagonizes signaling by another plant hormone, salicylic acid, important for plant defense. This study demonstrates that coronatine also suppresses SA-independent host defense, including the production of defense-promoting indole glucosinolates and has a target other than the jasmonic acid receptor.

  4. Mao, Chuan Zao

    1. <em>XTH31,</em> Encoding an in Vitro XEH/XET-Active Enzyme, Regulates Aluminum Sensitivity by Modulating in Vivo XET Action, Cell Wall Xyloglucan Content, and Aluminum Binding Capacity in <em>Arabidopsis</em>
      You have accessRestricted Access
      XTH31, Encoding an in Vitro XEH/XET-Active Enzyme, Regulates Aluminum Sensitivity by Modulating in Vivo XET Action, Cell Wall Xyloglucan Content, and Aluminum Binding Capacity in Arabidopsis
      Xiao Fang Zhu, Yuan Zhi Shi, Gui Jie Lei, Stephen C. Fry, Bao Cai Zhang, Yi Hua Zhou, Janet Braam, Tao Jiang, Xiao Yan Xu, Chuan Zao Mao, Yuan Jiang Pan, Jian Li Yang, Ping Wu, Shao Jian Zheng
      Plant Cell Nov 2012, 24 (11) 4731-4747; DOI: https://doi.org/10.1105/tpc.112.106039

      Hemicellulose can retain a large amount of Al. This study demonstrates that an important component of hemicellulose, xyloglucan, can bind Al, and knockout of XTH31 increases Al resistance in Arabidopsis by decreasing xyloglucan endotransglucosylase action and the accumulation of xyloglucan in hemicellulose, which in turn reduces the retention of Al in the cell wall, thus excluding Al from roots.

  5. Mao, Tonglin

    1. Phosphatidic Acid Regulates Microtubule Organization by Interacting with MAP65-1 in Response to Salt Stress in <em>Arabidopsis</em>
      You have accessRestricted Access
      Phosphatidic Acid Regulates Microtubule Organization by Interacting with MAP65-1 in Response to Salt Stress in Arabidopsis
      Qun Zhang, Feng Lin, Tonglin Mao, Jianing Nie, Min Yan, Ming Yuan, Wenhua Zhang
      Plant Cell Nov 2012, 24 (11) 4555-4576; DOI: https://doi.org/10.1105/tpc.112.104182

      A plant phospholipase D (PLDα1) is activated by salt stress, and the produced lipid phosphatidic acid (PA) binds to a microtubule-associated protein MAP65-1. The PA and MAP65-1 interaction is essential for the regulation of microtubule organization and salt tolerance. This finding couples lipid signaling to the cytoskeleton and reveals a lipid-mediated signaling pathway that responds to stress.

  6. McDowell, John M.

    1. The Ubiquitin Ligase PUB22 Targets a Subunit of the Exocyst Complex Required for PAMP-Triggered Responses in <em>Arabidopsis</em>
      You have accessRestricted Access
      The Ubiquitin Ligase PUB22 Targets a Subunit of the Exocyst Complex Required for PAMP-Triggered Responses in Arabidopsis
      Martin Stegmann, Ryan G. Anderson, Kazuya Ichimura, Tamara Pecenkova, Patrick Reuter, Viktor Žárský, John M. McDowell, Ken Shirasu, Marco Trujillo
      Plant Cell Nov 2012, 24 (11) 4703-4716; DOI: https://doi.org/10.1105/tpc.112.104463

      Exo70B2, a subunit of the exocyst complex, which is involved in exocytosis, is targeted for degradation by the ubiquitin ligase PUB22 upon activation of the immune system. This work also reveals that Exo70B2 is required for the activation of PAMP-triggered responses.

  7. Mely, Yves

    1. Protein–Protein and Protein–Membrane Associations in the Lignin Pathway
      Open Access
      Protein–Protein and Protein–Membrane Associations in the Lignin Pathway
      Jean-Etienne Bassard, Ludovic Richert, Jan Geerinck, Hugues Renault, Frédéric Duval, Pascaline Ullmann, Martine Schmitt, Etienne Meyer, Jerôme Mutterer, Wout Boerjan, Geert De Jaeger, Yves Mely, Alain Goossens, Danièle Werck-Reichhart
      Plant Cell Nov 2012, 24 (11) 4465-4482; DOI: https://doi.org/10.1105/tpc.112.102566

      Analysis of the supramolecular organization of enzymes in the lignin pathway shows that cytochrome P450s oligomerize and move along with the very mobile plant endoplasmic reticulum. Their expression favors relocalization of their soluble partner proteins nearer the membrane and association of sequential enzymes in the pathway.

  8. Meyer, Etienne

    1. Protein–Protein and Protein–Membrane Associations in the Lignin Pathway
      Open Access
      Protein–Protein and Protein–Membrane Associations in the Lignin Pathway
      Jean-Etienne Bassard, Ludovic Richert, Jan Geerinck, Hugues Renault, Frédéric Duval, Pascaline Ullmann, Martine Schmitt, Etienne Meyer, Jerôme Mutterer, Wout Boerjan, Geert De Jaeger, Yves Mely, Alain Goossens, Danièle Werck-Reichhart
      Plant Cell Nov 2012, 24 (11) 4465-4482; DOI: https://doi.org/10.1105/tpc.112.102566

      Analysis of the supramolecular organization of enzymes in the lignin pathway shows that cytochrome P450s oligomerize and move along with the very mobile plant endoplasmic reticulum. Their expression favors relocalization of their soluble partner proteins nearer the membrane and association of sequential enzymes in the pathway.

  9. Mitsuda, Nobutaka

    1. A Triantagonistic Basic Helix-Loop-Helix System Regulates Cell Elongation in <em>Arabidopsis</em>
      Open Access
      A Triantagonistic Basic Helix-Loop-Helix System Regulates Cell Elongation in Arabidopsis
      Miho Ikeda, Sumire Fujiwara, Nobutaka Mitsuda, Masaru Ohme-Takagi
      Plant Cell Nov 2012, 24 (11) 4483-4497; DOI: https://doi.org/10.1105/tpc.112.105023

      This work identifies three basic helix-loop-helix (bHLH) transcription factors that competitively regulate cell elongation. In this tri-antagonistic system, a negative regulatory bHLH interacts with and interferes with the function of an activator bHLH that activates genes for cell elongation. A third bHLH inactivates the negative bHLH; this double negative regulation activates cell elongation.

  10. Moellering, Eric R.

    1. A Galactoglycerolipid Lipase Is Required for Triacylglycerol Accumulation and Survival Following Nitrogen Deprivation in <em>Chlamydomonas reinhardtii</em>
      You have accessRestricted Access
      A Galactoglycerolipid Lipase Is Required for Triacylglycerol Accumulation and Survival Following Nitrogen Deprivation in Chlamydomonas reinhardtii
      Xiaobo Li, Eric R. Moellering, Bensheng Liu, Cassandra Johnny, Marie Fedewa, Barbara B. Sears, Min-Hao Kuo, Christoph Benning
      Plant Cell Nov 2012, 24 (11) 4670-4686; DOI: https://doi.org/10.1105/tpc.112.105106

      A mutant of Chlamydomonas reinhardtii with impaired oil accumulation is shown to be deficient in a lipase with specificity for newly assembled monogalactolipids. Passage of fatty acids synthesized in the chloroplast through a transient chloroplast membrane lipid pool into triacylglycerols is proposed. A role of oil biosynthesis for survival following nutrient deprivation is demonstrated.

  11. Mondy, Samuel

    1. <em>NODULE ROOT</em> and <em>COCHLEATA</em> Maintain Nodule Development and Are Legume Orthologs of <em>Arabidopsis BLADE-ON-PETIOLE</em> Genes
      Open Access
      NODULE ROOT and COCHLEATA Maintain Nodule Development and Are Legume Orthologs of Arabidopsis BLADE-ON-PETIOLE Genes
      Jean-Malo Couzigou, Vladimir Zhukov, Samuel Mondy, Ghada Abu el Heba, Viviane Cosson, T.H. Noel Ellis, Mike Ambrose, Jiangqi Wen, Million Tadege, Igor Tikhonovich, Kirankumar S. Mysore, Joanna Putterill, Julie Hofer, Alexei Y. Borisov, Pascal Ratet
      Plant Cell Nov 2012, 24 (11) 4498-4510; DOI: https://doi.org/10.1105/tpc.112.103747

      Medicago truncatula NOOT and Pisum sativum COCH were found to maintain nodule identity during symbiotic interactions with rhizobia and were identified as orthologs of Arabidopsis BLADE-ON-PETIOLE genes, which are involved in leaf and flower development.

  12. Moreno, Inmaculada

    1. Cysteine-Generated Sulfide in the Cytosol Negatively Regulates Autophagy and Modulates the Transcriptional Profile in <em>Arabidopsis</em>
      You have accessRestricted Access
      Cysteine-Generated Sulfide in the Cytosol Negatively Regulates Autophagy and Modulates the Transcriptional Profile in Arabidopsis
      Consolación Álvarez, Irene García, Inmaculada Moreno, María Esther Pérez-Pérez, José L. Crespo, Luis C. Romero, Cecilia Gotor
      Plant Cell Nov 2012, 24 (11) 4621-4634; DOI: https://doi.org/10.1105/tpc.112.105403

      This article highlights the role of hydrogen sulfide as a relevant signaling molecule in plants, of comparable importance as described in animals. This study shows the regulatory role of sulfide generated by the cytosolic l-Cys desulfhydrase 1 enzyme on autophagy in eukaryotes.

  13. Mutterer, Jerôme

    1. Protein–Protein and Protein–Membrane Associations in the Lignin Pathway
      Open Access
      Protein–Protein and Protein–Membrane Associations in the Lignin Pathway
      Jean-Etienne Bassard, Ludovic Richert, Jan Geerinck, Hugues Renault, Frédéric Duval, Pascaline Ullmann, Martine Schmitt, Etienne Meyer, Jerôme Mutterer, Wout Boerjan, Geert De Jaeger, Yves Mely, Alain Goossens, Danièle Werck-Reichhart
      Plant Cell Nov 2012, 24 (11) 4465-4482; DOI: https://doi.org/10.1105/tpc.112.102566

      Analysis of the supramolecular organization of enzymes in the lignin pathway shows that cytochrome P450s oligomerize and move along with the very mobile plant endoplasmic reticulum. Their expression favors relocalization of their soluble partner proteins nearer the membrane and association of sequential enzymes in the pathway.

  14. Mysore, Kirankumar S.

    1. <em>NODULE ROOT</em> and <em>COCHLEATA</em> Maintain Nodule Development and Are Legume Orthologs of <em>Arabidopsis BLADE-ON-PETIOLE</em> Genes
      Open Access
      NODULE ROOT and COCHLEATA Maintain Nodule Development and Are Legume Orthologs of Arabidopsis BLADE-ON-PETIOLE Genes
      Jean-Malo Couzigou, Vladimir Zhukov, Samuel Mondy, Ghada Abu el Heba, Viviane Cosson, T.H. Noel Ellis, Mike Ambrose, Jiangqi Wen, Million Tadege, Igor Tikhonovich, Kirankumar S. Mysore, Joanna Putterill, Julie Hofer, Alexei Y. Borisov, Pascal Ratet
      Plant Cell Nov 2012, 24 (11) 4498-4510; DOI: https://doi.org/10.1105/tpc.112.103747

      Medicago truncatula NOOT and Pisum sativum COCH were found to maintain nodule identity during symbiotic interactions with rhizobia and were identified as orthologs of Arabidopsis BLADE-ON-PETIOLE genes, which are involved in leaf and flower development.

N

  1. Neukam, Martin

    1. Phototropin Influence on Eyespot Development and Regulation of Phototactic Behavior in <em>Chlamydomonas reinhardtii</em>
      You have accessRestricted Access
      Phototropin Influence on Eyespot Development and Regulation of Phototactic Behavior in Chlamydomonas reinhardtii
      Jessica Trippens, Andre Greiner, Jana Schellwat, Martin Neukam, Theresa Rottmann, Yinghong Lu, Suneel Kateriya, Peter Hegemann, Georg Kreimer
      Plant Cell Nov 2012, 24 (11) 4687-4702; DOI: https://doi.org/10.1105/tpc.112.103523

      This study shows that an eyespot is a dynamic organelle and that the blue light photoreceptor phototropin is involved in the regulation of eyespot size and level of channelrhodopsin 1, which is the primary photoreceptor for photo-movement responses. This work also describes that, in addition to the C-terminal kinase domain, the N-terminal photoreceptor domains have independent signaling functions.

  2. Newman, Janet

    1. Crystal Structure of an Indole-3-Acetic Acid Amido Synthetase from Grapevine Involved in Auxin Homeostasis
      You have accessRestricted Access
      Crystal Structure of an Indole-3-Acetic Acid Amido Synthetase from Grapevine Involved in Auxin Homeostasis
      Thomas S. Peat, Christine Böttcher, Janet Newman, Del Lucent, Nathan Cowieson, Christopher Davies
      Plant Cell Nov 2012, 24 (11) 4525-4538; DOI: https://doi.org/10.1105/tpc.112.102921

      The crystal structure of an indole-3-acetic acid amido synthetase from Vitis vinifera involved in auxin homeostasis is presented. Residues likely to be involved in acyl group, amino acid, and ATP substrate binding have been identified, and this information provides a tool for designing new, effective auxins.

  3. Nie, Jianing

    1. Phosphatidic Acid Regulates Microtubule Organization by Interacting with MAP65-1 in Response to Salt Stress in <em>Arabidopsis</em>
      You have accessRestricted Access
      Phosphatidic Acid Regulates Microtubule Organization by Interacting with MAP65-1 in Response to Salt Stress in Arabidopsis
      Qun Zhang, Feng Lin, Tonglin Mao, Jianing Nie, Min Yan, Ming Yuan, Wenhua Zhang
      Plant Cell Nov 2012, 24 (11) 4555-4576; DOI: https://doi.org/10.1105/tpc.112.104182

      A plant phospholipase D (PLDα1) is activated by salt stress, and the produced lipid phosphatidic acid (PA) binds to a microtubule-associated protein MAP65-1. The PA and MAP65-1 interaction is essential for the regulation of microtubule organization and salt tolerance. This finding couples lipid signaling to the cytoskeleton and reveals a lipid-mediated signaling pathway that responds to stress.

  4. Ning, Yuese

    1. The <em>Magnaporthe oryzae</em> Effector AvrPiz-t Targets the RING E3 Ubiquitin Ligase APIP6 to Suppress Pathogen-Associated Molecular Pattern–Triggered Immunity in Rice
      Open Access
      The Magnaporthe oryzae Effector AvrPiz-t Targets the RING E3 Ubiquitin Ligase APIP6 to Suppress Pathogen-Associated Molecular Pattern–Triggered Immunity in Rice
      Chan-Ho Park, Songbiao Chen, Gautam Shirsekar, Bo Zhou, Chang Hyun Khang, Pattavipha Songkumarn, Ahmed J. Afzal, Yuese Ning, Ruyi Wang, Maria Bellizzi, Barbara Valent, Guo-Liang Wang
      Plant Cell Nov 2012, 24 (11) 4748-4762; DOI: https://doi.org/10.1105/tpc.112.105429

      This work shows that the Magnaporthe oryzae effector AvrPiz-t enters into rice cells to target the RING E3 ubiquitin ligase APIP6 for suppression of PAMP-triggered immunity in rice. It also describes that APIP6 degrades AvrPiz-t in planta and positively regulates basal defense to M. oryzae.

O

  1. O’Neill, Malcolm A.

    1. A Galacturonic Acid–Containing Xyloglucan Is Involved in <em>Arabidopsis</em> Root Hair Tip Growth
      You have accessRestricted Access
      A Galacturonic Acid–Containing Xyloglucan Is Involved in Arabidopsis Root Hair Tip Growth
      Maria J. Peña, Yingzhen Kong, William S. York, Malcolm A. O’Neill
      Plant Cell Nov 2012, 24 (11) 4511-4524; DOI: https://doi.org/10.1105/tpc.112.103390

      A unique galacturonic acidic–containing xyloglucan was identified in Arabidopsis root hair cell walls and characterized using genetic, biochemical, and chemical methods. Plants with a null mutation in a gene encoding a GT47 glycosyltransferase synthesize xyloglucan that lacks galacturonic acid and have short root hairs. These findings highlight a key role for acidic xyloglucan in root hair growth.

  2. Ohme-Takagi, Masaru

    1. A Triantagonistic Basic Helix-Loop-Helix System Regulates Cell Elongation in <em>Arabidopsis</em>
      Open Access
      A Triantagonistic Basic Helix-Loop-Helix System Regulates Cell Elongation in Arabidopsis
      Miho Ikeda, Sumire Fujiwara, Nobutaka Mitsuda, Masaru Ohme-Takagi
      Plant Cell Nov 2012, 24 (11) 4483-4497; DOI: https://doi.org/10.1105/tpc.112.105023

      This work identifies three basic helix-loop-helix (bHLH) transcription factors that competitively regulate cell elongation. In this tri-antagonistic system, a negative regulatory bHLH interacts with and interferes with the function of an activator bHLH that activates genes for cell elongation. A third bHLH inactivates the negative bHLH; this double negative regulation activates cell elongation.

  3. Olcay, Ahmet Can

    1. Reevaluation of the Reliability and Usefulness of the Somatic Homologous Recombination Reporter Lines
      You have accessRestricted Access
      Reevaluation of the Reliability and Usefulness of the Somatic Homologous Recombination Reporter Lines
      Bekir Ülker, Carl Maximilian Hommelsheim, Tobias Berson, Stefan Thomas, Balakumaran Chandrasekar, Ahmet Can Olcay, Kenneth Wayne Berendzen, Lamprinos Frantzeskakis
      Plant Cell Nov 2012, 24 (11) 4314-4323; DOI: https://doi.org/10.1105/tpc.112.100404
  4. Ouyang, Xinhao

    1. <em>Arabidopsis</em> FHY3 and HY5 Positively Mediate Induction of <em>COP1</em> Transcription in Response to Photomorphogenic UV-B Light
      Open Access
      Arabidopsis FHY3 and HY5 Positively Mediate Induction of COP1 Transcription in Response to Photomorphogenic UV-B Light
      Xi Huang, Xinhao Ouyang, Panyu Yang, On Sun Lau, Gang Li, Jigang Li, Haodong Chen, Xing Wang Deng
      Plant Cell Nov 2012, 24 (11) 4590-4606; DOI: https://doi.org/10.1105/tpc.112.103994

      In UV-B–induced photomorphogenesis in Arabidopsis, COP1 is a UV-B–inducible gene and FHY3 and HY5 directly activate COP1, dependent on UV-B, by binding to the COP1 promoter to ensure photomorphogenic UV-B signaling. The working mode of FHY3 and HY5 in UV-B–specific signaling is distinct from that in far-red light and circadian conditions.

P

  1. Pan, Yuan Jiang

    1. <em>XTH31,</em> Encoding an in Vitro XEH/XET-Active Enzyme, Regulates Aluminum Sensitivity by Modulating in Vivo XET Action, Cell Wall Xyloglucan Content, and Aluminum Binding Capacity in <em>Arabidopsis</em>
      You have accessRestricted Access
      XTH31, Encoding an in Vitro XEH/XET-Active Enzyme, Regulates Aluminum Sensitivity by Modulating in Vivo XET Action, Cell Wall Xyloglucan Content, and Aluminum Binding Capacity in Arabidopsis
      Xiao Fang Zhu, Yuan Zhi Shi, Gui Jie Lei, Stephen C. Fry, Bao Cai Zhang, Yi Hua Zhou, Janet Braam, Tao Jiang, Xiao Yan Xu, Chuan Zao Mao, Yuan Jiang Pan, Jian Li Yang, Ping Wu, Shao Jian Zheng
      Plant Cell Nov 2012, 24 (11) 4731-4747; DOI: https://doi.org/10.1105/tpc.112.106039

      Hemicellulose can retain a large amount of Al. This study demonstrates that an important component of hemicellulose, xyloglucan, can bind Al, and knockout of XTH31 increases Al resistance in Arabidopsis by decreasing xyloglucan endotransglucosylase action and the accumulation of xyloglucan in hemicellulose, which in turn reduces the retention of Al in the cell wall, thus excluding Al from roots.

  2. Park, Chan-Ho

    1. The <em>Magnaporthe oryzae</em> Effector AvrPiz-t Targets the RING E3 Ubiquitin Ligase APIP6 to Suppress Pathogen-Associated Molecular Pattern–Triggered Immunity in Rice
      Open Access
      The Magnaporthe oryzae Effector AvrPiz-t Targets the RING E3 Ubiquitin Ligase APIP6 to Suppress Pathogen-Associated Molecular Pattern–Triggered Immunity in Rice
      Chan-Ho Park, Songbiao Chen, Gautam Shirsekar, Bo Zhou, Chang Hyun Khang, Pattavipha Songkumarn, Ahmed J. Afzal, Yuese Ning, Ruyi Wang, Maria Bellizzi, Barbara Valent, Guo-Liang Wang
      Plant Cell Nov 2012, 24 (11) 4748-4762; DOI: https://doi.org/10.1105/tpc.112.105429

      This work shows that the Magnaporthe oryzae effector AvrPiz-t enters into rice cells to target the RING E3 ubiquitin ligase APIP6 for suppression of PAMP-triggered immunity in rice. It also describes that APIP6 degrades AvrPiz-t in planta and positively regulates basal defense to M. oryzae.

  3. Park, Yeri

    1. Identification of PAN2 by Quantitative Proteomics as a Leucine-Rich Repeat–Receptor-Like Kinase Acting Upstream of PAN1 to Polarize Cell Division in Maize
      Open Access
      Identification of PAN2 by Quantitative Proteomics as a Leucine-Rich Repeat–Receptor-Like Kinase Acting Upstream of PAN1 to Polarize Cell Division in Maize
      Xiaoguo Zhang, Michelle Facette, John A. Humphries, Zhouxin Shen, Yeri Park, Dena Sutimantanapi, Anne W. Sylvester, Steven P. Briggs, Laurie G. Smith
      Plant Cell Nov 2012, 24 (11) 4577-4589; DOI: https://doi.org/10.1105/tpc.112.104125

      PAN2 functions with PAN1, a Leu-rich repeat–receptor-like kinase (LRR-RLK) to polarize the divisions that form stomatal subsidiary cells in maize. Quantitative proteomics was used to identify PAN2 as a second LRR-RLK. PAN2 functions upstream of PAN1, potentially perceiving extracellular cues that initiate or amplify premitotic subsidiary mother cell polarity.

  4. Peat, Thomas S.

    1. Crystal Structure of an Indole-3-Acetic Acid Amido Synthetase from Grapevine Involved in Auxin Homeostasis
      You have accessRestricted Access
      Crystal Structure of an Indole-3-Acetic Acid Amido Synthetase from Grapevine Involved in Auxin Homeostasis
      Thomas S. Peat, Christine Böttcher, Janet Newman, Del Lucent, Nathan Cowieson, Christopher Davies
      Plant Cell Nov 2012, 24 (11) 4525-4538; DOI: https://doi.org/10.1105/tpc.112.102921

      The crystal structure of an indole-3-acetic acid amido synthetase from Vitis vinifera involved in auxin homeostasis is presented. Residues likely to be involved in acyl group, amino acid, and ATP substrate binding have been identified, and this information provides a tool for designing new, effective auxins.

  5. Pecenkova, Tamara

    1. The Ubiquitin Ligase PUB22 Targets a Subunit of the Exocyst Complex Required for PAMP-Triggered Responses in <em>Arabidopsis</em>
      You have accessRestricted Access
      The Ubiquitin Ligase PUB22 Targets a Subunit of the Exocyst Complex Required for PAMP-Triggered Responses in Arabidopsis
      Martin Stegmann, Ryan G. Anderson, Kazuya Ichimura, Tamara Pecenkova, Patrick Reuter, Viktor Žárský, John M. McDowell, Ken Shirasu, Marco Trujillo
      Plant Cell Nov 2012, 24 (11) 4703-4716; DOI: https://doi.org/10.1105/tpc.112.104463

      Exo70B2, a subunit of the exocyst complex, which is involved in exocytosis, is targeted for degradation by the ubiquitin ligase PUB22 upon activation of the immune system. This work also reveals that Exo70B2 is required for the activation of PAMP-triggered responses.

  6. Pei, Weike

    1. FIMBRIN1 Is Involved in Lily Pollen Tube Growth by Stabilizing the Actin Fringe
      Open Access
      FIMBRIN1 Is Involved in Lily Pollen Tube Growth by Stabilizing the Actin Fringe
      Hui Su, Jinsheng Zhu, Chao Cai, Weike Pei, Jiaojiao Wang, Huaijian Dong, Haiyun Ren
      Plant Cell Nov 2012, 24 (11) 4539-4554; DOI: https://doi.org/10.1105/tpc.112.099358

      Fimbrin family proteins have long been known as actin binding proteins that regulate the formation of higher-order actin filament structures. FIM1, a fimbrin homolog from Lilium longiflorum, is found to cross-link actin microfilaments into bundles in vitro and is demonstrated to play important roles in the maintenance of the actin fringe in pollen tubes.

  7. Peña, Maria J.

    1. A Galacturonic Acid–Containing Xyloglucan Is Involved in <em>Arabidopsis</em> Root Hair Tip Growth
      You have accessRestricted Access
      A Galacturonic Acid–Containing Xyloglucan Is Involved in Arabidopsis Root Hair Tip Growth
      Maria J. Peña, Yingzhen Kong, William S. York, Malcolm A. O’Neill
      Plant Cell Nov 2012, 24 (11) 4511-4524; DOI: https://doi.org/10.1105/tpc.112.103390

      A unique galacturonic acidic–containing xyloglucan was identified in Arabidopsis root hair cell walls and characterized using genetic, biochemical, and chemical methods. Plants with a null mutation in a gene encoding a GT47 glycosyltransferase synthesize xyloglucan that lacks galacturonic acid and have short root hairs. These findings highlight a key role for acidic xyloglucan in root hair growth.

  8. Pérez-Pérez, María Esther

    1. Cysteine-Generated Sulfide in the Cytosol Negatively Regulates Autophagy and Modulates the Transcriptional Profile in <em>Arabidopsis</em>
      You have accessRestricted Access
      Cysteine-Generated Sulfide in the Cytosol Negatively Regulates Autophagy and Modulates the Transcriptional Profile in Arabidopsis
      Consolación Álvarez, Irene García, Inmaculada Moreno, María Esther Pérez-Pérez, José L. Crespo, Luis C. Romero, Cecilia Gotor
      Plant Cell Nov 2012, 24 (11) 4621-4634; DOI: https://doi.org/10.1105/tpc.112.105403

      This article highlights the role of hydrogen sulfide as a relevant signaling molecule in plants, of comparable importance as described in animals. This study shows the regulatory role of sulfide generated by the cytosolic l-Cys desulfhydrase 1 enzyme on autophagy in eukaryotes.

  9. Puchta, Holger

    1. In Planta Somatic Homologous Recombination Assay Revisited: A Successful and Versatile, but Delicate Tool
      You have accessRestricted Access
      In Planta Somatic Homologous Recombination Assay Revisited: A Successful and Versatile, but Delicate Tool
      Holger Puchta, Barbara Hohn
      Plant Cell Nov 2012, 24 (11) 4324-4331; DOI: https://doi.org/10.1105/tpc.112.101824
  10. Putterill, Joanna

    1. <em>NODULE ROOT</em> and <em>COCHLEATA</em> Maintain Nodule Development and Are Legume Orthologs of <em>Arabidopsis BLADE-ON-PETIOLE</em> Genes
      Open Access
      NODULE ROOT and COCHLEATA Maintain Nodule Development and Are Legume Orthologs of Arabidopsis BLADE-ON-PETIOLE Genes
      Jean-Malo Couzigou, Vladimir Zhukov, Samuel Mondy, Ghada Abu el Heba, Viviane Cosson, T.H. Noel Ellis, Mike Ambrose, Jiangqi Wen, Million Tadege, Igor Tikhonovich, Kirankumar S. Mysore, Joanna Putterill, Julie Hofer, Alexei Y. Borisov, Pascal Ratet
      Plant Cell Nov 2012, 24 (11) 4498-4510; DOI: https://doi.org/10.1105/tpc.112.103747

      Medicago truncatula NOOT and Pisum sativum COCH were found to maintain nodule identity during symbiotic interactions with rhizobia and were identified as orthologs of Arabidopsis BLADE-ON-PETIOLE genes, which are involved in leaf and flower development.

Q

  1. Qi, Xinpeng

    1. Genome-Wide Characterization of Nonreference Transposons Reveals Evolutionary Propensities of Transposons in Soybean
      You have accessRestricted Access
      Genome-Wide Characterization of Nonreference Transposons Reveals Evolutionary Propensities of Transposons in Soybean
      Zhixi Tian, Meixia Zhao, Maoyun She, Jianchang Du, Steven B. Cannon, Xin Liu, Xun Xu, Xinpeng Qi, Man-Wah Li, Hon-Ming Lam, Jianxin Ma
      Plant Cell Nov 2012, 24 (11) 4422-4436; DOI: https://doi.org/10.1105/tpc.112.103630

      The authors developed a strategy to identify putative transposon insertions that are present in a resequenced soybean population but absent in the soybean reference genome. Comparison of the distribution patterns of these elements and the patterns in the reference genome revealed evolutionary processes that reshaped the landscape of transposons after their integration in the host genome.

  2. Qin, Ruizhen

    1. Identification and Characterization of an Epi-Allele of <em>FIE1</em> Reveals a Regulatory Linkage between Two Epigenetic Marks in Rice
      Open Access
      Identification and Characterization of an Epi-Allele of FIE1 Reveals a Regulatory Linkage between Two Epigenetic Marks in Rice
      Liguo Zhang, Zhijun Cheng, Ruizhen Qin, Yang Qiu, Jiu-Lin Wang, Xiekui Cui, Lianfeng Gu, Xin Zhang, Xiuping Guo, Dan Wang, Ling Jiang, Chuan-yin Wu, Haiyang Wang, Xiaofeng Cao, Jianmin Wan
      Plant Cell Nov 2012, 24 (11) 4407-4421; DOI: https://doi.org/10.1105/tpc.112.102269

      This work identifies an epi-allele of rice Fertilization Independent Endosperm1 (FIE1) with DNA hypomethylation, reduced H3 Lys 9 dimethylation, increased H3 Lys 4 trimethylation, ectopic FIE1 expression, and loss imprinting, plus altered H3 Lys 27 trimethylation and perturbed expression of hundreds of genes. This suggests a regulatory link among these epigenetic marks.

  3. Qiu, Yang

    1. Identification and Characterization of an Epi-Allele of <em>FIE1</em> Reveals a Regulatory Linkage between Two Epigenetic Marks in Rice
      Open Access
      Identification and Characterization of an Epi-Allele of FIE1 Reveals a Regulatory Linkage between Two Epigenetic Marks in Rice
      Liguo Zhang, Zhijun Cheng, Ruizhen Qin, Yang Qiu, Jiu-Lin Wang, Xiekui Cui, Lianfeng Gu, Xin Zhang, Xiuping Guo, Dan Wang, Ling Jiang, Chuan-yin Wu, Haiyang Wang, Xiaofeng Cao, Jianmin Wan
      Plant Cell Nov 2012, 24 (11) 4407-4421; DOI: https://doi.org/10.1105/tpc.112.102269

      This work identifies an epi-allele of rice Fertilization Independent Endosperm1 (FIE1) with DNA hypomethylation, reduced H3 Lys 9 dimethylation, increased H3 Lys 4 trimethylation, ectopic FIE1 expression, and loss imprinting, plus altered H3 Lys 27 trimethylation and perturbed expression of hundreds of genes. This suggests a regulatory link among these epigenetic marks.

R

  1. Ratet, Pascal

    1. <em>NODULE ROOT</em> and <em>COCHLEATA</em> Maintain Nodule Development and Are Legume Orthologs of <em>Arabidopsis BLADE-ON-PETIOLE</em> Genes
      Open Access
      NODULE ROOT and COCHLEATA Maintain Nodule Development and Are Legume Orthologs of Arabidopsis BLADE-ON-PETIOLE Genes
      Jean-Malo Couzigou, Vladimir Zhukov, Samuel Mondy, Ghada Abu el Heba, Viviane Cosson, T.H. Noel Ellis, Mike Ambrose, Jiangqi Wen, Million Tadege, Igor Tikhonovich, Kirankumar S. Mysore, Joanna Putterill, Julie Hofer, Alexei Y. Borisov, Pascal Ratet
      Plant Cell Nov 2012, 24 (11) 4498-4510; DOI: https://doi.org/10.1105/tpc.112.103747

      Medicago truncatula NOOT and Pisum sativum COCH were found to maintain nodule identity during symbiotic interactions with rhizobia and were identified as orthologs of Arabidopsis BLADE-ON-PETIOLE genes, which are involved in leaf and flower development.

  2. Rätsch, Gunnar

    1. Polypyrimidine Tract Binding Protein Homologs from <em>Arabidopsis</em> Are Key Regulators of Alternative Splicing with Implications in Fundamental Developmental Processes
      You have accessRestricted Access
      Polypyrimidine Tract Binding Protein Homologs from Arabidopsis Are Key Regulators of Alternative Splicing with Implications in Fundamental Developmental Processes
      Christina Rühl, Eva Stauffer, André Kahles, Gabriele Wagner, Gabriele Drechsel, Gunnar Rätsch, Andreas Wachter
      Plant Cell Nov 2012, 24 (11) 4360-4375; DOI: https://doi.org/10.1105/tpc.112.103622

      Alternative precursor mRNA splicing massively expands the transcriptome diversity in higher eukaryotes. In this report, we describe Arabidopsis Polypyrimidine tract binding protein homologs as critical components of the plant splicing code and provide links between regulated alternative splicing events and seed germination as well as flowering time control.

  3. Ren, Haiyun

    1. FIMBRIN1 Is Involved in Lily Pollen Tube Growth by Stabilizing the Actin Fringe
      Open Access
      FIMBRIN1 Is Involved in Lily Pollen Tube Growth by Stabilizing the Actin Fringe
      Hui Su, Jinsheng Zhu, Chao Cai, Weike Pei, Jiaojiao Wang, Huaijian Dong, Haiyun Ren
      Plant Cell Nov 2012, 24 (11) 4539-4554; DOI: https://doi.org/10.1105/tpc.112.099358

      Fimbrin family proteins have long been known as actin binding proteins that regulate the formation of higher-order actin filament structures. FIM1, a fimbrin homolog from Lilium longiflorum, is found to cross-link actin microfilaments into bundles in vitro and is demonstrated to play important roles in the maintenance of the actin fringe in pollen tubes.

  4. Renault, Hugues

    1. Protein–Protein and Protein–Membrane Associations in the Lignin Pathway
      Open Access
      Protein–Protein and Protein–Membrane Associations in the Lignin Pathway
      Jean-Etienne Bassard, Ludovic Richert, Jan Geerinck, Hugues Renault, Frédéric Duval, Pascaline Ullmann, Martine Schmitt, Etienne Meyer, Jerôme Mutterer, Wout Boerjan, Geert De Jaeger, Yves Mely, Alain Goossens, Danièle Werck-Reichhart
      Plant Cell Nov 2012, 24 (11) 4465-4482; DOI: https://doi.org/10.1105/tpc.112.102566

      Analysis of the supramolecular organization of enzymes in the lignin pathway shows that cytochrome P450s oligomerize and move along with the very mobile plant endoplasmic reticulum. Their expression favors relocalization of their soluble partner proteins nearer the membrane and association of sequential enzymes in the pathway.

  5. Reuter, Patrick

    1. The Ubiquitin Ligase PUB22 Targets a Subunit of the Exocyst Complex Required for PAMP-Triggered Responses in <em>Arabidopsis</em>
      You have accessRestricted Access
      The Ubiquitin Ligase PUB22 Targets a Subunit of the Exocyst Complex Required for PAMP-Triggered Responses in Arabidopsis
      Martin Stegmann, Ryan G. Anderson, Kazuya Ichimura, Tamara Pecenkova, Patrick Reuter, Viktor Žárský, John M. McDowell, Ken Shirasu, Marco Trujillo
      Plant Cell Nov 2012, 24 (11) 4703-4716; DOI: https://doi.org/10.1105/tpc.112.104463

      Exo70B2, a subunit of the exocyst complex, which is involved in exocytosis, is targeted for degradation by the ubiquitin ligase PUB22 upon activation of the immune system. This work also reveals that Exo70B2 is required for the activation of PAMP-triggered responses.

  6. Richert, Ludovic

    1. Protein–Protein and Protein–Membrane Associations in the Lignin Pathway
      Open Access
      Protein–Protein and Protein–Membrane Associations in the Lignin Pathway
      Jean-Etienne Bassard, Ludovic Richert, Jan Geerinck, Hugues Renault, Frédéric Duval, Pascaline Ullmann, Martine Schmitt, Etienne Meyer, Jerôme Mutterer, Wout Boerjan, Geert De Jaeger, Yves Mely, Alain Goossens, Danièle Werck-Reichhart
      Plant Cell Nov 2012, 24 (11) 4465-4482; DOI: https://doi.org/10.1105/tpc.112.102566

      Analysis of the supramolecular organization of enzymes in the lignin pathway shows that cytochrome P450s oligomerize and move along with the very mobile plant endoplasmic reticulum. Their expression favors relocalization of their soluble partner proteins nearer the membrane and association of sequential enzymes in the pathway.

  7. Romero, Luis C.

    1. Cysteine-Generated Sulfide in the Cytosol Negatively Regulates Autophagy and Modulates the Transcriptional Profile in <em>Arabidopsis</em>
      You have accessRestricted Access
      Cysteine-Generated Sulfide in the Cytosol Negatively Regulates Autophagy and Modulates the Transcriptional Profile in Arabidopsis
      Consolación Álvarez, Irene García, Inmaculada Moreno, María Esther Pérez-Pérez, José L. Crespo, Luis C. Romero, Cecilia Gotor
      Plant Cell Nov 2012, 24 (11) 4621-4634; DOI: https://doi.org/10.1105/tpc.112.105403

      This article highlights the role of hydrogen sulfide as a relevant signaling molecule in plants, of comparable importance as described in animals. This study shows the regulatory role of sulfide generated by the cytosolic l-Cys desulfhydrase 1 enzyme on autophagy in eukaryotes.

  8. Rossetto, Priscilla de Barros

    1. The Tomato FRUITFULL Homologs TDR4/FUL1 and MBP7/FUL2 Regulate Ethylene-Independent Aspects of Fruit Ripening
      You have accessRestricted Access
      The Tomato FRUITFULL Homologs TDR4/FUL1 and MBP7/FUL2 Regulate Ethylene-Independent Aspects of Fruit Ripening
      Marian Bemer, Rumyana Karlova, Ana Rosa Ballester, Yury M. Tikunov, Arnaud G. Bovy, Mieke Wolters-Arts, Priscilla de Barros Rossetto, Gerco C. Angenent, Ruud A. de Maagd
      Plant Cell Nov 2012, 24 (11) 4437-4451; DOI: https://doi.org/10.1105/tpc.112.103283

      Ripening of the tomato fruit is accompanied by an increase in ethylene production and involves color changes, altered sugar metabolism, tissue softening, and the synthesis of aroma volatiles. This study shows that the MADS domain transcription factors FUL1 and FUL2 play a role in the regulation of these ripening processes, but in an ethylene-independent manner.

  9. Rottmann, Theresa

    1. Phototropin Influence on Eyespot Development and Regulation of Phototactic Behavior in <em>Chlamydomonas reinhardtii</em>
      You have accessRestricted Access
      Phototropin Influence on Eyespot Development and Regulation of Phototactic Behavior in Chlamydomonas reinhardtii
      Jessica Trippens, Andre Greiner, Jana Schellwat, Martin Neukam, Theresa Rottmann, Yinghong Lu, Suneel Kateriya, Peter Hegemann, Georg Kreimer
      Plant Cell Nov 2012, 24 (11) 4687-4702; DOI: https://doi.org/10.1105/tpc.112.103523

      This study shows that an eyespot is a dynamic organelle and that the blue light photoreceptor phototropin is involved in the regulation of eyespot size and level of channelrhodopsin 1, which is the primary photoreceptor for photo-movement responses. This work also describes that, in addition to the C-terminal kinase domain, the N-terminal photoreceptor domains have independent signaling functions.

  10. Rühl, Christina

    1. Polypyrimidine Tract Binding Protein Homologs from <em>Arabidopsis</em> Are Key Regulators of Alternative Splicing with Implications in Fundamental Developmental Processes
      You have accessRestricted Access
      Polypyrimidine Tract Binding Protein Homologs from Arabidopsis Are Key Regulators of Alternative Splicing with Implications in Fundamental Developmental Processes
      Christina Rühl, Eva Stauffer, André Kahles, Gabriele Wagner, Gabriele Drechsel, Gunnar Rätsch, Andreas Wachter
      Plant Cell Nov 2012, 24 (11) 4360-4375; DOI: https://doi.org/10.1105/tpc.112.103622

      Alternative precursor mRNA splicing massively expands the transcriptome diversity in higher eukaryotes. In this report, we describe Arabidopsis Polypyrimidine tract binding protein homologs as critical components of the plant splicing code and provide links between regulated alternative splicing events and seed germination as well as flowering time control.

S

  1. Schellwat, Jana

    1. Phototropin Influence on Eyespot Development and Regulation of Phototactic Behavior in <em>Chlamydomonas reinhardtii</em>
      You have accessRestricted Access
      Phototropin Influence on Eyespot Development and Regulation of Phototactic Behavior in Chlamydomonas reinhardtii
      Jessica Trippens, Andre Greiner, Jana Schellwat, Martin Neukam, Theresa Rottmann, Yinghong Lu, Suneel Kateriya, Peter Hegemann, Georg Kreimer
      Plant Cell Nov 2012, 24 (11) 4687-4702; DOI: https://doi.org/10.1105/tpc.112.103523

      This study shows that an eyespot is a dynamic organelle and that the blue light photoreceptor phototropin is involved in the regulation of eyespot size and level of channelrhodopsin 1, which is the primary photoreceptor for photo-movement responses. This work also describes that, in addition to the C-terminal kinase domain, the N-terminal photoreceptor domains have independent signaling functions.

  2. Schmitt, Martine

    1. Protein–Protein and Protein–Membrane Associations in the Lignin Pathway
      Open Access
      Protein–Protein and Protein–Membrane Associations in the Lignin Pathway
      Jean-Etienne Bassard, Ludovic Richert, Jan Geerinck, Hugues Renault, Frédéric Duval, Pascaline Ullmann, Martine Schmitt, Etienne Meyer, Jerôme Mutterer, Wout Boerjan, Geert De Jaeger, Yves Mely, Alain Goossens, Danièle Werck-Reichhart
      Plant Cell Nov 2012, 24 (11) 4465-4482; DOI: https://doi.org/10.1105/tpc.112.102566

      Analysis of the supramolecular organization of enzymes in the lignin pathway shows that cytochrome P450s oligomerize and move along with the very mobile plant endoplasmic reticulum. Their expression favors relocalization of their soluble partner proteins nearer the membrane and association of sequential enzymes in the pathway.

  3. Sears, Barbara B.

    1. A Galactoglycerolipid Lipase Is Required for Triacylglycerol Accumulation and Survival Following Nitrogen Deprivation in <em>Chlamydomonas reinhardtii</em>
      You have accessRestricted Access
      A Galactoglycerolipid Lipase Is Required for Triacylglycerol Accumulation and Survival Following Nitrogen Deprivation in Chlamydomonas reinhardtii
      Xiaobo Li, Eric R. Moellering, Bensheng Liu, Cassandra Johnny, Marie Fedewa, Barbara B. Sears, Min-Hao Kuo, Christoph Benning
      Plant Cell Nov 2012, 24 (11) 4670-4686; DOI: https://doi.org/10.1105/tpc.112.105106

      A mutant of Chlamydomonas reinhardtii with impaired oil accumulation is shown to be deficient in a lipase with specificity for newly assembled monogalactolipids. Passage of fatty acids synthesized in the chloroplast through a transient chloroplast membrane lipid pool into triacylglycerols is proposed. A role of oil biosynthesis for survival following nutrient deprivation is demonstrated.

  4. Shamir, Ron

    1. The MORPH Algorithm: Ranking Candidate Genes for Membership in <em>Arabidopsis</em> and Tomato Pathways
      You have accessRestricted Access
      The MORPH Algorithm: Ranking Candidate Genes for Membership in Arabidopsis and Tomato Pathways
      Oren Tzfadia, David Amar, Louis M.T. Bradbury, Eleanore T. Wurtzel, Ron Shamir
      Plant Cell Nov 2012, 24 (11) 4389-4406; DOI: https://doi.org/10.1105/tpc.112.104513

      A fundamental challenge in plant biology is to discover the unknown connections within and between pathways and to associate previously unknown genes with specific biological processes. MORPH is a computational method for predicting genes that function in or regulate a biological pathway. MORPH fills pathway gaps and defines complex biological networks as shown for Arabidopsis and tomato.

  5. She, Maoyun

    1. Genome-Wide Characterization of Nonreference Transposons Reveals Evolutionary Propensities of Transposons in Soybean
      You have accessRestricted Access
      Genome-Wide Characterization of Nonreference Transposons Reveals Evolutionary Propensities of Transposons in Soybean
      Zhixi Tian, Meixia Zhao, Maoyun She, Jianchang Du, Steven B. Cannon, Xin Liu, Xun Xu, Xinpeng Qi, Man-Wah Li, Hon-Ming Lam, Jianxin Ma
      Plant Cell Nov 2012, 24 (11) 4422-4436; DOI: https://doi.org/10.1105/tpc.112.103630

      The authors developed a strategy to identify putative transposon insertions that are present in a resequenced soybean population but absent in the soybean reference genome. Comparison of the distribution patterns of these elements and the patterns in the reference genome revealed evolutionary processes that reshaped the landscape of transposons after their integration in the host genome.

  6. Shen, Wenyun

    1. Metabolic Interactions between the Lands Cycle and the Kennedy Pathway of Glycerolipid Synthesis in <em>Arabidopsis</em> Developing Seeds
      You have accessRestricted Access
      Metabolic Interactions between the Lands Cycle and the Kennedy Pathway of Glycerolipid Synthesis in Arabidopsis Developing Seeds
      Liping Wang, Wenyun Shen, Michael Kazachkov, Guanqun Chen, Qilin Chen, Anders S. Carlsson, Sten Stymne, Randall J. Weselake, Jitao Zou
      Plant Cell Nov 2012, 24 (11) 4652-4669; DOI: https://doi.org/10.1105/tpc.112.104604

      The Kennedy pathway and the Lands cycle are two principal metabolic modules of glycerolipid metabolism. This work examines the crosstalk of these two pathways and shows that loss of Lands cycle activity leads to an enhanced de novo phosphatidylcholine PC synthesis through the Kennedy pathway and PC turnover in Arabidopsis developing seeds.

  7. Shen, Zhouxin

    1. Identification of PAN2 by Quantitative Proteomics as a Leucine-Rich Repeat–Receptor-Like Kinase Acting Upstream of PAN1 to Polarize Cell Division in Maize
      Open Access
      Identification of PAN2 by Quantitative Proteomics as a Leucine-Rich Repeat–Receptor-Like Kinase Acting Upstream of PAN1 to Polarize Cell Division in Maize
      Xiaoguo Zhang, Michelle Facette, John A. Humphries, Zhouxin Shen, Yeri Park, Dena Sutimantanapi, Anne W. Sylvester, Steven P. Briggs, Laurie G. Smith
      Plant Cell Nov 2012, 24 (11) 4577-4589; DOI: https://doi.org/10.1105/tpc.112.104125

      PAN2 functions with PAN1, a Leu-rich repeat–receptor-like kinase (LRR-RLK) to polarize the divisions that form stomatal subsidiary cells in maize. Quantitative proteomics was used to identify PAN2 as a second LRR-RLK. PAN2 functions upstream of PAN1, potentially perceiving extracellular cues that initiate or amplify premitotic subsidiary mother cell polarity.

  8. Shi, Yuan Zhi

    1. <em>XTH31,</em> Encoding an in Vitro XEH/XET-Active Enzyme, Regulates Aluminum Sensitivity by Modulating in Vivo XET Action, Cell Wall Xyloglucan Content, and Aluminum Binding Capacity in <em>Arabidopsis</em>
      You have accessRestricted Access
      XTH31, Encoding an in Vitro XEH/XET-Active Enzyme, Regulates Aluminum Sensitivity by Modulating in Vivo XET Action, Cell Wall Xyloglucan Content, and Aluminum Binding Capacity in Arabidopsis
      Xiao Fang Zhu, Yuan Zhi Shi, Gui Jie Lei, Stephen C. Fry, Bao Cai Zhang, Yi Hua Zhou, Janet Braam, Tao Jiang, Xiao Yan Xu, Chuan Zao Mao, Yuan Jiang Pan, Jian Li Yang, Ping Wu, Shao Jian Zheng
      Plant Cell Nov 2012, 24 (11) 4731-4747; DOI: https://doi.org/10.1105/tpc.112.106039

      Hemicellulose can retain a large amount of Al. This study demonstrates that an important component of hemicellulose, xyloglucan, can bind Al, and knockout of XTH31 increases Al resistance in Arabidopsis by decreasing xyloglucan endotransglucosylase action and the accumulation of xyloglucan in hemicellulose, which in turn reduces the retention of Al in the cell wall, thus excluding Al from roots.

  9. Shirasu, Ken

    1. The Ubiquitin Ligase PUB22 Targets a Subunit of the Exocyst Complex Required for PAMP-Triggered Responses in <em>Arabidopsis</em>
      You have accessRestricted Access
      The Ubiquitin Ligase PUB22 Targets a Subunit of the Exocyst Complex Required for PAMP-Triggered Responses in Arabidopsis
      Martin Stegmann, Ryan G. Anderson, Kazuya Ichimura, Tamara Pecenkova, Patrick Reuter, Viktor Žárský, John M. McDowell, Ken Shirasu, Marco Trujillo
      Plant Cell Nov 2012, 24 (11) 4703-4716; DOI: https://doi.org/10.1105/tpc.112.104463

      Exo70B2, a subunit of the exocyst complex, which is involved in exocytosis, is targeted for degradation by the ubiquitin ligase PUB22 upon activation of the immune system. This work also reveals that Exo70B2 is required for the activation of PAMP-triggered responses.

  10. Shirsekar, Gautam

    1. The <em>Magnaporthe oryzae</em> Effector AvrPiz-t Targets the RING E3 Ubiquitin Ligase APIP6 to Suppress Pathogen-Associated Molecular Pattern–Triggered Immunity in Rice
      Open Access
      The Magnaporthe oryzae Effector AvrPiz-t Targets the RING E3 Ubiquitin Ligase APIP6 to Suppress Pathogen-Associated Molecular Pattern–Triggered Immunity in Rice
      Chan-Ho Park, Songbiao Chen, Gautam Shirsekar, Bo Zhou, Chang Hyun Khang, Pattavipha Songkumarn, Ahmed J. Afzal, Yuese Ning, Ruyi Wang, Maria Bellizzi, Barbara Valent, Guo-Liang Wang
      Plant Cell Nov 2012, 24 (11) 4748-4762; DOI: https://doi.org/10.1105/tpc.112.105429

      This work shows that the Magnaporthe oryzae effector AvrPiz-t enters into rice cells to target the RING E3 ubiquitin ligase APIP6 for suppression of PAMP-triggered immunity in rice. It also describes that APIP6 degrades AvrPiz-t in planta and positively regulates basal defense to M. oryzae.

  11. Smith, Laurie G.

    1. Identification of PAN2 by Quantitative Proteomics as a Leucine-Rich Repeat–Receptor-Like Kinase Acting Upstream of PAN1 to Polarize Cell Division in Maize
      Open Access
      Identification of PAN2 by Quantitative Proteomics as a Leucine-Rich Repeat–Receptor-Like Kinase Acting Upstream of PAN1 to Polarize Cell Division in Maize
      Xiaoguo Zhang, Michelle Facette, John A. Humphries, Zhouxin Shen, Yeri Park, Dena Sutimantanapi, Anne W. Sylvester, Steven P. Briggs, Laurie G. Smith
      Plant Cell Nov 2012, 24 (11) 4577-4589; DOI: https://doi.org/10.1105/tpc.112.104125

      PAN2 functions with PAN1, a Leu-rich repeat–receptor-like kinase (LRR-RLK) to polarize the divisions that form stomatal subsidiary cells in maize. Quantitative proteomics was used to identify PAN2 as a second LRR-RLK. PAN2 functions upstream of PAN1, potentially perceiving extracellular cues that initiate or amplify premitotic subsidiary mother cell polarity.

  12. Songkumarn, Pattavipha

    1. The <em>Magnaporthe oryzae</em> Effector AvrPiz-t Targets the RING E3 Ubiquitin Ligase APIP6 to Suppress Pathogen-Associated Molecular Pattern–Triggered Immunity in Rice
      Open Access
      The Magnaporthe oryzae Effector AvrPiz-t Targets the RING E3 Ubiquitin Ligase APIP6 to Suppress Pathogen-Associated Molecular Pattern–Triggered Immunity in Rice
      Chan-Ho Park, Songbiao Chen, Gautam Shirsekar, Bo Zhou, Chang Hyun Khang, Pattavipha Songkumarn, Ahmed J. Afzal, Yuese Ning, Ruyi Wang, Maria Bellizzi, Barbara Valent, Guo-Liang Wang
      Plant Cell Nov 2012, 24 (11) 4748-4762; DOI: https://doi.org/10.1105/tpc.112.105429

      This work shows that the Magnaporthe oryzae effector AvrPiz-t enters into rice cells to target the RING E3 ubiquitin ligase APIP6 for suppression of PAMP-triggered immunity in rice. It also describes that APIP6 degrades AvrPiz-t in planta and positively regulates basal defense to M. oryzae.

  13. Srivastava, Renu

    1. Degradation of the Endoplasmic Reticulum by Autophagy during Endoplasmic Reticulum Stress in <em>Arabidopsis</em>
      You have accessRestricted Access
      Degradation of the Endoplasmic Reticulum by Autophagy during Endoplasmic Reticulum Stress in Arabidopsis
      Yimo Liu, Junmarie Soto Burgos, Yan Deng, Renu Srivastava, Stephen H. Howell, Diane C. Bassham
      Plant Cell Nov 2012, 24 (11) 4635-4651; DOI: https://doi.org/10.1105/tpc.112.101535

      Upon accumulation of unfolded proteins in the endoplasmic reticulum (ER), cells activate an ER stress response to enable plants to tolerate these conditions. This work shows that one facet of this response is the activation of the autophagy pathway for degradation of ER fragments in the vacuole, which is regulated by the IRE1b splicing factor.

  14. Stauffer, Eva

    1. Polypyrimidine Tract Binding Protein Homologs from <em>Arabidopsis</em> Are Key Regulators of Alternative Splicing with Implications in Fundamental Developmental Processes
      You have accessRestricted Access
      Polypyrimidine Tract Binding Protein Homologs from Arabidopsis Are Key Regulators of Alternative Splicing with Implications in Fundamental Developmental Processes
      Christina Rühl, Eva Stauffer, André Kahles, Gabriele Wagner, Gabriele Drechsel, Gunnar Rätsch, Andreas Wachter
      Plant Cell Nov 2012, 24 (11) 4360-4375; DOI: https://doi.org/10.1105/tpc.112.103622

      Alternative precursor mRNA splicing massively expands the transcriptome diversity in higher eukaryotes. In this report, we describe Arabidopsis Polypyrimidine tract binding protein homologs as critical components of the plant splicing code and provide links between regulated alternative splicing events and seed germination as well as flowering time control.

  15. Stegmann, Martin

    1. The Ubiquitin Ligase PUB22 Targets a Subunit of the Exocyst Complex Required for PAMP-Triggered Responses in <em>Arabidopsis</em>
      You have accessRestricted Access
      The Ubiquitin Ligase PUB22 Targets a Subunit of the Exocyst Complex Required for PAMP-Triggered Responses in Arabidopsis
      Martin Stegmann, Ryan G. Anderson, Kazuya Ichimura, Tamara Pecenkova, Patrick Reuter, Viktor Žárský, John M. McDowell, Ken Shirasu, Marco Trujillo
      Plant Cell Nov 2012, 24 (11) 4703-4716; DOI: https://doi.org/10.1105/tpc.112.104463

      Exo70B2, a subunit of the exocyst complex, which is involved in exocytosis, is targeted for degradation by the ubiquitin ligase PUB22 upon activation of the immune system. This work also reveals that Exo70B2 is required for the activation of PAMP-triggered responses.

  16. Stymne, Sten

    1. Metabolic Interactions between the Lands Cycle and the Kennedy Pathway of Glycerolipid Synthesis in <em>Arabidopsis</em> Developing Seeds
      You have accessRestricted Access
      Metabolic Interactions between the Lands Cycle and the Kennedy Pathway of Glycerolipid Synthesis in Arabidopsis Developing Seeds
      Liping Wang, Wenyun Shen, Michael Kazachkov, Guanqun Chen, Qilin Chen, Anders S. Carlsson, Sten Stymne, Randall J. Weselake, Jitao Zou
      Plant Cell Nov 2012, 24 (11) 4652-4669; DOI: https://doi.org/10.1105/tpc.112.104604

      The Kennedy pathway and the Lands cycle are two principal metabolic modules of glycerolipid metabolism. This work examines the crosstalk of these two pathways and shows that loss of Lands cycle activity leads to an enhanced de novo phosphatidylcholine PC synthesis through the Kennedy pathway and PC turnover in Arabidopsis developing seeds.

  17. Su, Hui

    1. FIMBRIN1 Is Involved in Lily Pollen Tube Growth by Stabilizing the Actin Fringe
      Open Access
      FIMBRIN1 Is Involved in Lily Pollen Tube Growth by Stabilizing the Actin Fringe
      Hui Su, Jinsheng Zhu, Chao Cai, Weike Pei, Jiaojiao Wang, Huaijian Dong, Haiyun Ren
      Plant Cell Nov 2012, 24 (11) 4539-4554; DOI: https://doi.org/10.1105/tpc.112.099358

      Fimbrin family proteins have long been known as actin binding proteins that regulate the formation of higher-order actin filament structures. FIM1, a fimbrin homolog from Lilium longiflorum, is found to cross-link actin microfilaments into bundles in vitro and is demonstrated to play important roles in the maintenance of the actin fringe in pollen tubes.

  18. Sutimantanapi, Dena

    1. Identification of PAN2 by Quantitative Proteomics as a Leucine-Rich Repeat–Receptor-Like Kinase Acting Upstream of PAN1 to Polarize Cell Division in Maize
      Open Access
      Identification of PAN2 by Quantitative Proteomics as a Leucine-Rich Repeat–Receptor-Like Kinase Acting Upstream of PAN1 to Polarize Cell Division in Maize
      Xiaoguo Zhang, Michelle Facette, John A. Humphries, Zhouxin Shen, Yeri Park, Dena Sutimantanapi, Anne W. Sylvester, Steven P. Briggs, Laurie G. Smith
      Plant Cell Nov 2012, 24 (11) 4577-4589; DOI: https://doi.org/10.1105/tpc.112.104125

      PAN2 functions with PAN1, a Leu-rich repeat–receptor-like kinase (LRR-RLK) to polarize the divisions that form stomatal subsidiary cells in maize. Quantitative proteomics was used to identify PAN2 as a second LRR-RLK. PAN2 functions upstream of PAN1, potentially perceiving extracellular cues that initiate or amplify premitotic subsidiary mother cell polarity.

  19. Sylvester, Anne W.

    1. Identification of PAN2 by Quantitative Proteomics as a Leucine-Rich Repeat–Receptor-Like Kinase Acting Upstream of PAN1 to Polarize Cell Division in Maize
      Open Access
      Identification of PAN2 by Quantitative Proteomics as a Leucine-Rich Repeat–Receptor-Like Kinase Acting Upstream of PAN1 to Polarize Cell Division in Maize
      Xiaoguo Zhang, Michelle Facette, John A. Humphries, Zhouxin Shen, Yeri Park, Dena Sutimantanapi, Anne W. Sylvester, Steven P. Briggs, Laurie G. Smith
      Plant Cell Nov 2012, 24 (11) 4577-4589; DOI: https://doi.org/10.1105/tpc.112.104125

      PAN2 functions with PAN1, a Leu-rich repeat–receptor-like kinase (LRR-RLK) to polarize the divisions that form stomatal subsidiary cells in maize. Quantitative proteomics was used to identify PAN2 as a second LRR-RLK. PAN2 functions upstream of PAN1, potentially perceiving extracellular cues that initiate or amplify premitotic subsidiary mother cell polarity.

T

  1. Tadege, Million

    1. <em>NODULE ROOT</em> and <em>COCHLEATA</em> Maintain Nodule Development and Are Legume Orthologs of <em>Arabidopsis BLADE-ON-PETIOLE</em> Genes
      Open Access
      NODULE ROOT and COCHLEATA Maintain Nodule Development and Are Legume Orthologs of Arabidopsis BLADE-ON-PETIOLE Genes
      Jean-Malo Couzigou, Vladimir Zhukov, Samuel Mondy, Ghada Abu el Heba, Viviane Cosson, T.H. Noel Ellis, Mike Ambrose, Jiangqi Wen, Million Tadege, Igor Tikhonovich, Kirankumar S. Mysore, Joanna Putterill, Julie Hofer, Alexei Y. Borisov, Pascal Ratet
      Plant Cell Nov 2012, 24 (11) 4498-4510; DOI: https://doi.org/10.1105/tpc.112.103747

      Medicago truncatula NOOT and Pisum sativum COCH were found to maintain nodule identity during symbiotic interactions with rhizobia and were identified as orthologs of Arabidopsis BLADE-ON-PETIOLE genes, which are involved in leaf and flower development.

  2. Tharmapalan, Pirashaanthy

    1. The <em>ARC1</em> E3 Ligase Gene Is Frequently Deleted in Self-Compatible Brassicaceae Species and Has a Conserved Role in <em>Arabidopsis lyrata</em> Self-Pollen Rejection
      You have accessRestricted Access
      The ARC1 E3 Ligase Gene Is Frequently Deleted in Self-Compatible Brassicaceae Species and Has a Conserved Role in Arabidopsis lyrata Self-Pollen Rejection
      Emily Indriolo, Pirashaanthy Tharmapalan, Stephen I. Wright, Daphne R. Goring
      Plant Cell Nov 2012, 24 (11) 4607-4620; DOI: https://doi.org/10.1105/tpc.112.104943

      The ARC1 E3 ubiquitin ligase was previously shown to be required for self-pollen rejection in Brassica, and this report shows that its function is conserved in other Brassicaceae species. ARC1 was found to be required for self-pollen rejection in Arabidopsis lyrata and was frequently deleted in genomes of Brassicaceae species that had lost this self-incompatibility trait.

  3. Thomas, Patrick E.

    1. Genome-Wide Control of Polyadenylation Site Choice by CPSF30 in <em>Arabidopsis</em>
      Open Access
      Genome-Wide Control of Polyadenylation Site Choice by CPSF30 in Arabidopsis
      Patrick E. Thomas, Xiaohui Wu, Man Liu, Bobby Gaffney, Guoli Ji, Qingshun Q. Li, Arthur G. Hunt
      Plant Cell Nov 2012, 24 (11) 4376-4388; DOI: https://doi.org/10.1105/tpc.112.096107

      This work shows that poly(A) site choice is affected in 45% or more of all genes in an Arabidopsis thaliana mutant that lacks a core polyadenylation factor subunit and that a novel poly(A) signal exists that can function in the absence of the affected protein. These results provide new insight into mechanisms of alternative polyadenylation in plants.

  4. Thomas, Stefan

    1. Reevaluation of the Reliability and Usefulness of the Somatic Homologous Recombination Reporter Lines
      You have accessRestricted Access
      Reevaluation of the Reliability and Usefulness of the Somatic Homologous Recombination Reporter Lines
      Bekir Ülker, Carl Maximilian Hommelsheim, Tobias Berson, Stefan Thomas, Balakumaran Chandrasekar, Ahmet Can Olcay, Kenneth Wayne Berendzen, Lamprinos Frantzeskakis
      Plant Cell Nov 2012, 24 (11) 4314-4323; DOI: https://doi.org/10.1105/tpc.112.100404
  5. Tian, Zhixi

    1. Genome-Wide Characterization of Nonreference Transposons Reveals Evolutionary Propensities of Transposons in Soybean
      You have accessRestricted Access
      Genome-Wide Characterization of Nonreference Transposons Reveals Evolutionary Propensities of Transposons in Soybean
      Zhixi Tian, Meixia Zhao, Maoyun She, Jianchang Du, Steven B. Cannon, Xin Liu, Xun Xu, Xinpeng Qi, Man-Wah Li, Hon-Ming Lam, Jianxin Ma
      Plant Cell Nov 2012, 24 (11) 4422-4436; DOI: https://doi.org/10.1105/tpc.112.103630

      The authors developed a strategy to identify putative transposon insertions that are present in a resequenced soybean population but absent in the soybean reference genome. Comparison of the distribution patterns of these elements and the patterns in the reference genome revealed evolutionary processes that reshaped the landscape of transposons after their integration in the host genome.

  6. Tikhonovich, Igor

    1. <em>NODULE ROOT</em> and <em>COCHLEATA</em> Maintain Nodule Development and Are Legume Orthologs of <em>Arabidopsis BLADE-ON-PETIOLE</em> Genes
      Open Access
      NODULE ROOT and COCHLEATA Maintain Nodule Development and Are Legume Orthologs of Arabidopsis BLADE-ON-PETIOLE Genes
      Jean-Malo Couzigou, Vladimir Zhukov, Samuel Mondy, Ghada Abu el Heba, Viviane Cosson, T.H. Noel Ellis, Mike Ambrose, Jiangqi Wen, Million Tadege, Igor Tikhonovich, Kirankumar S. Mysore, Joanna Putterill, Julie Hofer, Alexei Y. Borisov, Pascal Ratet
      Plant Cell Nov 2012, 24 (11) 4498-4510; DOI: https://doi.org/10.1105/tpc.112.103747

      Medicago truncatula NOOT and Pisum sativum COCH were found to maintain nodule identity during symbiotic interactions with rhizobia and were identified as orthologs of Arabidopsis BLADE-ON-PETIOLE genes, which are involved in leaf and flower development.

  7. Tikunov, Yury M.

    1. The Tomato FRUITFULL Homologs TDR4/FUL1 and MBP7/FUL2 Regulate Ethylene-Independent Aspects of Fruit Ripening
      You have accessRestricted Access
      The Tomato FRUITFULL Homologs TDR4/FUL1 and MBP7/FUL2 Regulate Ethylene-Independent Aspects of Fruit Ripening
      Marian Bemer, Rumyana Karlova, Ana Rosa Ballester, Yury M. Tikunov, Arnaud G. Bovy, Mieke Wolters-Arts, Priscilla de Barros Rossetto, Gerco C. Angenent, Ruud A. de Maagd
      Plant Cell Nov 2012, 24 (11) 4437-4451; DOI: https://doi.org/10.1105/tpc.112.103283

      Ripening of the tomato fruit is accompanied by an increase in ethylene production and involves color changes, altered sugar metabolism, tissue softening, and the synthesis of aroma volatiles. This study shows that the MADS domain transcription factors FUL1 and FUL2 play a role in the regulation of these ripening processes, but in an ethylene-independent manner.

  8. Trippens, Jessica

    1. Phototropin Influence on Eyespot Development and Regulation of Phototactic Behavior in <em>Chlamydomonas reinhardtii</em>
      You have accessRestricted Access
      Phototropin Influence on Eyespot Development and Regulation of Phototactic Behavior in Chlamydomonas reinhardtii
      Jessica Trippens, Andre Greiner, Jana Schellwat, Martin Neukam, Theresa Rottmann, Yinghong Lu, Suneel Kateriya, Peter Hegemann, Georg Kreimer
      Plant Cell Nov 2012, 24 (11) 4687-4702; DOI: https://doi.org/10.1105/tpc.112.103523

      This study shows that an eyespot is a dynamic organelle and that the blue light photoreceptor phototropin is involved in the regulation of eyespot size and level of channelrhodopsin 1, which is the primary photoreceptor for photo-movement responses. This work also describes that, in addition to the C-terminal kinase domain, the N-terminal photoreceptor domains have independent signaling functions.

  9. Trujillo, Marco

    1. The Ubiquitin Ligase PUB22 Targets a Subunit of the Exocyst Complex Required for PAMP-Triggered Responses in <em>Arabidopsis</em>
      You have accessRestricted Access
      The Ubiquitin Ligase PUB22 Targets a Subunit of the Exocyst Complex Required for PAMP-Triggered Responses in Arabidopsis
      Martin Stegmann, Ryan G. Anderson, Kazuya Ichimura, Tamara Pecenkova, Patrick Reuter, Viktor Žárský, John M. McDowell, Ken Shirasu, Marco Trujillo
      Plant Cell Nov 2012, 24 (11) 4703-4716; DOI: https://doi.org/10.1105/tpc.112.104463

      Exo70B2, a subunit of the exocyst complex, which is involved in exocytosis, is targeted for degradation by the ubiquitin ligase PUB22 upon activation of the immune system. This work also reveals that Exo70B2 is required for the activation of PAMP-triggered responses.

  10. Tzfadia, Oren

    1. The MORPH Algorithm: Ranking Candidate Genes for Membership in <em>Arabidopsis</em> and Tomato Pathways
      You have accessRestricted Access
      The MORPH Algorithm: Ranking Candidate Genes for Membership in Arabidopsis and Tomato Pathways
      Oren Tzfadia, David Amar, Louis M.T. Bradbury, Eleanore T. Wurtzel, Ron Shamir
      Plant Cell Nov 2012, 24 (11) 4389-4406; DOI: https://doi.org/10.1105/tpc.112.104513

      A fundamental challenge in plant biology is to discover the unknown connections within and between pathways and to associate previously unknown genes with specific biological processes. MORPH is a computational method for predicting genes that function in or regulate a biological pathway. MORPH fills pathway gaps and defines complex biological networks as shown for Arabidopsis and tomato.

U

  1. Ülker, Bekir

    1. Reevaluation of the Reliability and Usefulness of the Somatic Homologous Recombination Reporter Lines
      You have accessRestricted Access
      Reevaluation of the Reliability and Usefulness of the Somatic Homologous Recombination Reporter Lines
      Bekir Ülker, Carl Maximilian Hommelsheim, Tobias Berson, Stefan Thomas, Balakumaran Chandrasekar, Ahmet Can Olcay, Kenneth Wayne Berendzen, Lamprinos Frantzeskakis
      Plant Cell Nov 2012, 24 (11) 4314-4323; DOI: https://doi.org/10.1105/tpc.112.100404
  2. Ullmann, Pascaline

    1. Protein–Protein and Protein–Membrane Associations in the Lignin Pathway
      Open Access
      Protein–Protein and Protein–Membrane Associations in the Lignin Pathway
      Jean-Etienne Bassard, Ludovic Richert, Jan Geerinck, Hugues Renault, Frédéric Duval, Pascaline Ullmann, Martine Schmitt, Etienne Meyer, Jerôme Mutterer, Wout Boerjan, Geert De Jaeger, Yves Mely, Alain Goossens, Danièle Werck-Reichhart
      Plant Cell Nov 2012, 24 (11) 4465-4482; DOI: https://doi.org/10.1105/tpc.112.102566

      Analysis of the supramolecular organization of enzymes in the lignin pathway shows that cytochrome P450s oligomerize and move along with the very mobile plant endoplasmic reticulum. Their expression favors relocalization of their soluble partner proteins nearer the membrane and association of sequential enzymes in the pathway.

V

  1. Valent, Barbara

    1. The <em>Magnaporthe oryzae</em> Effector AvrPiz-t Targets the RING E3 Ubiquitin Ligase APIP6 to Suppress Pathogen-Associated Molecular Pattern–Triggered Immunity in Rice
      Open Access
      The Magnaporthe oryzae Effector AvrPiz-t Targets the RING E3 Ubiquitin Ligase APIP6 to Suppress Pathogen-Associated Molecular Pattern–Triggered Immunity in Rice
      Chan-Ho Park, Songbiao Chen, Gautam Shirsekar, Bo Zhou, Chang Hyun Khang, Pattavipha Songkumarn, Ahmed J. Afzal, Yuese Ning, Ruyi Wang, Maria Bellizzi, Barbara Valent, Guo-Liang Wang
      Plant Cell Nov 2012, 24 (11) 4748-4762; DOI: https://doi.org/10.1105/tpc.112.105429

      This work shows that the Magnaporthe oryzae effector AvrPiz-t enters into rice cells to target the RING E3 ubiquitin ligase APIP6 for suppression of PAMP-triggered immunity in rice. It also describes that APIP6 degrades AvrPiz-t in planta and positively regulates basal defense to M. oryzae.

  2. Vandivier, Lee E.

    1. Regulatory Impact of RNA Secondary Structure across the <em>Arabidopsis</em> Transcriptome
      Open Access
      Regulatory Impact of RNA Secondary Structure across the Arabidopsis Transcriptome
      Fan Li, Qi Zheng, Lee E. Vandivier, Matthew R. Willmann, Ying Chen, Brian D. Gregory
      Plant Cell Nov 2012, 24 (11) 4346-4359; DOI: https://doi.org/10.1105/tpc.112.104232

      This study employs a high-throughput, sequencing-based, structure-mapping approach to investigate RNA secondary structure throughout the Arabidopsis transcriptome. By combining these structural insights with a number of other RNA sequencing–based approaches, it provides a global assessment of RNA folding and its significant regulatory effects in a plant transcriptome.

W

  1. Wachter, Andreas

    1. Polypyrimidine Tract Binding Protein Homologs from <em>Arabidopsis</em> Are Key Regulators of Alternative Splicing with Implications in Fundamental Developmental Processes
      You have accessRestricted Access
      Polypyrimidine Tract Binding Protein Homologs from Arabidopsis Are Key Regulators of Alternative Splicing with Implications in Fundamental Developmental Processes
      Christina Rühl, Eva Stauffer, André Kahles, Gabriele Wagner, Gabriele Drechsel, Gunnar Rätsch, Andreas Wachter
      Plant Cell Nov 2012, 24 (11) 4360-4375; DOI: https://doi.org/10.1105/tpc.112.103622

      Alternative precursor mRNA splicing massively expands the transcriptome diversity in higher eukaryotes. In this report, we describe Arabidopsis Polypyrimidine tract binding protein homologs as critical components of the plant splicing code and provide links between regulated alternative splicing events and seed germination as well as flowering time control.

  2. Wagner, Gabriele

    1. Polypyrimidine Tract Binding Protein Homologs from <em>Arabidopsis</em> Are Key Regulators of Alternative Splicing with Implications in Fundamental Developmental Processes
      You have accessRestricted Access
      Polypyrimidine Tract Binding Protein Homologs from Arabidopsis Are Key Regulators of Alternative Splicing with Implications in Fundamental Developmental Processes
      Christina Rühl, Eva Stauffer, André Kahles, Gabriele Wagner, Gabriele Drechsel, Gunnar Rätsch, Andreas Wachter
      Plant Cell Nov 2012, 24 (11) 4360-4375; DOI: https://doi.org/10.1105/tpc.112.103622

      Alternative precursor mRNA splicing massively expands the transcriptome diversity in higher eukaryotes. In this report, we describe Arabidopsis Polypyrimidine tract binding protein homologs as critical components of the plant splicing code and provide links between regulated alternative splicing events and seed germination as well as flowering time control.

  3. Wan, Jianmin

    1. Identification and Characterization of an Epi-Allele of <em>FIE1</em> Reveals a Regulatory Linkage between Two Epigenetic Marks in Rice
      Open Access
      Identification and Characterization of an Epi-Allele of FIE1 Reveals a Regulatory Linkage between Two Epigenetic Marks in Rice
      Liguo Zhang, Zhijun Cheng, Ruizhen Qin, Yang Qiu, Jiu-Lin Wang, Xiekui Cui, Lianfeng Gu, Xin Zhang, Xiuping Guo, Dan Wang, Ling Jiang, Chuan-yin Wu, Haiyang Wang, Xiaofeng Cao, Jianmin Wan
      Plant Cell Nov 2012, 24 (11) 4407-4421; DOI: https://doi.org/10.1105/tpc.112.102269

      This work identifies an epi-allele of rice Fertilization Independent Endosperm1 (FIE1) with DNA hypomethylation, reduced H3 Lys 9 dimethylation, increased H3 Lys 4 trimethylation, ectopic FIE1 expression, and loss imprinting, plus altered H3 Lys 27 trimethylation and perturbed expression of hundreds of genes. This suggests a regulatory link among these epigenetic marks.

  4. Wang, Dan

    1. Identification and Characterization of an Epi-Allele of <em>FIE1</em> Reveals a Regulatory Linkage between Two Epigenetic Marks in Rice
      Open Access
      Identification and Characterization of an Epi-Allele of FIE1 Reveals a Regulatory Linkage between Two Epigenetic Marks in Rice
      Liguo Zhang, Zhijun Cheng, Ruizhen Qin, Yang Qiu, Jiu-Lin Wang, Xiekui Cui, Lianfeng Gu, Xin Zhang, Xiuping Guo, Dan Wang, Ling Jiang, Chuan-yin Wu, Haiyang Wang, Xiaofeng Cao, Jianmin Wan
      Plant Cell Nov 2012, 24 (11) 4407-4421; DOI: https://doi.org/10.1105/tpc.112.102269

      This work identifies an epi-allele of rice Fertilization Independent Endosperm1 (FIE1) with DNA hypomethylation, reduced H3 Lys 9 dimethylation, increased H3 Lys 4 trimethylation, ectopic FIE1 expression, and loss imprinting, plus altered H3 Lys 27 trimethylation and perturbed expression of hundreds of genes. This suggests a regulatory link among these epigenetic marks.

  5. Wang, Guo-Liang

    1. The <em>Magnaporthe oryzae</em> Effector AvrPiz-t Targets the RING E3 Ubiquitin Ligase APIP6 to Suppress Pathogen-Associated Molecular Pattern–Triggered Immunity in Rice
      Open Access
      The Magnaporthe oryzae Effector AvrPiz-t Targets the RING E3 Ubiquitin Ligase APIP6 to Suppress Pathogen-Associated Molecular Pattern–Triggered Immunity in Rice
      Chan-Ho Park, Songbiao Chen, Gautam Shirsekar, Bo Zhou, Chang Hyun Khang, Pattavipha Songkumarn, Ahmed J. Afzal, Yuese Ning, Ruyi Wang, Maria Bellizzi, Barbara Valent, Guo-Liang Wang
      Plant Cell Nov 2012, 24 (11) 4748-4762; DOI: https://doi.org/10.1105/tpc.112.105429

      This work shows that the Magnaporthe oryzae effector AvrPiz-t enters into rice cells to target the RING E3 ubiquitin ligase APIP6 for suppression of PAMP-triggered immunity in rice. It also describes that APIP6 degrades AvrPiz-t in planta and positively regulates basal defense to M. oryzae.

  6. Wang, Haiyang

    1. Identification and Characterization of an Epi-Allele of <em>FIE1</em> Reveals a Regulatory Linkage between Two Epigenetic Marks in Rice
      Open Access
      Identification and Characterization of an Epi-Allele of FIE1 Reveals a Regulatory Linkage between Two Epigenetic Marks in Rice
      Liguo Zhang, Zhijun Cheng, Ruizhen Qin, Yang Qiu, Jiu-Lin Wang, Xiekui Cui, Lianfeng Gu, Xin Zhang, Xiuping Guo, Dan Wang, Ling Jiang, Chuan-yin Wu, Haiyang Wang, Xiaofeng Cao, Jianmin Wan
      Plant Cell Nov 2012, 24 (11) 4407-4421; DOI: https://doi.org/10.1105/tpc.112.102269

      This work identifies an epi-allele of rice Fertilization Independent Endosperm1 (FIE1) with DNA hypomethylation, reduced H3 Lys 9 dimethylation, increased H3 Lys 4 trimethylation, ectopic FIE1 expression, and loss imprinting, plus altered H3 Lys 27 trimethylation and perturbed expression of hundreds of genes. This suggests a regulatory link among these epigenetic marks.

  7. Wang, Huan

    1. Genome-Wide Analysis Uncovers Regulation of Long Intergenic Noncoding RNAs in <em>Arabidopsis</em>
      You have accessRestricted Access
      Genome-Wide Analysis Uncovers Regulation of Long Intergenic Noncoding RNAs in Arabidopsis
      Jun Liu, Choonkyun Jung, Jun Xu, Huan Wang, Shulin Deng, Lucia Bernad, Catalina Arenas-Huertero, Nam-Hai Chua
      Plant Cell Nov 2012, 24 (11) 4333-4345; DOI: https://doi.org/10.1105/tpc.112.102855

      This work identifies 6480 long intergenic noncoding RNAs in Arabidopsis, many of which show organ-specific and stress-responsive expression. The biogenesis of a group of long intergenic noncoding RNAs is coregulated by the RNA processing proteins SERRATE, CBP20, and CBP80.

  8. Wang, Jiaojiao

    1. FIMBRIN1 Is Involved in Lily Pollen Tube Growth by Stabilizing the Actin Fringe
      Open Access
      FIMBRIN1 Is Involved in Lily Pollen Tube Growth by Stabilizing the Actin Fringe
      Hui Su, Jinsheng Zhu, Chao Cai, Weike Pei, Jiaojiao Wang, Huaijian Dong, Haiyun Ren
      Plant Cell Nov 2012, 24 (11) 4539-4554; DOI: https://doi.org/10.1105/tpc.112.099358

      Fimbrin family proteins have long been known as actin binding proteins that regulate the formation of higher-order actin filament structures. FIM1, a fimbrin homolog from Lilium longiflorum, is found to cross-link actin microfilaments into bundles in vitro and is demonstrated to play important roles in the maintenance of the actin fringe in pollen tubes.

  9. Wang, Jiu-Lin

    1. Identification and Characterization of an Epi-Allele of <em>FIE1</em> Reveals a Regulatory Linkage between Two Epigenetic Marks in Rice
      Open Access
      Identification and Characterization of an Epi-Allele of FIE1 Reveals a Regulatory Linkage between Two Epigenetic Marks in Rice
      Liguo Zhang, Zhijun Cheng, Ruizhen Qin, Yang Qiu, Jiu-Lin Wang, Xiekui Cui, Lianfeng Gu, Xin Zhang, Xiuping Guo, Dan Wang, Ling Jiang, Chuan-yin Wu, Haiyang Wang, Xiaofeng Cao, Jianmin Wan
      Plant Cell Nov 2012, 24 (11) 4407-4421; DOI: https://doi.org/10.1105/tpc.112.102269

      This work identifies an epi-allele of rice Fertilization Independent Endosperm1 (FIE1) with DNA hypomethylation, reduced H3 Lys 9 dimethylation, increased H3 Lys 4 trimethylation, ectopic FIE1 expression, and loss imprinting, plus altered H3 Lys 27 trimethylation and perturbed expression of hundreds of genes. This suggests a regulatory link among these epigenetic marks.

  10. Wang, Liping

    1. Metabolic Interactions between the Lands Cycle and the Kennedy Pathway of Glycerolipid Synthesis in <em>Arabidopsis</em> Developing Seeds
      You have accessRestricted Access
      Metabolic Interactions between the Lands Cycle and the Kennedy Pathway of Glycerolipid Synthesis in Arabidopsis Developing Seeds
      Liping Wang, Wenyun Shen, Michael Kazachkov, Guanqun Chen, Qilin Chen, Anders S. Carlsson, Sten Stymne, Randall J. Weselake, Jitao Zou
      Plant Cell Nov 2012, 24 (11) 4652-4669; DOI: https://doi.org/10.1105/tpc.112.104604

      The Kennedy pathway and the Lands cycle are two principal metabolic modules of glycerolipid metabolism. This work examines the crosstalk of these two pathways and shows that loss of Lands cycle activity leads to an enhanced de novo phosphatidylcholine PC synthesis through the Kennedy pathway and PC turnover in Arabidopsis developing seeds.

  11. Wang, Ruyi

    1. The <em>Magnaporthe oryzae</em> Effector AvrPiz-t Targets the RING E3 Ubiquitin Ligase APIP6 to Suppress Pathogen-Associated Molecular Pattern–Triggered Immunity in Rice
      Open Access
      The Magnaporthe oryzae Effector AvrPiz-t Targets the RING E3 Ubiquitin Ligase APIP6 to Suppress Pathogen-Associated Molecular Pattern–Triggered Immunity in Rice
      Chan-Ho Park, Songbiao Chen, Gautam Shirsekar, Bo Zhou, Chang Hyun Khang, Pattavipha Songkumarn, Ahmed J. Afzal, Yuese Ning, Ruyi Wang, Maria Bellizzi, Barbara Valent, Guo-Liang Wang
      Plant Cell Nov 2012, 24 (11) 4748-4762; DOI: https://doi.org/10.1105/tpc.112.105429

      This work shows that the Magnaporthe oryzae effector AvrPiz-t enters into rice cells to target the RING E3 ubiquitin ligase APIP6 for suppression of PAMP-triggered immunity in rice. It also describes that APIP6 degrades AvrPiz-t in planta and positively regulates basal defense to M. oryzae.

  12. Wen, Jiangqi

    1. <em>NODULE ROOT</em> and <em>COCHLEATA</em> Maintain Nodule Development and Are Legume Orthologs of <em>Arabidopsis BLADE-ON-PETIOLE</em> Genes
      Open Access
      NODULE ROOT and COCHLEATA Maintain Nodule Development and Are Legume Orthologs of Arabidopsis BLADE-ON-PETIOLE Genes
      Jean-Malo Couzigou, Vladimir Zhukov, Samuel Mondy, Ghada Abu el Heba, Viviane Cosson, T.H. Noel Ellis, Mike Ambrose, Jiangqi Wen, Million Tadege, Igor Tikhonovich, Kirankumar S. Mysore, Joanna Putterill, Julie Hofer, Alexei Y. Borisov, Pascal Ratet
      Plant Cell Nov 2012, 24 (11) 4498-4510; DOI: https://doi.org/10.1105/tpc.112.103747

      Medicago truncatula NOOT and Pisum sativum COCH were found to maintain nodule identity during symbiotic interactions with rhizobia and were identified as orthologs of Arabidopsis BLADE-ON-PETIOLE genes, which are involved in leaf and flower development.

  13. Werck-Reichhart, Danièle

    1. Protein–Protein and Protein–Membrane Associations in the Lignin Pathway
      Open Access
      Protein–Protein and Protein–Membrane Associations in the Lignin Pathway
      Jean-Etienne Bassard, Ludovic Richert, Jan Geerinck, Hugues Renault, Frédéric Duval, Pascaline Ullmann, Martine Schmitt, Etienne Meyer, Jerôme Mutterer, Wout Boerjan, Geert De Jaeger, Yves Mely, Alain Goossens, Danièle Werck-Reichhart
      Plant Cell Nov 2012, 24 (11) 4465-4482; DOI: https://doi.org/10.1105/tpc.112.102566

      Analysis of the supramolecular organization of enzymes in the lignin pathway shows that cytochrome P450s oligomerize and move along with the very mobile plant endoplasmic reticulum. Their expression favors relocalization of their soluble partner proteins nearer the membrane and association of sequential enzymes in the pathway.

  14. Weselake, Randall J.

    1. Metabolic Interactions between the Lands Cycle and the Kennedy Pathway of Glycerolipid Synthesis in <em>Arabidopsis</em> Developing Seeds
      You have accessRestricted Access
      Metabolic Interactions between the Lands Cycle and the Kennedy Pathway of Glycerolipid Synthesis in Arabidopsis Developing Seeds
      Liping Wang, Wenyun Shen, Michael Kazachkov, Guanqun Chen, Qilin Chen, Anders S. Carlsson, Sten Stymne, Randall J. Weselake, Jitao Zou
      Plant Cell Nov 2012, 24 (11) 4652-4669; DOI: https://doi.org/10.1105/tpc.112.104604

      The Kennedy pathway and the Lands cycle are two principal metabolic modules of glycerolipid metabolism. This work examines the crosstalk of these two pathways and shows that loss of Lands cycle activity leads to an enhanced de novo phosphatidylcholine PC synthesis through the Kennedy pathway and PC turnover in Arabidopsis developing seeds.

  15. Willmann, Matthew R.

    1. Regulatory Impact of RNA Secondary Structure across the <em>Arabidopsis</em> Transcriptome
      Open Access
      Regulatory Impact of RNA Secondary Structure across the Arabidopsis Transcriptome
      Fan Li, Qi Zheng, Lee E. Vandivier, Matthew R. Willmann, Ying Chen, Brian D. Gregory
      Plant Cell Nov 2012, 24 (11) 4346-4359; DOI: https://doi.org/10.1105/tpc.112.104232

      This study employs a high-throughput, sequencing-based, structure-mapping approach to investigate RNA secondary structure throughout the Arabidopsis transcriptome. By combining these structural insights with a number of other RNA sequencing–based approaches, it provides a global assessment of RNA folding and its significant regulatory effects in a plant transcriptome.

  16. Wolters-Arts, Mieke

    1. The Tomato FRUITFULL Homologs TDR4/FUL1 and MBP7/FUL2 Regulate Ethylene-Independent Aspects of Fruit Ripening
      You have accessRestricted Access
      The Tomato FRUITFULL Homologs TDR4/FUL1 and MBP7/FUL2 Regulate Ethylene-Independent Aspects of Fruit Ripening
      Marian Bemer, Rumyana Karlova, Ana Rosa Ballester, Yury M. Tikunov, Arnaud G. Bovy, Mieke Wolters-Arts, Priscilla de Barros Rossetto, Gerco C. Angenent, Ruud A. de Maagd
      Plant Cell Nov 2012, 24 (11) 4437-4451; DOI: https://doi.org/10.1105/tpc.112.103283

      Ripening of the tomato fruit is accompanied by an increase in ethylene production and involves color changes, altered sugar metabolism, tissue softening, and the synthesis of aroma volatiles. This study shows that the MADS domain transcription factors FUL1 and FUL2 play a role in the regulation of these ripening processes, but in an ethylene-independent manner.

  17. Wright, Stephen I.

    1. The <em>ARC1</em> E3 Ligase Gene Is Frequently Deleted in Self-Compatible Brassicaceae Species and Has a Conserved Role in <em>Arabidopsis lyrata</em> Self-Pollen Rejection