Survey of genes involved in rice secondary cell wall formation through a co-expression network.

No abstract is available for this paper.

• Publication year

  2013

• Venue

  Plant and Cell Physiology

• Publication date

  2013-11-01

• Fields of study

  Biology, Medicine, Environmental Science

• Identifiers
  DOI 10.1093/pcp/pct121PMID 24089433
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

• Inactivation of OsIRX10 leads to decreased xylan content in rice culm cell walls and improved biomass saccharification.

  2013cited by this paper
• Arabidopsis GT34 family contains five xyloglucan α-1,6-xylosyltransferases.

  2012cited by this paper
• Glycosyl transferases in family 61 mediate arabinofuranosyl transfer onto xylan in grasses

  2012cited by this paper
• XAX1 from glycosyltransferase family 61 mediates xylosyltransfer to rice xylan

  2012cited by this paper
• Arabidopsis GUX proteins are glucuronyltransferases responsible for the addition of glucuronic acid side chains onto xylan.

  2012cited by this paper
• CHITINASE-LIKE1/POM-POM1 and Its Homolog CTL2 Are Glucan-Interacting Proteins Important for Cellulose Biosynthesis in Arabidopsis[W][OA]

  2012cited by this paper
• Brittle Culm15 Encodes a Membrane-Associated Chitinase-Like Protein Required for Cellulose Biosynthesis in Rice1[C][W][OA]

  2012cited by this paper
• Brittle Culm 15 Encodes a Membrane-Associated Chitinase-Like Protein Required for Cellulose Biosynthesis in Rice 1 [ C ] [ W ] [ OA ]

  2012cited by this paper
• The DUF579 domain containing proteins IRX15 and IRX15-L affect xylan synthesis in Arabidopsis.

  2011cited by this paper
• Large-Scale Co-Expression Approach to Dissect Secondary Cell Wall Formation Across Plant Species

  2011cited by this paper
• Rice Brittle culm 6 encodes a dominant-negative form of CesA protein that perturbs cellulose synthesis in secondary cell walls

  2011cited by this paper
• OsCAD2 is the major CAD gene responsible for monolignol biosynthesis in rice culm

  2011cited by this paper
• Arabidopsis genes IRREGULAR XYLEM (IRX15) and IRX15L encode DUF579-containing proteins that are essential for normal xylan deposition in the secondary cell wall.

  2011cited by this paper
• Transcriptional activation of secondary wall biosynthesis by rice and maize NAC and MYB transcription factors.

  2011influential reference
• Identification of genes involved in cell wall biogenesis in grasses by differential gene expression profiling of elongating and non-elongating maize internodes

  2011cited by this paper
• Analysis of the Arabidopsis IRX9/IRX9-L and IRX14/IRX14-L Pairs of Glycosyltransferase Genes Reveals Critical Contributions to Biosynthesis of the Hemicellulose Glucuronoxylan1[C][W]

  2010cited by this paper
• RiceXPro: a platform for monitoring gene expression in japonica rice grown under natural field conditions

  2010influential reference
• Regulation of plant biomass production.

  2010cited by this paper
• Brittle Culm 12, a dual-targeting kinesin-4 protein, controls cell-cycle progression and wall properties in rice

  2010cited by this paper
• The rice dynamin-related protein DRP2B mediates membrane trafficking, and thereby plays a critical role in secondary cell wall cellulose biosynthesis.

  2010cited by this paper
• VASCULAR-RELATED NAC-DOMAIN6 and VASCULAR-RELATED NAC-DOMAIN7 Effectively Induce Transdifferentiation into Xylem Vessel Elements under Control of an Induction System1[W]

  2010cited by this paper
• Arabidopsis VASCULAR-RELATED NAC-DOMAIN6 Directly Regulates the Genes That Govern Programmed Cell Death and Secondary Wall Formation during Xylem Differentiation[C][W]

  2010cited by this paper
• Rice BRITTLE CULM 3 (BC3) encodes a classical dynamin OsDRP2B essential for proper secondary cell wall synthesis

  2010cited by this paper
• Expression profiling and integrative analysis of the CESA/CSL superfamily in rice

  2010cited by this paper
• An Integrative Approach to the Identification of Arabidopsis and Rice Genes Involved in Xylan and Secondary Wall Development

  2010influential reference
• Absence of branches from xylan in Arabidopsis gux mutants reveals potential for simplification of lignocellulosic biomass

  2010cited by this paper
• A barley cellulose synthase-like CSLH gene mediates (1,3;1,4)-β-d-glucan synthesis in transgenic Arabidopsis

  2009cited by this paper
• Arabidopsis XXT5 gene encodes a putative α-1,6-xylosyltransferase that is involved in xyloglucan biosynthesis (Plant Journal (2008) 56 (101-115))

  2009cited by this paper
• A missense mutation in the transmembrane domain of CESA4 affects protein abundance in the plasma membrane and results in abnormal cell wall biosynthesis in rice

  2009cited by this paper
• BC10, a DUF266-containing and Golgi-located type II membrane protein, is required for cell-wall biosynthesis in rice (Oryza sativa L.).

  2009influential reference
• MYB83 is a direct target of SND1 and acts redundantly with MYB46 in the regulation of secondary cell wall biosynthesis in Arabidopsis.

  2009cited by this paper
• Comparative genome analysis of lignin biosynthesis gene families across the plant kingdom

  2009influential reference
• MYB58 and MYB63 Are Transcriptional Activators of the Lignin Biosynthetic Pathway during Secondary Cell Wall Formation in Arabidopsis[C][W]

  2009influential reference
• Characterization of IRX10 and IRX10-like reveals an essential role in glucuronoxylan biosynthesis in Arabidopsis.

  2009cited by this paper
• The F8H glycosyltransferase is a functional paralog of FRA8 involved in glucuronoxylan biosynthesis in Arabidopsis.

  2009cited by this paper
• Cell Wall Modifications in Arabidopsis Plants with Altered α-l-Arabinofuranosidase Activity[C][W]

  2008cited by this paper
• Arabidopsis XXT5 gene encodes a putative alpha-1,6-xylosyltransferase that is involved in xyloglucan biosynthesis.

  2008cited by this paper
• Disrupting Two Arabidopsis thaliana Xylosyltransferase Genes Results in Plants Deficient in Xyloglucan, a Major Primary Cell Wall Component[W][OA]

  2008cited by this paper
• Unique aspects of the grass cell wall.

  2008influential reference
• ATTED-II provides coexpressed gene networks for Arabidopsis

  2008cited by this paper
• A Battery of Transcription Factors Involved in the Regulation of Secondary Cell Wall Biosynthesis in Arabidopsis

  2008influential reference
• GeneCAT—novel webtools that combine BLAST and co-expression analyses

  2008cited by this paper
• The MYB46 Transcription Factor Is a Direct Target of SND1 and Regulates Secondary Wall Biosynthesis in Arabidopsis

  2007cited by this paper
• ANAC012, a member of the plant-specific NAC transcription factor family, negatively regulates xylary fiber development in Arabidopsis thaliana.

  2007cited by this paper
• A Novel Bioinformatics Approach Identifies Candidate Genes for the Synthesis and Feruloylation of Arabinoxylan1[W][OA]

  2007cited by this paper
• Organization of cellulose synthase complexes involved in primary cell wall synthesis in Arabidopsis thaliana

  2007cited by this paper
• NAC Transcription Factors, NST1 and NST3, Are Key Regulators of the Formation of Secondary Walls in Woody Tissues of Arabidopsis[W][OA]

  2007influential reference
• Arabidopsis MYB26/MALE STERILE35 Regulates Secondary Thickening in the Endothecium and Is Essential for Anther Dehiscence[W][OA]

  2007cited by this paper
• Comparison of five xylan synthesis mutants reveals new insight into the mechanisms of xylan synthesis.

  2007cited by this paper
• The Arabidopsis irregular xylem8 Mutant Is Deficient in Glucuronoxylan and Homogalacturonan, Which Are Essential for Secondary Cell Wall Integrity[W]

  2007cited by this paper
• Arabidopsis irregular xylem8 and irregular xylem9: Implications for the Complexity of Glucuronoxylan Biosynthesis[W]

  2007cited by this paper
• Genetic evidence for three unique components in primary cell-wall cellulose synthase complexes in Arabidopsis

  2007cited by this paper
• XND1, a member of the NAC domain family in Arabidopsis thaliana, negatively regulates lignocellulose synthesis and programmed cell death in xylem.

  2007cited by this paper
• Cellulose Synthase-Like CslF Genes Mediate the Synthesis of Cell Wall (1,3;1,4)-ß-d-Glucans

  2006cited by this paper
• GOLD HULL AND INTERNODE2 Encodes a Primarily Multifunctional Cinnamyl-Alcohol Dehydrogenase in Rice1

  2006cited by this paper
• Functional identification of an Arabidopsis pectin biosynthetic homogalacturonan galacturonosyltransferase.

  2006cited by this paper
• SND1, a NAC Domain Transcription Factor, Is a Key Regulator of Secondary Wall Synthesis in Fibers of Arabidopsis[W]

  2006cited by this paper
• Development and application of a suite of polysaccharide-degrading enzymes for analyzing plant cell walls.

  2006influential reference
• A gene expression map of Arabidopsis thaliana development

  2005cited by this paper
• Transcription switches for protoxylem and metaxylem vessel formation.

  2005cited by this paper
• Arabidopsis Fragile Fiber8, Which Encodes a Putative Glucuronyltransferase, Is Essential for Normal Secondary Wall Synthesis

  2005cited by this paper
• Identification of Novel Genes in Arabidopsis Involved in Secondary Cell Wall Formation Using Expression Profiling and Reverse Genetics

  2005influential reference
• Global transcript profiling of primary stems from Arabidopsis thaliana identifies candidate genes for missing links in lignin biosynthesis and transcriptional regulators of fiber differentiation.

  2005cited by this paper
• CINNAMYL ALCOHOL DEHYDROGENASE-C and -D Are the Primary Genes Involved in Lignin Biosynthesis in the Floral Stem of Arabidopsisw⃞

  2005cited by this paper
• OsGLU1, A Putative Membrane-bound Endo-1,4-ß-D-glucanase from Rice, Affects Plant Internode Elongation

  2005cited by this paper
• The NAC Transcription Factors NST1 and NST2 of Arabidopsis Regulate Secondary Wall Thickenings and Are Required for Anther Dehiscencew⃞

  2005cited by this paper
• A Surprising Diversity and Abundance of Xyloglucan Endotransglucosylase/Hydrolases in Rice. Classification and Expression Analysis1

  2004cited by this paper
• FRAGILE FIBER3, an Arabidopsis Gene Encoding a Type II Inositol Polyphosphate 5-Phosphatase, Is Required for Secondary Wall Synthesis and Actin Organization in Fiber Cells

  2004cited by this paper
• Genomic basis for cell-wall diversity in plants. A comparative approach to gene families in rice and Arabidopsis.

  2004cited by this paper
• Involvement of the R2R3-MYB, AtMYB61, in the ectopic lignification and dark-photomorphogenic components of the det3 mutant phenotype.

  2004cited by this paper
• The irregular xylem 2 mutant is an allele of korrigan that affects the secondary cell wall of Arabidopsis thaliana.

  2004cited by this paper
• The MUR3 Gene of Arabidopsis Encodes a Xyloglucan Galactosyltransferase That Is Evolutionarily Related to Animal Exostosins Article, publication date, and citation information can be found at www.plantcell.org/cgi/doi/10.1105/tpc.009837.

  2003influential reference
• BRITTLE CULM1, Which Encodes a COBRA-Like Protein, Affects the Mechanical Properties of Rice Plants Article, publication date, and citation information can be found at www.plantcell.org/cgi/doi/10.1105/tpc.011775.

  2003influential reference
• Three Distinct Rice Cellulose Synthase Catalytic Subunit Genes Required for Cellulose Synthesis in the Secondary Wall1

  2003influential reference
• A new Arabidopsis thaliana mutant deficient in the expression of O-methyltransferase impacts lignins and sinapoyl esters

  2003cited by this paper
• The MUR 3 Gene of Arabidopsis Encodes a Xyloglucan Galactosyltransferase That Is Evolutionarily Related to Animal

  2003cited by this paper
• Interactions among three distinct CesA proteins essential for cellulose synthesis

  2003cited by this paper
• Expression of a Mutant Form of Cellulose Synthase AtCesA7 Causes Dominant Negative Effect on Cellulose Biosynthesis1

  2003cited by this paper
• The Arabidopsis RHD3 gene is required for cell wall biosynthesis and actin organization

  2003cited by this paper
• The XTH family of enzymes involved in xyloglucan endotransglucosylation and endohydrolysis: current perspectives and a new unifying nomenclature.

  2002cited by this paper
• Resistance against Herbicide Isoxaben and Cellulose Deficiency Caused by Distinct Mutations in Same Cellulose Synthase Isoform CESA61

  2002cited by this paper
• A xylanase, AtXyn1, is predominantly expressed in vascular bundles, and four putative xylanase genes were identified in the Arabidopsis thaliana genome.

  2002cited by this paper
• A Kinesin-Like Protein Is Essential for Oriented Deposition of Cellulose Microfibrils and Cell Wall Strength Article, publication date, and citation information can be found at www.plantcell.org/cgi/doi/10.1105/tpc.005801.

  2002cited by this paper
• © 2003 Kluwer Academic Publishers. Printed in the Netherlands.

  2001cited by this paper
• Cloning and characterization of irregular xylem4 (irx4): a severely lignin-deficient mutant of Arabidopsis.

  2001cited by this paper
• Role of the putative membrane-bound endo-1,4-beta-glucanase KORRIGAN in cell elongation and cellulose synthesis in Arabidopsis thaliana.

  2001cited by this paper
• A Katanin-like Protein Regulates Normal Cell Wall gBiosynthesis and Cell Elongation

  2001cited by this paper
• Modifications of cellulose synthase confer resistance to isoxaben and thiazolidinone herbicides in Arabidopsis Ixr1 mutants

  2001cited by this paper
• KORRIGAN, an Arabidopsis Endo-1,4-β-Glucanase, Localizes to the Cell Plate by Polarized Targeting and Is Essential for Cytokinesis

  2000cited by this paper
• Multiple Cellulose Synthase Catalytic Subunits Are Required for Cellulose Synthesis in Arabidopsis

  2000cited by this paper
• PROCUSTE1 Encodes a Cellulose Synthase Required for Normal Cell Elongation Specifically in Roots and Dark-Grown Hypocotyls of Arabidopsis

  2000cited by this paper
• The irregular xylem3 locus of Arabidopsis encodes a cellulose synthase required for secondary cell wall synthesis.

  1999cited by this paper
• Molecular analysis of cellulose biosynthesis in Arabidopsis.

  1998cited by this paper
• Collapsed xylem phenotype of Arabidopsis identifies mutants deficient in cellulose deposition in the secondary cell wall.

  1997cited by this paper
• Availability: The software is implemented in the R language and

  year unknowncited by this paper

• Comparative Transcriptome Reveals ART1‐Dependent Regulatory Pathways for Fe Toxicity Response in Rice Roots

  2025cites this paper
• Transcriptome-Based Screening of Candidate Low-Temperature-Associated Genes and Analysis of the BocARR-B Transcription Factor Gene Family in Kohlrabi (Brassica oleracea L. var. caulorapa L.)

  2024cites this paper
• CCT39-COMT1/BGLU18-2 module promotes lignin biosynthesis in poplar.

  2024cites this paper
• Transcriptome and Anatomical Comparisons Reveal the Effects of Methyl Jasmonate on the Seed Development of Camellia oleifera.

  2023cites this paper
• The MPK6-LTF1L1 module regulates lignin biosynthesis in rice through a distinct mechanism from Populus LTF1.

  2023cites this paper
• Multi-Year QTL Mapping and RNA-seq Reveal Candidate Genes for Early Floret-Opening Time in Japonica Rice

  2023cites this paper
• Cellulose synthase (CESA) gene expression profiling of gene expression profiling of Physcomitrella patens

  2023cites this paper
• OsTCP19 coordinates lignin suppression and cellulose biosynthesis activation to modify lodging resistance in rice.

  2023cites this paper
• Cell wall integrity regulation across plant species

  2022cites this paper
• A regulatory network driving shoot lignification in rapidly growing bamboo

  2021cites this paper
• Transcriptome and proteome analyses reveal selenium mediated amelioration of arsenic toxicity in rice (Oryza sativa L.).

  2020cites this paper
• Identification of functional single nucleotide polymorphism of Populus trichocarpa PtrEPSP‐TF and determination of its transcriptional effect

  2020cites this paper
• Systematic analysis of the Capsicum ERF transcription factor family: identification of regulatory factors involved in the regulation of species-specific metabolites

  2020cites this paper
• Diverse Roles of MAX1 Homologues in Rice

  2020cites this paper
• Microgravity Affects the Level of Matrix Polysaccharide 1,3:1,4-β-Glucans in Cell Walls of Rice Shoots by Increasing the Expression Level of a Gene Involved in Their Breakdown

  2020cites this paper
• Systematic analysis of the Capsicum ERF transcription factor family uncovers new insights into the regulation of species-specific metabolites

  2020cites this paper
• Transcriptional Regulation of Sorghum Stem Composition: Key Players Identified Through Co-expression Gene Network and Comparative Genomics Analyses

  2020cites this paper
• Rice Genome-Scale Network Integration Reveals Transcriptional Regulators of Grass Cell Wall Synthesis

  2019cites this paper
• Rice OsPEX1, an extensin-like protein, affects lignin biosynthesis and plant growth

  2019cites this paper
• Brachypodium distachyon GNRF, SWAM1 and SWAM4 are transcriptional regulators of secondary cell wall biosynthesis

  2019cites this paper
• Modified expression of ZmMYB167 in Brachypodium distachyon and Zea mays leads to increased cell wall lignin and phenolic content

  2019cites this paper
• Role of the INDETERMINATE DOMAIN Genes in Plants

  2019cites this paper
• Evaluation of transgenic tall fescue (Festuca arundinacea Schreb.) improved for important forage and turf traits

  2019cites this paper
• Transcriptional Reprogramming of Pea Leaves at Early Reproductive Stages

  2019cites this paper
• Identification et validation de gènes pour l’amélioration du sorgho : de l’analyse transcriptomique à la validation fonctionnelle

  2019influential citation
• Co-expression networks for plant biology: why and how.

  2019cites this paper
• Chitinase-like1 Plays a Role in Stalk Tensile Strength in Maize1

  2019cites this paper
• Gene regulatory networks for lignin biosynthesis in switchgrass (Panicum virgatum)

  2018cites this paper
• Current Models for Transcriptional Regulation of Secondary Cell Wall Biosynthesis in Grasses

  2018influential citation
• Improvement of cell wall digestibility in tall fescue by Oryza sativa SECONDARY WALL NAC DOMAIN PROTEIN2 chimeric repressor

  2018cites this paper
• OsSND2, a NAC family transcription factor, is involved in secondary cell wall biosynthesis through regulating MYBs expression in rice

  2018cites this paper
• OsIDD2, a zinc finger and INDETERMINATE DOMAIN protein, regulates secondary cell wall formation.

  2018cites this paper
• Title : Cellulose synthase ( CESA ) gene expression profiling of Physcomitrella patens Short title : Cellulose synthase expression in Physcomitrella patens

  2018cites this paper
• Arabidopsis Group IIId ERF proteins positively regulate primary cell wall-type CESA genes

  2018cites this paper
• Genome-Wide Identification of R2R3-MYB Transcription Factors Regulating Secondary Cell Wall Thickening in Cotton Fiber Development

  2018cites this paper
• Co-expression network of secondary cell wall biogenesis genes in Eucalyptus tereticornis

  2018cites this paper
• Unravelling the Layers of Cell Wall Synthesis and Function in Rice

  2018cites this paper
• Improvement of cell wall digestibility in tall fescue by Oryza sativa SECONDARY WALL NAC DOMAIN PROTEIN2 chimeric repressor

  2018cites this paper
• MYB-mediated upregulation of lignin biosynthesis in Oryza sativa towards biomass refinery.

  2017cites this paper
• Cell Wall Development in an Elongating Internode of Setaria

  2017cites this paper
• Proteomics Coupled with Metabolite and Cell Wall Profiling Reveal Metabolic Processes of a Developing Rice Stem Internode

  2017cites this paper
• Genetic engineering of grass cell wall polysaccharides for biorefining

  2017cites this paper
• SMALL ORGAN SIZE 1 and SMALL ORGAN SIZE 2/DWARF AND LOW-TILLERING Form a Complex to Integrate Auxin and Brassinosteroid Signaling in Rice.

  2017cites this paper
• Dynamics of gene expression during development and expansion of vegetative stem internodes of bioenergy sorghum

  2017cites this paper
• Gene Expression Analysis and Development of Gene Regulatory Network of Wood Forming Genes in Eucalyptus tereticornis

  2017cites this paper
• Development of functional modules based on co-expression patterns for cell-wall biosynthesis related genes in rice

  2016cites this paper
• Construction of co-expression network based on natural expression variation of xylogenesis-related transcripts in Eucalyptus tereticornis

  2016cites this paper
• Co-expression network analysis reveals transcription factors associated to cell wall biosynthesis in sugarcane

  2016influential citation
• Erratum to Development of functional modules based on co-expression patterns for cell-wall biosynthesis related genes in rice

  2016cites this paper
• Dynamics of biomass partitioning, stem gene expression, cell wall biosynthesis, and sucrose accumulation during development of Sorghum bicolor.

  2016cites this paper
• Cellulose synthase gene expression profiling of Physcomitrella patens.

  2016cites this paper
• Sorghum Dw1, an agronomically important gene for lodging resistance, encodes a novel protein involved in cell proliferation

  2016cites this paper
• Breeding maize for silage and biofuel production, an illustration of a step forward with the genome sequence.

  2016cites this paper
• Genetic modification of switchgrass ( Panicum virgatum L.) for improvement of plant architecture, biomass productivity and sugar release efficiency for biofuel

  2015cites this paper
• Understanding developmental and adaptive cues in pine through metabolite profiling and co-expression network analysis

  2015cites this paper
• A Genome-Wide Association Study for Culm Cellulose Content in Barley Reveals Candidate Genes Co-Expressed with Members of the CELLULOSE SYNTHASE A Gene Family

  2015cites this paper
• The expression of a rice secondary wall-specific cellulose synthase gene, OsCesA7, is directly regulated by a rice transcription factor, OsMYB58/63

  2015cites this paper
• Toward the identification of genes underlying maize QTLs for lignin content, focusing on colocalizations with lignin biosynthetic genes and their regulatory MYB and NAC transcription factors

  2015influential citation
• Secondary cell walls: biosynthesis, patterned deposition and transcriptional regulation.

  2015cites this paper
• Identification and Molecular Characterization of the Switchgrass AP2/ERF Transcription Factor Superfamily, and Overexpression of PvERF001 for Improvement of Biomass Characteristics for Biofuel

  2015cites this paper
• New Approach to Increasing Rice Lodging Resistance and Biomass Yield Through the Use of High Gibberellin Producing Varieties

  2014cites this paper
• Transcriptional regulators of Arabidopsis secondary cell wall formation: tools to re-program and improve cell wall traits

  2014cites this paper
• Unlocking Triticeae genomics to sustainably feed the future

  2013cites this paper