Transcriptome sequencing to reveal the genetic regulation of leaf margin variation at early stage in birch

[1]  Jiahong Zhu,et al.  Identification, characterization and expression analysis of genes involved in steroidal saponin biosynthesis in Dracaena cambodiana , 2018, Journal of plant research.

[2]  T. Konishi,et al.  UDP-arabinopyranose mutase gene expressions are required for the biosynthesis of the arabinose side chain of both pectin and arabinoxyloglucan, and normal leaf expansion in Nicotiana tabacum , 2018, Journal of Plant Research.

[3]  C. Dong,et al.  The root transcriptome of Achyranthes bidentata and the identification of the genes involved in the replanting benefit , 2018, Plant Cell Reports.

[4]  K. Wei,et al.  Comparative functional genomics of the TPR gene family in Arabidopsis, rice and maize , 2017, Molecular Breeding.

[5]  Sampa Das,et al.  Differential expressions of photosynthetic genes provide clues to the resistance mechanism during Fusarium oxysporum f.sp. ciceri race 1 (Foc1) infection in chickpea (Cicer arietinum L.) , 2017, European Journal of Plant Pathology.

[6]  Chuanping Yang,et al.  Gene expression profiles in different stem internodes reveal the genetic regulation of primary and secondary stem development in Betula platyphylla , 2016, Tree Genetics & Genomes.

[7]  Zuohuan Zheng,et al.  A mathematical model of the photosynthetic carbon metabolism has multiple steady states under the same parameter conditions , 2016 .

[8]  H. Xue,et al.  Arabidopsis Type II Phosphatidylinositol 4-Kinase PI4Kγ5 Regulates Auxin Biosynthesis and Leaf Margin Development through Interacting with Membrane-Bound Transcription Factor ANAC078 , 2016, PLoS genetics.

[9]  K. Berka,et al.  Novel thidiazuron-derived inhibitors of cytokinin oxidase/dehydrogenase , 2016, Plant Molecular Biology.

[10]  Li Wang,et al.  Characterization and fine mapping of the rice gene OsARVL4 regulating leaf morphology and leaf vein development , 2016, Plant Growth Regulation.

[11]  P. Namasivayam,et al.  Transcriptome reveals senescing callus tissue of Aquilaria malaccensis, an endangered tropical tree, triggers similar response as wounding with respect to terpenoid biosynthesis , 2016, Tree Genetics & Genomes.

[12]  D. Szakonyi.  LEAFDATA: a literature-curated database for Arabidopsis leaf development , 2016, Plant Methods.

[13]  C. Bowler,et al.  A CURLY LEAF homologue controls both vegetative and reproductive development of tomato plants , 2016, Plant Molecular Biology.

[14]  J. Nemhauser,et al.  Auxin signaling modules regulate maize inflorescence architecture , 2015, Proceedings of the National Academy of Sciences.

[15]  Xiuren Zhang,et al.  Spatiotemporal sequestration of miR165/166 by Arabidopsis Argonaute10 promotes shoot apical meristem maintenance. , 2015, Cell reports.

[16]  Su Chen,et al.  Transcriptome analysis reveals the role of BpGH3.5 in root elongation of Betula platyphylla × B. pendula , 2015, Plant Cell, Tissue and Organ Culture (PCTOC).

[17]  N. Sinha,et al.  Regulation of the KNOX-GA Gene Module Induces Heterophyllic Alteration in North American Lake Cress[W] , 2014, Plant Cell.

[18]  Y. Nakajima,et al.  Plant DNA-damage repair/toleration 100 protein repairs UV-B-induced DNA damage. , 2014, DNA repair.

[19]  Huiyu Li,et al.  Overexpression of BpAP1 induces early flowering and produces dwarfism in Betula platyphylla × Betula pendula. , 2014, Physiologia plantarum.

[20]  Guifen Liu,et al.  Transcriptomic analysis of incised leaf-shape determination in birch. , 2013, Gene.

[21]  J. G. Dubrovsky,et al.  Auxin increases the hydrogen peroxide (H2O2) concentration in tomato (Solanum lycopersicum) root tips while inhibiting root growth. , 2013, Annals of botany.

[22]  L. Strader,et al.  Auxin biosynthesis and storage forms. , 2013, Journal of experimental botany.

[23]  M. Ludwig.  Evolution of the C4 photosynthetic pathway: events at the cellular and molecular levels , 2013, Photosynthesis Research.

[24]  Y. Eshed,et al.  Dual regulation of ETTIN (ARF3) gene expression by AS1-AS2, which maintains the DNA methylation level, is involved in stabilization of leaf adaxial-abaxial partitioning in Arabidopsis , 2013, Development.

[25]  David G Hendrickson,et al.  Differential analysis of gene regulation at transcript resolution with RNA-seq , 2012, Nature Biotechnology.

[26]  Xiuren Zhang,et al.  Argonautes compete for miR165/166 to regulate shoot apical meristem development. , 2012, Current opinion in plant biology.

[27]  L. Du,et al.  The function of calreticulin in plant immunity , 2012, Plant signaling & behavior.

[28]  P. Das,et al.  Cytokinins enhance sugar-induced anthocyanin biosynthesis in Arabidopsis , 2012, Molecules and cells.

[29]  Y. Ling,et al.  Rolling-leaf14 is a 2OG-Fe (II) oxygenase family protein that modulates rice leaf rolling by affecting secondary cell wall formation in leaves. , 2012, Plant biotechnology journal.

[30]  N. Friedman,et al.  Trinity: reconstructing a full-length transcriptome without a genome from RNA-Seq data , 2011, Nature Biotechnology.

[31]  Karl J. Niklas,et al.  The evolution and functional significance of leaf shape in the angiosperms. , 2011, Functional plant biology : FPB.

[32]  N. Friedman,et al.  Trinity : reconstructing a full-length transcriptome without a genome from RNA-Seq data , 2016 .

[33]  D. Nelson,et al.  A P450-centric view of plant evolution. , 2011, The Plant journal : for cell and molecular biology.

[34]  P. Prusinkiewicz,et al.  Model for the regulation of Arabidopsis thaliana leaf margin development , 2011, Proceedings of the National Academy of Sciences.

[35]  S. Hake,et al.  How a leaf gets its shape. , 2011, Current opinion in plant biology.

[36]  B. Langmead,et al.  Aligning Short Sequencing Reads with Bowtie , 2010, Current protocols in bioinformatics.

[37]  D. Weiss,et al.  Cytokinin Regulates Compound Leaf Development in Tomato[C][W] , 2010, Plant Cell.

[38]  Guiyin Zhang,et al.  Molecular Cloning of Three UDP-Glucuronate Decarboxylase Genes That Are Preferentially Expressed In Gossypium Fibers From Elongation to Secondary Cell Wall Synthesis , 2010, Journal of Plant Biology.

[39]  I. C. Lee,et al.  Auxin response factor 2 (ARF2) plays a major role in regulating auxin-mediated leaf longevity , 2010, Journal of experimental botany.

[40]  Matthew D. Young,et al.  Gene ontology analysis for RNA-seq: accounting for selection bias , 2010, Genome Biology.

[41]  E. Bayer,et al.  Auxin patterns Solanum lycopersicum leaf morphogenesis , 2009, Development.

[42]  C. Worby,et al.  The fic domain: regulation of cell signaling by adenylylation. , 2009, Molecular cell.

[43]  Lior Pachter,et al.  Sequence Analysis , 2020, Definitions.

[44]  Jun Liu,et al.  A novel leucine-rich repeat receptor-like kinase gene in potato, StLRPK1, is involved in response to diverse stresses , 2009, Molecular Biology Reports.

[45]  Hui Li,et al.  A novel wall-associated receptor-like protein kinase gene, OsWAK1, plays important roles in rice blast disease resistance , 2009, Plant Molecular Biology.

[46]  M. Yuan,et al.  Arabidopsis microtubule-associated protein AtMAP65-2 acts as a microtubule stabilizer , 2009, Plant Molecular Biology.

[47]  C. Thienpont,et al.  Phylogenetic relationships in Betula (Betulaceae) based on AFLP markers , 2008, Tree Genetics & Genomes.

[48]  Thomas D. Schmittgen,et al.  Analyzing real-time PCR data by the comparative CT method , 2008, Nature Protocols.

[49]  J. Bowman,et al.  Patterning and polarity in seed plant shoots. , 2008, Annual review of plant biology.

[50]  D. Tollervey,et al.  Efficient termination of transcription by RNA polymerase I requires the 5' exonuclease Rat1 in yeast. , 2008, Genes & development.

[51]  Norio Murata,et al.  How do environmental stresses accelerate photoinhibition? , 2008, Trends in plant science.

[52]  Xin-Guang Zhu,et al.  Optimizing the Distribution of Resources between Enzymes of Carbon Metabolism Can Dramatically Increase Photosynthetic Rate: A Numerical Simulation Using an Evolutionary Algorithm1[W][OA] , 2007, Plant Physiology.

[53]  Noah Fahlgren,et al.  Repression of AUXIN RESPONSE FACTOR10 by microRNA160 is critical for seed germination and post-germination stages. , 2007, The Plant journal : for cell and molecular biology.

[54]  R. Bonhomme,et al.  Characterization of the photosynthetic pathway of some tropical food yams (Dioscorea spp.) using leaf natural 13C abundance , 2007, Photosynthetica.

[55]  S. Hasezawa,et al.  Involvement of a tobacco leucine-rich repeat-extensin in cell morphogenesis , 2007 .

[56]  N. Ori,et al.  The role of hormones in shoot apical meristem function. , 2006, Current opinion in plant biology.

[57]  Hirokazu Tsukaya,et al.  Mechanism of leaf-shape determination. , 2006, Annual review of plant biology.

[58]  Yutaka Sato,et al.  Formation, Maintenance and Function of the Shoot Apical Meristem in Rice , 2006, Plant Molecular Biology.

[59]  Y. Eshed,et al.  Auxin Response Factors Mediate Arabidopsis Organ Asymmetry via Modulation of KANADI Activityw⃞ , 2005, The Plant Cell Online.

[60]  Juan Miguel García-Gómez,et al.  BIOINFORMATICS APPLICATIONS NOTE Sequence analysis Manipulation of FASTQ data with Galaxy , 2005 .

[61]  Jane Lomax,et al.  Get ready to GO! A biologist's guide to the Gene Ontology , 2005, Briefings Bioinform..

[62]  D. Tsernoglou,et al.  Structural Basis for the Interaction between Pectin Methylesterase and a Specific Inhibitor Protein , 2005, The Plant Cell Online.

[63]  G. Jürgens,et al.  Auxin and embryo axis formation: the ends in sight? , 2005, Current opinion in plant biology.

[64]  Klaus Palme,et al.  The PIN auxin efflux facilitator network controls growth and patterning in Arabidopsis roots , 2005, Nature.

[65]  B. Scheres,et al.  Mechanisms of pattern formation in plant embryogenesis. , 2004, Annual review of genetics.

[66]  M. Estelle,et al.  Auxin signaling and regulated protein degradation. , 2004, Trends in plant science.

[67]  G. Wasteneys,et al.  Remodeling the cytoskeleton for growth and form: an overview with some new views. , 2003, Annual review of plant biology.

[68]  M. Mok,et al.  CYTOKININ METABOLISM AND ACTION. , 2003, Annual review of plant physiology and plant molecular biology.

[69]  Takashi Tsuruo,et al.  Regulation of Kinase Activity of 3-Phosphoinositide-dependent Protein Kinase-1 by Binding to 14-3-3* , 2002, The Journal of Biological Chemistry.

[70]  H. Wang,et al.  Plant CDK inhibitors: studies of interactions with cell cycle regulators in the yeast two-hybrid system and functional comparisons in transgenic Arabidopsis plants , 2002, Plant Cell Reports.

[71]  O. Leyser.  Auxin signalling: the beginning, the middle and the end. , 2001, Current opinion in plant biology.

[72]  Y. Benjamini,et al.  THE CONTROL OF THE FALSE DISCOVERY RATE IN MULTIPLE TESTING UNDER DEPENDENCY , 2001 .

[73]  J. Bowman,et al.  Role of PHABULOSA and PHAVOLUTA in determining radial patterning in shoots , 2001, Nature.

[74]  S. Dinesh-Kumar,et al.  Structure-function analysis of the tobacco mosaic virus resistance gene N. , 2000, Proceedings of the National Academy of Sciences of the United States of America.

[75]  J L Bowman,et al.  Members of the YABBY gene family specify abaxial cell fate in Arabidopsis. , 1999, Development.

[76]  M. Aida,et al.  Shoot apical meristem and cotyledon formation during Arabidopsis embryogenesis: interaction among the CUP-SHAPED COTYLEDON and SHOOT MERISTEMLESS genes. , 1999, Development.

[77]  M. J. Coon,et al.  Cytochrome P450 2: peroxidative reactions of diversozymes. , 1996, FASEB journal : official publication of the Federation of American Societies for Experimental Biology.

[78]  J. Cairney,et al.  A simple and efficient method for isolating RNA from pine trees , 1993, Plant Molecular Biology Reporter.

[79]  D. J. James,et al.  In vitro shoot regeneration from leaf discs of Betula pendula ‘Dalecarlica’ EM 85 , 1990, Plant Cell, Tissue and Organ Culture.

[80]  C. Grandori.  Regulation of kinase activity , 1989, Nature.

[81]  C. Whittingham,et al.  Photosynthesis , 1941, Nature.

[82]  Guifen Liu,et al.  Analysis of the promoter features of BpCUC2 in Betula platyphylla × Betula pendula , 2017, Plant Cell, Tissue and Organ Culture (PCTOC).

[83]  G. Ahammed,et al.  Trichoderma harzianum-induced resistance against Fusarium oxysporum involves regulation of nuclear DNA content, cell viability and cell cycle-related genes expression in cucumber roots , 2016, European Journal of Plant Pathology.

[84]  T. Beeckman,et al.  The Interplay Between Auxin and the Cell Cycle During Plant Development , 2014 .

[85]  Xuegong Zhang,et al.  DEGseq: an R package for identifying differentially expressed genes from RNA-seq data , 2010, Bioinform..

[86]  D. Weiss,et al.  Cytokinin Regulates Compound Leaf Development in Tomato , 2010 .

[87]  N. Obroucheva.  Cell elongation as an inseparable component of growth in terrestrial plants , 2008, Russian Journal of Developmental Biology.

[88]  S. Schuster.  Next-generation sequencing transforms today's biology , 2008, Nature Methods.

[89]  P. Hussey,et al.  Cell division: Microtubule-associated proteins in plants — why we need a map , 2001, Nature Reviews Molecular Cell Biology.

[90]  R C Wade,et al.  Blue copper proteins: A comparative analysis of their molecular interaction properties , 2000, Protein science : a publication of the Protein Society.

[91]  T. Sharkey,et al.  Photosynthesis : physiology and metabolism , 2000 .

[92]  P. Millner.  The auxin signal. , 1995, Current opinion in cell biology.

[93]  C. Lamb,et al.  Stimulus-Dependent Oxidative Cross-Linking of a Proline-Rich Plant Cell Wall Protein: A Novel, Rapid Defense Response and Control Point in Cellular Maturation , 1993 .

[94]  Novoselova Eg.  The role of ubiquinones in regulating lipid metabolism in rat thymocytes , 1989 .

[95]  H. Follmann,et al.  The ribonucleotide reductases — A unique group of metalloenzymes essential for cell proliferation , 1983 .