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Table of Contents

The Plant Cell: 27 (3)
Mar 2015

IN BRIEF

  • Downstream of a Kinase Cascade: A Trihelix Transcription Factor Represses Immune Genes
    You have accessRestricted Access
    Downstream of a Kinase Cascade: A Trihelix Transcription Factor Represses Immune Genes
    Nancy R. Hofmann
    Plant Cell Mar 2015, 27 (3) 481; DOI: https://doi.org/10.1105/tpc.15.00197
  • Gaming the System: How Hungry Nematodes Get Plants to Produce Feeding Sites for Them
    You have accessRestricted Access
    Gaming the System: How Hungry Nematodes Get Plants to Produce Feeding Sites for Them
    Jennifer Lockhart
    Plant Cell Mar 2015, 27 (3) 482; DOI: https://doi.org/10.1105/tpc.15.00129
  • Uncovering the Unexpected Site of Biosynthesis of a Major Cell Wall Component in Grasses
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    Uncovering the Unexpected Site of Biosynthesis of a Major Cell Wall Component in Grasses
    Jennifer Lockhart
    Plant Cell Mar 2015, 27 (3) 483; DOI: https://doi.org/10.1105/tpc.15.00177
  • Clarifying the Opaque: Identification of Direct Targets of Maize Opaque2
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    Clarifying the Opaque: Identification of Direct Targets of Maize Opaque2
    Jennifer Mach
    Plant Cell Mar 2015, 27 (3) 484; DOI: https://doi.org/10.1105/tpc.15.00156

LARGE-SCALE BIOLOGY ARTICLES

  • Identification and Mode of Inheritance of Quantitative Trait Loci for Secondary Metabolite Abundance in Tomato
    Open Access
    Identification and Mode of Inheritance of Quantitative Trait Loci for Secondary Metabolite Abundance in Tomato
    Saleh Alseekh, Takayuki Tohge, Regina Wendenberg, Federico Scossa, Nooshin Omranian, Jie Li, Sabrina Kleessen, Patrick Giavalisco, Tzili Pleban, Bernd Mueller-Roeber, Dani Zamir, Zoran Nikoloski, Alisdair R. Fernie
    Plant Cell Mar 2015, 27 (3) 485-512; DOI: https://doi.org/10.1105/tpc.114.132266

    Metabolite QTL for secondary metabolism in a Solanum pennelli introgression line population show different modes of inheritance and network properties linking the traits.

  • RNA Sequencing of Laser-Capture Microdissected Compartments of the Maize Kernel Identifies Regulatory Modules Associated with Endosperm Cell Differentiation
    Open Access
    RNA Sequencing of Laser-Capture Microdissected Compartments of the Maize Kernel Identifies Regulatory Modules Associated with Endosperm Cell Differentiation
    Junpeng Zhan, Dhiraj Thakare, Chuang Ma, Alan Lloyd, Neesha M. Nixon, Angela M. Arakaki, William J. Burnett, Kyle O. Logan, Dongfang Wang, Xiangfeng Wang, Gary N. Drews, Ramin Yadegari
    Plant Cell Mar 2015, 27 (3) 513-531; DOI: https://doi.org/10.1105/tpc.114.135657

    RNA profiling of maize kernel compartments revealed coexpression modules for each major cell type in the endosperm, including a module regulating differentiation of the basal endosperm transfer layer.

RESEARCH ARTICLES

  • Genome-Wide Characterization of <em>cis</em>-Acting DNA Targets Reveals the Transcriptional Regulatory Framework of <em>Opaque2</em> in Maize
    Open Access
    Genome-Wide Characterization of cis-Acting DNA Targets Reveals the Transcriptional Regulatory Framework of Opaque2 in Maize
    Chaobin Li, Zhenyi Qiao, Weiwei Qi, Qian Wang, Yue Yuan, Xi Yang, Yuanping Tang, Bing Mei, Yuanda Lv, Han Zhao, Han Xiao, Rentao Song
    Plant Cell Mar 2015, 27 (3) 532-545; DOI: https://doi.org/10.1105/tpc.114.134858

    The identification of Opaque2 DNA binding targets clarified its direct target genes and revealed its broad transcriptional regulation during endosperm development.

  • Evolutionary Patterns and Coevolutionary Consequences of <em>MIRNA</em> Genes and MicroRNA Targets Triggered by Multiple Mechanisms of Genomic Duplications in Soybean
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    Evolutionary Patterns and Coevolutionary Consequences of MIRNA Genes and MicroRNA Targets Triggered by Multiple Mechanisms of Genomic Duplications in Soybean
    Meixia Zhao, Blake C. Meyers, Chunmei Cai, Wei Xu, Jianxin Ma
    Plant Cell Mar 2015, 27 (3) 546-562; DOI: https://doi.org/10.1105/tpc.15.00048

    A genome-wide analysis and interspecific comparison of MIRNA genes revealed the patterns of MIRNA gene evolution subsequent to the recent whole-genome duplication event in soybean.

  • Coordinated Rates of Evolution between Interacting Plastid and Nuclear Genes in Geraniaceae
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    Coordinated Rates of Evolution between Interacting Plastid and Nuclear Genes in Geraniaceae
    Jin Zhang, Tracey A. Ruhlman, Jamal Sabir, J. Chris Blazier, Robert K. Jansen
    Plant Cell Mar 2015, 27 (3) 563-573; DOI: https://doi.org/10.1105/tpc.114.134353

    Evolutionary analysis in Geraniaceae reveals correlation of rates between plastid- and nuclear-encoded genes, providing a plausible mechanism for plastome-genome incompatibility in this family.

  • Cleavage of <em>INDOLE-3-ACETIC ACID INDUCIBLE28</em> mRNA by MicroRNA847 Upregulates Auxin Signaling to Modulate Cell Proliferation and Lateral Organ Growth in Arabidopsis
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    Cleavage of INDOLE-3-ACETIC ACID INDUCIBLE28 mRNA by MicroRNA847 Upregulates Auxin Signaling to Modulate Cell Proliferation and Lateral Organ Growth in Arabidopsis
    Jing-Jing Wang, Hui-Shan Guo
    Plant Cell Mar 2015, 27 (3) 574-590; DOI: https://doi.org/10.1105/tpc.15.00101

    A microRNA-auxin/indole acetic acid repressor module regulates the extent of cell competence, thereby affecting the duration of cell proliferation and the development of lateral organs.

  • The Calcium-Dependent Protein Kinase CPK28 Regulates Development by Inducing Growth Phase-Specific, Spatially Restricted Alterations in Jasmonic Acid Levels Independent of Defense Responses in Arabidopsis
    Open Access
    The Calcium-Dependent Protein Kinase CPK28 Regulates Development by Inducing Growth Phase-Specific, Spatially Restricted Alterations in Jasmonic Acid Levels Independent of Defense Responses in Arabidopsis
    Susanne Matschi, Katharina Hake, Marco Herde, Bettina Hause, Tina Romeis
    Plant Cell Mar 2015, 27 (3) 591-606; DOI: https://doi.org/10.1105/tpc.15.00024

    A calcium-dependent protein kinase plays dual roles, maintaining tissue-specific phytohormone levels in adult plants without affecting defense responses and regulating defense signaling in seedlings.

  • A Cascade of Sequentially Expressed Sucrose Transporters in the Seed Coat and Endosperm Provides Nutrition for the Arabidopsis Embryo
    Open Access
    A Cascade of Sequentially Expressed Sucrose Transporters in the Seed Coat and Endosperm Provides Nutrition for the Arabidopsis Embryo
    Li-Qing Chen, I Winnie Lin, Xiao-Qing Qu, Davide Sosso, Heather E. McFarlane, Alejandra Londoño, A. Lacey Samuels, Wolf B. Frommer
    Plant Cell Mar 2015, 27 (3) 607-619; DOI: https://doi.org/10.1105/tpc.114.134585

    Triple mutants of three sucrose-transporting SWEETs show reduced seed yield, indicating that multiple sucrose translocation pathways move sugar from the maternal to the filial tissues.

  • Transcription Factors SOD7/NGAL2 and DPA4/NGAL3 Act Redundantly to Regulate Seed Size by Directly Repressing <em>KLU</em> Expression in <em>Arabidopsis thaliana</em>
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    Transcription Factors SOD7/NGAL2 and DPA4/NGAL3 Act Redundantly to Regulate Seed Size by Directly Repressing KLU Expression in Arabidopsis thaliana
    Yueying Zhang, Liang Du, Ran Xu, Rongfeng Cui, Jianjun Hao, Caixia Sun, Yunhai Li
    Plant Cell Mar 2015, 27 (3) 620-632; DOI: https://doi.org/10.1105/tpc.114.135368

    Two transcription factors, SOD7/NGAL2 and DPA4/NGAL3, regulate seed and organ size by repressing the expression of KLU, suggesting that they are promising targets for crop improvement.

  • Punctual Transcriptional Regulation by the Rice Circadian Clock under Fluctuating Field Conditions
    Open Access
    Punctual Transcriptional Regulation by the Rice Circadian Clock under Fluctuating Field Conditions
    Jun Matsuzaki, Yoshihiro Kawahara, Takeshi Izawa
    Plant Cell Mar 2015, 27 (3) 633-648; DOI: https://doi.org/10.1105/tpc.114.135582

    Expression of circadian clock genes in rice, individually responding to given field conditions, coordinately encode punctual internal time irrespective of weather, daylength, or developmental stage.

  • The Ubiquitin Receptors DA1, DAR1, and DAR2 Redundantly Regulate Endoreduplication by Modulating the Stability of TCP14/15 in Arabidopsis
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    The Ubiquitin Receptors DA1, DAR1, and DAR2 Redundantly Regulate Endoreduplication by Modulating the Stability of TCP14/15 in Arabidopsis
    Yuancheng Peng, Liangliang Chen, Yaru Lu, Yingbao Wu, Jack Dumenil, Zhengge Zhu, Michael W. Bevan, Yunhai Li
    Plant Cell Mar 2015, 27 (3) 649-662; DOI: https://doi.org/10.1105/tpc.114.132274

    A genetic and molecular mechanism involving the ubiquitin receptors DA1, DAR1, and DAR2 and the transcription factors TCP14 and TCP15 links cell and organ growth with the regulation of endoreduplication.

  • Phosphatidylinositol 4-Phosphate Negatively Regulates Chloroplast Division in Arabidopsis
    Open Access
    Phosphatidylinositol 4-Phosphate Negatively Regulates Chloroplast Division in Arabidopsis
    Kumiko Okazaki, Shin-ya Miyagishima, Hajime Wada
    Plant Cell Mar 2015, 27 (3) 663-674; DOI: https://doi.org/10.1105/tpc.115.136234

    Phosphatidylinositol 4-phosphate binds specifically to PDV1 and PDV2, the components of the chloroplast division apparatus, and plays an important role as a negative regulator of chloroplast division.

  • Binding of SEC11 Indicates Its Role in SNARE Recycling after Vesicle Fusion and Identifies Two Pathways for Vesicular Traffic to the Plasma Membrane
    Open Access
    Binding of SEC11 Indicates Its Role in SNARE Recycling after Vesicle Fusion and Identifies Two Pathways for Vesicular Traffic to the Plasma Membrane
    Rucha Karnik, Ben Zhang, Sakharam Waghmare, Christin Aderhold, Christopher Grefen, Michael R. Blatt
    Plant Cell Mar 2015, 27 (3) 675-694; DOI: https://doi.org/10.1105/tpc.114.134429

    A protein that regulates secretion targets one of two homologous and functionally overlapping SNARE (vesicle trafficking) proteins in Arabidopsis to drive traffic and is important for recycling of the SNARE complex.

  • Small Glycosylated Lignin Oligomers Are Stored in Arabidopsis Leaf Vacuoles
    You have accessRestricted Access
    Small Glycosylated Lignin Oligomers Are Stored in Arabidopsis Leaf Vacuoles
    Oana Dima, Kris Morreel, Bartel Vanholme, Hoon Kim, John Ralph, Wout Boerjan
    Plant Cell Mar 2015, 27 (3) 695-710; DOI: https://doi.org/10.1105/tpc.114.134643

    While combinatorial coupling of monolignols to oligolignols is known to occur in the apoplast, this process also occurs in the cytoplasm, followed by glycosylation and import into the vacuole.

  • The Rice CK2 Kinase Regulates Trafficking of Phosphate Transporters in Response to Phosphate Levels
    Open Access
    The Rice CK2 Kinase Regulates Trafficking of Phosphate Transporters in Response to Phosphate Levels
    Jieyu Chen, Yifeng Wang, Fei Wang, Jian Yang, Mingxing Gao, Changying Li, Yingyao Liu, Yu Liu, Naoki Yamaji, Jian Feng Ma, Javier Paz-Ares, Laurent Nussaume, Shuqun Zhang, Keke Yi, Zhongchang Wu, Ping Wu
    Plant Cell Mar 2015, 27 (3) 711-723; DOI: https://doi.org/10.1105/tpc.114.135335

    A kinase complex regulates phosphate transporter trafficking in response to phosphate, inhibiting interaction with the factor regulating exit from the endoplasmic reticulum to the plasma membrane.

  • Arabidopsis Chloroplast Mini-Ribonuclease III Participates in rRNA Maturation and Intron Recycling
    You have accessRestricted Access
    Arabidopsis Chloroplast Mini-Ribonuclease III Participates in rRNA Maturation and Intron Recycling
    Amber M. Hotto, Benoît Castandet, Laetitia Gilet, Andrea Higdon, Ciarán Condon, David B. Stern
    Plant Cell Mar 2015, 27 (3) 724-740; DOI: https://doi.org/10.1105/tpc.114.134452

    Using RNA-Seq and end-mapping, we showed that two Arabidopsis Mini-III proteins, which are putative double-stranded plastid endonucleases, process rRNA, introns, and a plastid noncoding RNA.

  • DENEDDYLASE1 Deconjugates NEDD8 from Non-Cullin Protein Substrates in <em>Arabidopsis thaliana</em>
    You have accessRestricted Access
    DENEDDYLASE1 Deconjugates NEDD8 from Non-Cullin Protein Substrates in Arabidopsis thaliana
    Julia Mergner, Stephanie Heinzlmeir, Bernhard Kuster, Claus Schwechheimer
    Plant Cell Mar 2015, 27 (3) 741-753; DOI: https://doi.org/10.1105/tpc.114.135996

    Mutants of an Arabidopsis DENEDDYLASE1 accumulate a broad range of NEDD8 conjugates, including AUXIN RESISTANT1, thus showing the existence of many NEDD8 conjugates in addition to the cullins.

  • Determining the Subcellular Location of Synthesis and Assembly of the Cell Wall Polysaccharide (1,3; 1,4)-β-<span class="sc">d</span>-Glucan in Grasses
    Open Access
    Determining the Subcellular Location of Synthesis and Assembly of the Cell Wall Polysaccharide (1,3; 1,4)-β-d-Glucan in Grasses
    Sarah M. Wilson, Yin Ying Ho, Edwin R. Lampugnani, Allison M.L. Van de Meene, Melissa P. Bain, Antony Bacic, Monika S. Doblin
    Plant Cell Mar 2015, 27 (3) 754-771; DOI: https://doi.org/10.1105/tpc.114.135970

    Despite the paradigm that noncellulosic cell wall polysaccharides are synthesized in the Golgi, compelling evidence suggests that (1,3;1,4)-β-d-glucans are assembled at the plasma membrane.

  • An Upstream Open Reading Frame Is Essential for Feedback Regulation of Ascorbate Biosynthesis in Arabidopsis
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    An Upstream Open Reading Frame Is Essential for Feedback Regulation of Ascorbate Biosynthesis in Arabidopsis
    William A. Laing, Marcela Martínez-Sánchez, Michele A. Wright, Sean M. Bulley, Di Brewster, Andrew P. Dare, Maysoon Rassam, Daisy Wang, Roy Storey, Richard C. Macknight, Roger P. Hellens
    Plant Cell Mar 2015, 27 (3) 772-786; DOI: https://doi.org/10.1105/tpc.114.133777

    Feedback regulation of the key gene in the ascorbate biosynthesis pathway, GDP Galactose Phosphorylase, is controlled at the level of translation by an upstream open reading frame with a noncanonical initiation codon.

  • The bHLH Transcription Factor bHLH104 Interacts with IAA-LEUCINE RESISTANT3 and Modulates Iron Homeostasis in Arabidopsis
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    The bHLH Transcription Factor bHLH104 Interacts with IAA-LEUCINE RESISTANT3 and Modulates Iron Homeostasis in Arabidopsis
    Jie Zhang, Bing Liu, Mengshu Li, Dongru Feng, Honglei Jin, Peng Wang, Jun Liu, Feng Xiong, Jinfa Wang, Hong-Bin Wang
    Plant Cell Mar 2015, 27 (3) 787-805; DOI: https://doi.org/10.1105/tpc.114.132704

    The IVc subgroup bHLH transcription factor bHLH104 interacts with ILR3 to regulate the Arabidopsis Fe deficiency responses via targeting the Ib subgroup bHLH genes and PYE expression.

  • The Small GTPase ROP10 of <em>Medicago truncatula</em> Is Required for Both Tip Growth of Root Hairs and Nod Factor-Induced Root Hair Deformation
    You have accessRestricted Access
    The Small GTPase ROP10 of Medicago truncatula Is Required for Both Tip Growth of Root Hairs and Nod Factor-Induced Root Hair Deformation
    Ming-Juan Lei, Qi Wang, Xiaolin Li, Aimin Chen, Li Luo, Yajun Xie, Guan Li, Da Luo, Kirankumar S. Mysore, Jiangqi Wen, Zhi-Ping Xie, Christian Staehelin, Yan-Zhang Wang
    Plant Cell Mar 2015, 27 (3) 806-822; DOI: https://doi.org/10.1105/tpc.114.135210

    The small GTPase ROP10 regulates the reestablishment of cell polarity, leading to root hair deformation in legumes during root nodule symbiosis.

  • Activation of Symbiosis Signaling by Arbuscular Mycorrhizal Fungi in Legumes and Rice
    Open Access
    Activation of Symbiosis Signaling by Arbuscular Mycorrhizal Fungi in Legumes and Rice
    Jongho Sun, J. Benjamin Miller, Emma Granqvist, Audrey Wiley-Kalil, Enrico Gobbato, Fabienne Maillet, Sylvain Cottaz, Eric Samain, Muthusubramanian Venkateshwaran, Sébastien Fort, Richard J. Morris, Jean-Michel Ané, Jean Dénarié, Giles E.D. Oldroyd
    Plant Cell Mar 2015, 27 (3) 823-838; DOI: https://doi.org/10.1105/tpc.114.131326

    Arbuscular mycorrhizal fungi produce a variety of signaling molecules that are shown to promote symbiosis signaling in a range of plant species.

  • Phosphorylation of Trihelix Transcriptional Repressor ASR3 by MAP KINASE4 Negatively Regulates Arabidopsis Immunity
    You have accessRestricted Access
    Phosphorylation of Trihelix Transcriptional Repressor ASR3 by MAP KINASE4 Negatively Regulates Arabidopsis Immunity
    Bo Li, Shan Jiang, Xiao Yu, Cheng Cheng, Sixue Chen, Yanbing Cheng, Joshua S. Yuan, Daohong Jiang, Ping He, Libo Shan
    Plant Cell Mar 2015, 27 (3) 839-856; DOI: https://doi.org/10.1105/tpc.114.134809

    A trihelix transcription factor downstream of a MAP kinase cascade negatively regulates plant immune gene expression.

  • ENHANCED DISEASE RESISTANCE4 Associates with CLATHRIN HEAVY CHAIN2 and Modulates Plant Immunity by Regulating Relocation of EDR1 in Arabidopsis
    You have accessRestricted Access
    ENHANCED DISEASE RESISTANCE4 Associates with CLATHRIN HEAVY CHAIN2 and Modulates Plant Immunity by Regulating Relocation of EDR1 in Arabidopsis
    Guangheng Wu, Simu Liu, Yaofei Zhao, Wei Wang, Zhaosheng Kong, Dingzhong Tang
    Plant Cell Mar 2015, 27 (3) 857-873; DOI: https://doi.org/10.1105/tpc.114.134668

    Arabidopsis EDR4 interacts with CLATHRIN HEAVY CHAIN2 and EDR1 and negatively affects plant immunity by regulating the relocation of EDR1 to the penetration site of powdery mildew infection.

  • In Planta Variation of Volatile Biosynthesis: An Alternative Biosynthetic Route to the Formation of the Pathogen-Induced Volatile Homoterpene DMNT via Triterpene Degradation in Arabidopsis Roots
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    In Planta Variation of Volatile Biosynthesis: An Alternative Biosynthetic Route to the Formation of the Pathogen-Induced Volatile Homoterpene DMNT via Triterpene Degradation in Arabidopsis Roots
    Reza Sohrabi, Jung-Hyun Huh, Somayesadat Badieyan, Liva Harinantenaina Rakotondraibe, Daniel J. Kliebenstein, Pablo Sobrado, Dorothea Tholl
    Plant Cell Mar 2015, 27 (3) 874-890; DOI: https://doi.org/10.1105/tpc.114.132209

    An alternative, tissue-specific pathway yielding a common homoterpene volatile in roots is implicated in defense against soil borne pathogens, revealing plasticity in volatile homoterpene biosynthesis and function.

  • The Cyst Nematode Effector Protein 10A07 Targets and Recruits Host Posttranslational Machinery to Mediate Its Nuclear Trafficking and to Promote Parasitism in Arabidopsis
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    The Cyst Nematode Effector Protein 10A07 Targets and Recruits Host Posttranslational Machinery to Mediate Its Nuclear Trafficking and to Promote Parasitism in Arabidopsis
    Tarek Hewezi, Parijat S. Juvale, Sarbottam Piya, Tom R. Maier, Aditi Rambani, J. Hollis Rice, Melissa G. Mitchum, Eric L. Davis, Richard S. Hussey, Thomas J. Baum
    Plant Cell Mar 2015, 27 (3) 891-907; DOI: https://doi.org/10.1105/tpc.114.135327

    An Arabidopsis kinase interacts with and phosphorylates a cyst nematode effector protein, which then translocates to the nucleus and interacts with a transcription factor to enhance pathogenicity.

  • A Chaperone Function of NO CATALASE ACTIVITY1 Is Required to Maintain Catalase Activity and for Multiple Stress Responses in Arabidopsis
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    A Chaperone Function of NO CATALASE ACTIVITY1 Is Required to Maintain Catalase Activity and for Multiple Stress Responses in Arabidopsis
    Jing Li, Juntao Liu, Guoqiang Wang, Joon-Yung Cha, Guannan Li, She Chen, Zhen Li, Jinghua Guo, Caiguo Zhang, Yongqing Yang, Woe-Yeon Kim, Dae-Jin Yun, Karen S. Schumaker, Zhongzhou Chen, Yan Guo
    Plant Cell Mar 2015, 27 (3) 908-925; DOI: https://doi.org/10.1105/tpc.114.135095

    Arabidopsis protein NCA1 interacts with catalases in the cytosol and increases catalase activity through maintaining catalase folding state, which is required for stress responses.

  • Tudor Staphylococcal Nuclease Links Formation of Stress Granules and Processing Bodies with mRNA Catabolism in Arabidopsis
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    Tudor Staphylococcal Nuclease Links Formation of Stress Granules and Processing Bodies with mRNA Catabolism in Arabidopsis
    Emilio Gutierrez-Beltran, Panagiotis N. Moschou, Andrei P. Smertenko, Peter V. Bozhkov
    Plant Cell Mar 2015, 27 (3) 926-943; DOI: https://doi.org/10.1105/tpc.114.134494

    Evolutionarily conserved Tudor Staphylococcal Nuclease is essential for maintaining the integrity of stress granules and processing bodies and for stress-induced mRNA decapping.

CORRECTIONS

  • You have accessRestricted Access
    Correction
    Plant Cell Mar 2015, 27 (3) 944-945; DOI: https://doi.org/10.1105/tpc.15.00204
  • You have accessRestricted Access
    Correction
    Plant Cell Mar 2015, 27 (3) 946; DOI: https://doi.org/10.1105/tpc.15.00205
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The Plant Cell: 27 (3)
The Plant Cell
Vol. 27, Issue 3
Mar 2015
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