Emerging functions of chromatin modifications in auxin biosynthesis in response to environmental alterations

[1]  Daoxiu Zhou,et al.  Dynamic and spatial restriction of Polycomb activity by plant histone demethylases , 2018, Nature Plants.

[2]  M. Martínez-Trujillo,et al.  Temporal root responses in Arabidopsis thaliana L. to chromate reveal structural and regulatory mechanisms involving the SOLITARY ROOT/IAA14 repressor for maintenance of identity meristem genes , 2018, Plant Growth Regulation.

[3]  J. Cheong,et al.  H2A.Z-containing nucleosomes are evicted to activate AtMYB44 transcription in response to salt stress. , 2018, Biochemical and biophysical research communications.

[4]  B. Wójcikowska,et al.  Azacitidine (5-AzaC)-treatment and mutations in DNA methylase genes affect embryogenic response and expression of the genes that are involved in somatic embryogenesis in Arabidopsis , 2018, Plant Growth Regulation.

[5]  Xiaoyun Liu,et al.  WOX11 recruits a histone H3K27me3 demethylase to promote gene expression during shoot development in rice , 2018, Nucleic acids research.

[6]  W. Shen,et al.  Linking PHYTOCHROME-INTERACTING FACTOR to Histone Modification in Plant Shade Avoidance1[OPEN] , 2017, Plant Physiology.

[7]  David Haussler,et al.  The UCSC Genome Browser database: 2018 update , 2017, Nucleic Acids Res..

[8]  P. Seo,et al.  Coordination of matrix attachment and ATP-dependent chromatin remodeling regulate auxin biosynthesis and Arabidopsis hypocotyl elongation , 2017, PloS one.

[9]  Eunkyoo Oh,et al.  PIF4 Promotes Expression of LNG1 and LNG2 to Induce Thermomorphogenic Growth in Arabidopsis , 2017, Front. Plant Sci..

[10]  Sandipan Brahma,et al.  INO80 exchanges H2A.Z for H2A by translocating on DNA proximal to histone dimers , 2017, Nature Communications.

[11]  B. Franklin Pugh,et al.  Understanding nucleosome dynamics and their links to gene expression and DNA replication , 2017, Nature Reviews Molecular Cell Biology.

[12]  S. Jentsch,et al.  The INO80 Complex Removes H2A.Z to Promote Presynaptic Filament Formation during Homologous Recombination. , 2017, Cell reports.

[13]  W. Karłowski,et al.  Dual Role of the Histone Variant H2A.Z in Transcriptional Regulation of Stress-Response Genes[OPEN] , 2017, Plant Cell.

[14]  G. Guo,et al.  Functional roles of Arabidopsis CKRC2/YUCCA8 gene and the involvement of PIF4 in the regulation of auxin biosynthesis by cytokinin , 2016, Scientific Reports.

[15]  Christine M. Palmer,et al.  YUCCA auxin biosynthetic genes are required for Arabidopsis shade avoidance , 2016, PeerJ.

[16]  Zhaojun Ding,et al.  Local Transcriptional Control of YUCCA Regulates Auxin Promoted Root-Growth Inhibition in Response to Aluminium Stress in Arabidopsis , 2016, PLoS genetics.

[17]  Langtao Xiao,et al.  YUCCA-mediated auxin biogenesis is required for cell fate transition occurring during de novo root organogenesis in Arabidopsis , 2016, Journal of experimental botany.

[18]  Bing Zhou,et al.  REF6 recognizes a specific DNA sequence to demethylate H3K27me3 and regulate organ boundary formation in Arabidopsis , 2016, Nature Genetics.

[19]  A. Burlingame,et al.  Concerted genomic targeting of H3K27 demethylase REF6 and chromatin-remodeling ATPase BRM in Arabidopsis , 2016, Nature Genetics.

[20]  J. Estevez,et al.  Auxin and Cellular Elongation1 , 2016, Plant Physiology.

[21]  Zhenbiao Yang,et al.  Epigenetic Modifications and Plant Hormone Action. , 2016, Molecular plant.

[22]  H. Kasahara,et al.  Current aspects of auxin biosynthesis in plants , 2016, Bioscience, biotechnology, and biochemistry.

[23]  J. Noel,et al.  Cryptochrome 1 interacts with PIF4 to regulate high temperature-mediated hypocotyl elongation in response to blue light , 2015, Proceedings of the National Academy of Sciences.

[24]  Tao Zhang,et al.  Genome-Wide Nucleosome Occupancy and Positioning and Their Impact on Gene Expression and Evolution in Plants1[OPEN] , 2015, Plant Physiology.

[25]  Guodong Yang,et al.  Salt-induced transcription factor MYB74 is regulated by the RNA-directed DNA methylation pathway in Arabidopsis , 2015, Journal of experimental botany.

[26]  J. A. Jarillo,et al.  H2A.Z mediates different aspects of chromatin function and modulates flowering responses in Arabidopsis. , 2015, The Plant journal : for cell and molecular biology.

[27]  M. Seki,et al.  Chromatin changes in response to drought, salinity, heat, and cold stresses in plants , 2015, Front. Plant Sci..

[28]  Tae-Young Roh,et al.  Polycomb group protein-mediated histone modifications during cell differentiation. , 2015, Epigenomics.

[29]  L. Strader,et al.  Auxin activity: Past, present, and future. , 2015, American journal of botany.

[30]  Song Tan,et al.  Nucleosome Structure and Function , 2014, Chemical reviews.

[31]  K. Bahar Halpern,et al.  Paradoxical Role of DNA Methylation in Activation of FoxA2 Gene Expression during Endoderm Development* , 2014, The Journal of Biological Chemistry.

[32]  L. Hennig,et al.  Variations on a theme: Polycomb group proteins in plants. , 2014, Journal of experimental botany.

[33]  W. Dröge-Laser,et al.  The Arabidopsis transcription factor bZIP11 activates auxin-mediated transcription by recruiting the histone acetylation machinery , 2014, Nature Communications.

[34]  J. Brumos,et al.  Genetic aspects of auxin biosynthesis and its regulation. , 2014, Physiologia plantarum.

[35]  Christopher M. Weber,et al.  Histone variants: dynamic punctuation in transcription , 2014, Genes & development.

[36]  Taiko K. To,et al.  Epigenetic regulation of gene responsiveness in Arabidopsis , 2014, Front. Plant Sci..

[37]  M. Kirpichnikov,et al.  Molecular mechanisms of transcription through a nucleosome by RNA polymerase II , 2013, Molecular Biology.

[38]  Xuncheng Liu,et al.  Involvement of histone modifications in plant abiotic stress responses. , 2013, Journal of integrative plant biology.

[39]  Y. Kamiya,et al.  A novel Arabidopsis MYB-like transcription factor, MYBH, regulates hypocotyl elongation by enhancing auxin accumulation , 2013, Journal of experimental botany.

[40]  Jun Hyeok Kim,et al.  Inhibition of histone deacetylation alters Arabidopsis root growth in response to auxin via PIN1 degradation , 2013, Plant Cell Reports.

[41]  Yunde Zhao,et al.  The jasmonic acid signaling pathway is linked to auxin homeostasis through the modulation of YUCCA8 and YUCCA9 gene expression. , 2013, The Plant journal : for cell and molecular biology.

[42]  Zhiping Weng,et al.  The correlation between histone modifications and gene expression. , 2013, Epigenomics.

[43]  K. Struhl,et al.  Determinants of nucleosome positioning , 2013, Nature Structural &Molecular Biology.

[44]  Gabino Sanchez-Perez,et al.  Local auxin biosynthesis regulation by PLETHORA transcription factors controls phyllotaxis in Arabidopsis , 2012, Proceedings of the National Academy of Sciences.

[45]  D. Coleman-Derr,et al.  Deposition of Histone Variant H2A.Z within Gene Bodies Regulates Responsive Genes , 2012, PLoS genetics.

[46]  I. Xenarios,et al.  Phytochrome interacting factors 4 and 5 control seedling growth in changing light conditions by directly controlling auxin signaling. , 2012, The Plant journal : for cell and molecular biology.

[47]  Chongsheng He,et al.  Reprogramming of H3K27me3 Is Critical for Acquisition of Pluripotency from Cultured Arabidopsis Tissues , 2012, PLoS genetics.

[48]  C. Gutiérrez,et al.  Auxin and Epigenetic Regulation of SKP2B, an F-Box That Represses Lateral Root Formation1[C][W][OA] , 2012, Plant Physiology.

[49]  Philip N Benfey,et al.  Control of Arabidopsis root development. , 2012, Annual review of plant biology.

[50]  T. Nishimura,et al.  DNA methylation in plants: relationship to small RNAs and histone modifications, and functions in transposon inactivation. , 2012, Plant & cell physiology.

[51]  P. Tricker,et al.  Low relative humidity triggers RNA-directed de novo DNA methylation and suppression of genes controlling stomatal development , 2012, Journal of experimental botany.

[52]  Katja E. Jaeger,et al.  PHYTOCHROME INTERACTING FACTOR4 controls the thermosensory activation of flowering , 2012, Nature.

[53]  Jinfang Chu,et al.  PIF4–Mediated Activation of YUCCA8 Expression Integrates Temperature into the Auxin Pathway in Regulating Arabidopsis Hypocotyl Growth , 2012, PLoS genetics.

[54]  W. Gray,et al.  PHYTOCHROME-INTERACTING FACTOR 4 (PIF4) regulates auxin biosynthesis at high temperature , 2011, Proceedings of the National Academy of Sciences.

[55]  H. Kawaide,et al.  The main auxin biosynthesis pathway in Arabidopsis , 2011, Proceedings of the National Academy of Sciences.

[56]  T. Jenuwein,et al.  Arabidopsis REF6 is a histone H3 lysine 27 demethylase , 2011, Nature Genetics.

[57]  A. Murphy,et al.  Seven things we think we know about auxin transport. , 2011, Molecular plant.

[58]  S. Henikoff,et al.  Histone variants and modifications in plant gene regulation. , 2011, Current opinion in plant biology.

[59]  Andrew J. Bannister,et al.  Regulation of chromatin by histone modifications , 2011, Cell Research.

[60]  O. Rando,et al.  Global Regulation of H2A.Z Localization by the INO80 Chromatin-Remodeling Enzyme Is Essential for Genome Integrity , 2011, Cell.

[61]  D. Zilberman,et al.  Genome-Wide Evolutionary Analysis of Eukaryotic DNA Methylation , 2010, Science.

[62]  Yunde Zhao Auxin biosynthesis and its role in plant development. , 2010, Annual review of plant biology.

[63]  I. Simon,et al.  DNA methylation and gene expression , 2010, Wiley interdisciplinary reviews. Systems biology and medicine.

[64]  P. Wigge,et al.  H2A.Z-Containing Nucleosomes Mediate the Thermosensory Response in Arabidopsis , 2010, Cell.

[65]  Aaron P. Smith,et al.  Histone H2A.Z Regulates the Expression of Several Classes of Phosphate Starvation Response Genes But Not as a Transcriptional Activator1[OA] , 2009, Plant Physiology.

[66]  D. Alabadí,et al.  Hormonal regulation of temperature-induced growth in Arabidopsis. , 2009, The Plant journal : for cell and molecular biology.

[67]  G. Choi,et al.  Histone occupancy-dependent and -independent removal of H3K27 trimethylation at cold-responsive genes in Arabidopsis. , 2009, The Plant journal : for cell and molecular biology.

[68]  G. Howe,et al.  The wound hormone jasmonate. , 2009, Phytochemistry.

[69]  K. Ljung,et al.  Local auxin biosynthesis modulates gradient-directed planar polarity in Arabidopsis , 2009, Nature Cell Biology.

[70]  H. Fukaki,et al.  Hormone interactions during lateral root formation , 2009, Plant Molecular Biology.

[71]  S. Henikoff,et al.  Histone H2A.Z and DNA methylation are mutually antagonistic chromatin marks , 2008, Nature.

[72]  K. Shinozaki,et al.  Alterations of lysine modifications on the histone H3 N-tail under drought stress conditions in Arabidopsis thaliana. , 2008, Plant & cell physiology.

[73]  Guanglin Li,et al.  Comparative analysis of JmjC domain-containing proteins reveals the potential histone demethylases in Arabidopsis and rice. , 2008, Journal of integrative plant biology.

[74]  Zhongchi Liu,et al.  Histone deacetylase genes in Arabidopsis development. , 2008, Journal of integrative plant biology.

[75]  Joanne Chory,et al.  Rapid Synthesis of Auxin via a New Tryptophan-Dependent Pathway Is Required for Shade Avoidance in Plants , 2008, Cell.

[76]  Kristian Helin,et al.  The emerging functions of histone demethylases. , 2008, Current opinion in genetics & development.

[77]  H. Bohnert,et al.  yucca6, a Dominant Mutation in Arabidopsis, Affects Auxin Accumulation and Auxin-Related Phenotypes1[W][OA] , 2007, Plant Physiology.

[78]  Ilha Lee,et al.  Arabidopsis homologs of components of the SWR1 complex regulate flowering and plant development , 2007, Development.

[79]  Makoto Matsuoka,et al.  Auxin Biosynthesis by the YUCCA Genes in Rice1[W][OA] , 2007, Plant Physiology.

[80]  C. Topp,et al.  Repression of Flowering in Arabidopsis Requires Activation of FLOWERING LOCUS C Expression by the Histone Variant H2A.Z[W][OA] , 2007, The Plant Cell Online.

[81]  C C Adams,et al.  Nucleosome displacement in transcription. , 2006, Cell.

[82]  Yunde Zhao,et al.  Auxin biosynthesis by the YUCCA flavin monooxygenases controls the formation of floral organs and vascular tissues in Arabidopsis. , 2006, Genes & development.

[83]  J. Mellor,et al.  Dynamic nucleosomes and gene transcription. , 2006, Trends in genetics : TIG.

[84]  Ilha Lee,et al.  SUPPRESSOR OF FRIGIDA3 Encodes a Nuclear ACTIN-RELATED PROTEIN6 Required for Floral Repression in Arabidopsisw⃞ , 2005, The Plant Cell Online.

[85]  R. Amasino,et al.  PIE1, an ISWI Family Gene, Is Required for FLC Activation and Floral Repression in Arabidopsis Article, publication date, and citation information can be found at www.plantcell.org/cgi/doi/10.1105/tpc.012161. , 2003, The Plant Cell Online.

[86]  D. Mount,et al.  Analysis of Histone Acetyltransferase and Histone Deacetylase Families of Arabidopsis Thaliana Suggests Functional Diversi®cation of Chromatin Modi®cation among Multicellular Eukaryotes , 2002 .

[87]  J. Chory,et al.  A role for flavin monooxygenase-like enzymes in auxin biosynthesis. , 2001, Science.

[88]  O. Leyser,et al.  Hormonal interactions in the control of Arabidopsis hypocotyl elongation. , 2000, Plant physiology.

[89]  C. Allis,et al.  The language of covalent histone modifications , 2000, Nature.

[90]  G. Sandberg,et al.  High temperature promotes auxin-mediated hypocotyl elongation in Arabidopsis. , 1998, Proceedings of the National Academy of Sciences of the United States of America.

[91]  R. Cleland,et al.  The Acid Growth Theory of auxin-induced cell elongation is alive and well. , 1992, Plant physiology.

[92]  R. Schneider,et al.  Lateral Thinking: How Histone Modifications Regulate Gene Expression. , 2016, Trends in genetics : TIG.

[93]  Miltos Tsiantis,et al.  Control of leaf and vein development by auxin. , 2010, Cold Spring Harbor perspectives in biology.

[94]  E. Aloni,et al.  Role of auxin in regulating Arabidopsis flower development , 2005, Planta.

[95]  Terrence S. Furey,et al.  The UCSC Genome Browser Database , 2003, Nucleic Acids Res..

[96]  J. Sánchez-Serrano,et al.  Wound signalling in plants. , 2001, Journal of experimental botany.