arabidopsis proteins

Summary

Summary: Proteins that originate from plants species belonging to the genus ARABIDOPSIS. The most intensely studied species of Arabidopsis, Arabidopsis thaliana, is commonly used in laboratory experiments.

Top Publications

  1. pmc The Arabidopsis CORONATINE INSENSITIVE1 protein is a jasmonate receptor
    Jianbin Yan
    Department of Biological Sciences, Tsinghua University, Beijing 100084, China
    Plant Cell 21:2220-36. 2009
  2. pmc In vitro reconstitution of an abscisic acid signalling pathway
    Hiroaki Fujii
    Department of Botany and Plant Sciences, University of California at Riverside, Riverside, California 92521, USA
    Nature 462:660-4. 2009
  3. ncbi MAPMAN: a user-driven tool to display genomics data sets onto diagrams of metabolic pathways and other biological processes
    Oliver Thimm
    Max Planck Institute for Molecular Plant Physiology, Golm, Germany
    Plant J 37:914-39. 2004
  4. pmc Genome-wide association study of 107 phenotypes in Arabidopsis thaliana inbred lines
    Susanna Atwell
    Molecular and Computational Biology, University of Southern California, Los Angeles, California 90089, USA
    Nature 465:627-31. 2010
  5. pmc Genome-wide identification and testing of superior reference genes for transcript normalization in Arabidopsis
    Tomasz Czechowski
    Max Planck Institute of Molecular Plant Physiology, Potsdam, Germany
    Plant Physiol 139:5-17. 2005
  6. ncbi MYB transcription factors in Arabidopsis
    Christian Dubos
    Institut Jean Pierre Bourgin, UMR1318 INRA AgroParisTech, 78026 Versailles Cedex, France
    Trends Plant Sci 15:573-81. 2010
  7. ncbi Arabidopsis mesophyll protoplasts: a versatile cell system for transient gene expression analysis
    Sang Dong Yoo
    Department of Molecular Biology, Massachusetts General Hospital, Boston, Massachusetts, USA
    Nat Protoc 2:1565-72. 2007
  8. ncbi Prediction of plant microRNA targets
    Matthew W Rhoades
    Whitehead Institute for Biomedical Research, 9 Cambridge Center, MA 02142, USA
    Cell 110:513-20. 2002
  9. ncbi MAP kinase signalling cascade in Arabidopsis innate immunity
    Tsuneaki Asai
    Department of Genetics, Harvard Medical School, Boston, Massachusetts 02114, USA
    Nature 415:977-83. 2002
  10. pmc Two transcription factors, DREB1 and DREB2, with an EREBP/AP2 DNA binding domain separate two cellular signal transduction pathways in drought- and low-temperature-responsive gene expression, respectively, in Arabidopsis
    Q Liu
    Biological Resources Division, Japan International Research Center for Agricultural Sciences JIRCAS, Ministry of Agriculture, Forestry, and Fisheries, 2 1 Ohwashi, Tsukuba, Ibaraki 305 8686, Japan
    Plant Cell 10:1391-406. 1998

Detail Information

Publications271 found, 100 shown here

  1. pmc The Arabidopsis CORONATINE INSENSITIVE1 protein is a jasmonate receptor
    Jianbin Yan
    Department of Biological Sciences, Tsinghua University, Beijing 100084, China
    Plant Cell 21:2220-36. 2009
    ..Taken together, these results demonstrate that COI1 directly binds to JA-Ile and COR and serves as a receptor for jasmonate...
  2. pmc In vitro reconstitution of an abscisic acid signalling pathway
    Hiroaki Fujii
    Department of Botany and Plant Sciences, University of California at Riverside, Riverside, California 92521, USA
    Nature 462:660-4. 2009
    ..Our results reveal new insights into ABA signalling mechanisms and define a minimal set of core components of a complete major ABA signalling pathway...
  3. ncbi MAPMAN: a user-driven tool to display genomics data sets onto diagrams of metabolic pathways and other biological processes
    Oliver Thimm
    Max Planck Institute for Molecular Plant Physiology, Golm, Germany
    Plant J 37:914-39. 2004
    ....
  4. pmc Genome-wide association study of 107 phenotypes in Arabidopsis thaliana inbred lines
    Susanna Atwell
    Molecular and Computational Biology, University of Southern California, Los Angeles, California 90089, USA
    Nature 465:627-31. 2010
    ..Our study demonstrates the feasibility of GWA studies in A. thaliana and suggests that the approach will be appropriate for many other organisms...
  5. pmc Genome-wide identification and testing of superior reference genes for transcript normalization in Arabidopsis
    Tomasz Czechowski
    Max Planck Institute of Molecular Plant Physiology, Potsdam, Germany
    Plant Physiol 139:5-17. 2005
    ..The developed PCR primers or hybridization probes for the novel reference genes will enable better normalization and quantification of transcript levels in Arabidopsis in the future...
  6. ncbi MYB transcription factors in Arabidopsis
    Christian Dubos
    Institut Jean Pierre Bourgin, UMR1318 INRA AgroParisTech, 78026 Versailles Cedex, France
    Trends Plant Sci 15:573-81. 2010
    ..The elucidation of MYB protein function and regulation that is possible in Arabidopsis will provide the foundation for predicting the contributions of MYB proteins to the biology of plants in general...
  7. ncbi Arabidopsis mesophyll protoplasts: a versatile cell system for transient gene expression analysis
    Sang Dong Yoo
    Department of Molecular Biology, Massachusetts General Hospital, Boston, Massachusetts, USA
    Nat Protoc 2:1565-72. 2007
    ..The cell system offers reliable guidelines for further comprehensive analysis of complex regulatory mechanisms in whole-plant physiology, immunity, growth and development...
  8. ncbi Prediction of plant microRNA targets
    Matthew W Rhoades
    Whitehead Institute for Biomedical Research, 9 Cambridge Center, MA 02142, USA
    Cell 110:513-20. 2002
    ..The targeting of developmental transcription factors suggests that many plant miRNAs function during cellular differentiation to clear key regulatory transcripts from daughter cell lineages...
  9. ncbi MAP kinase signalling cascade in Arabidopsis innate immunity
    Tsuneaki Asai
    Department of Genetics, Harvard Medical School, Boston, Massachusetts 02114, USA
    Nature 415:977-83. 2002
    ..Activation of this MAPK cascade confers resistance to both bacterial and fungal pathogens, suggesting that signalling events initiated by diverse pathogens converge into a conserved MAPK cascade...
  10. pmc Two transcription factors, DREB1 and DREB2, with an EREBP/AP2 DNA binding domain separate two cellular signal transduction pathways in drought- and low-temperature-responsive gene expression, respectively, in Arabidopsis
    Q Liu
    Biological Resources Division, Japan International Research Center for Agricultural Sciences JIRCAS, Ministry of Agriculture, Forestry, and Fisheries, 2 1 Ohwashi, Tsukuba, Ibaraki 305 8686, Japan
    Plant Cell 10:1391-406. 1998
    ..These results indicate that two independent families of DREB proteins, DREB1 and DREB2, function as trans-acting factors in two separate signal transduction pathways under low-temperature and dehydration conditions, respectively...
  11. ncbi JAZ repressor proteins are targets of the SCF(COI1) complex during jasmonate signalling
    Bryan Thines
    Institute of Biological Chemistry, Washington State University, Pullman, Washington 99164 6340, USA
    Nature 448:661-5. 2007
    ....
  12. ncbi Systemic acquired resistance
    W E Durrant
    Developmental, Cell, and Molecular Biology Group, Department of Biology, Duke University, Durham, North Carolina 27708, USA
    Annu Rev Phytopathol 42:185-209. 2004
    ..We discuss the molecular and genetic data that have contributed to our understanding of SAR and present a model describing the sequence of events leading from initial infection to the induction of defense genes...
  13. ncbi Plant stomata function in innate immunity against bacterial invasion
    Maeli Melotto
    Department of Energy Plant Research Laboratory, Michigan State University, East Lansing, MI 48824, USA
    Cell 126:969-80. 2006
    ..We provide evidence that supports a model in which stomata, as part of an integral innate immune system, act as a barrier against bacterial infection...
  14. ncbi Widespread translational inhibition by plant miRNAs and siRNAs
    Peter Brodersen
    Institut de Biologie Moleculaire des Plantes du CNRS, Unité Propre de Recherche 2357, 12 rue du Général Zimmer, 67084 Strasbourg Cedex, France
    Science 320:1185-90. 2008
    ..Also as in animals, the decapping component VARICOSE (VCS)/Ge-1 is required for translational repression by miRNAs, which suggests that the underlying mechanisms in the two kingdoms are related...
  15. pmc Genome-wide mapping of alternative splicing in Arabidopsis thaliana
    Sergei A Filichkin
    Department of Botany and Plant Pathology and Center for Genome Research and Biocomputing, Oregon State University, Corvallis, Oregon 97331, USA
    Genome Res 20:45-58. 2010
    ..Taken together, our results suggest that like in animals, NMD and RUST may be widespread in plants and may play important roles in regulating gene expression...
  16. ncbi The JAZ family of repressors is the missing link in jasmonate signalling
    A Chini
    Departamento de Genética Molecular de Plantas, Centro Nacional de Biotecnologia CSIC, Campus Universidad Autonoma, 28049 Madrid, Spain
    Nature 448:666-71. 2007
    ..Furthermore, we demonstrate the existence of a regulatory feed-back loop involving MYC2 and JAZ proteins, which provides a mechanistic explanation for the pulsed response to jasmonate and the subsequent desensitization of the cell...
  17. pmc The sequential action of miR156 and miR172 regulates developmental timing in Arabidopsis
    Gang Wu
    Department of Biology, University of Pennsylvania, Philadelphia, PA 19104, USA
    Cell 138:750-9. 2009
    ..miR156 and miR172 are positively regulated by the transcription factors they target, suggesting that negative feedback loops contribute to the stability of the juvenile and adult phases...
  18. pmc Abscisic acid inhibits type 2C protein phosphatases via the PYR/PYL family of START proteins
    Sang Youl Park
    Department of Botany and Plant Sciences, University of California at Riverside, Riverside, CA 92521, USA
    Science 324:1068-71. 2009
    ..Our results illustrate the power of the chemical genetic approach for sidestepping genetic redundancy...
  19. ncbi Regulators of PP2C phosphatase activity function as abscisic acid sensors
    Yue Ma
    Lehrstuhl fur Botanik, Technische Universitat Munchen, Am Hochanger 4, D 85354 Freising, Germany
    Science 324:1064-8. 2009
    ..Other RCARs also mediated ABA-dependent regulation of ABI1 and ABI2, consistent with a combinatorial assembly of receptor complexes...
  20. ncbi FT protein movement contributes to long-distance signaling in floral induction of Arabidopsis
    Laurent Corbesier
    Max Planck Institute for Plant Breeding Research, Carl von Linne Weg 10, D 50829 Cologne, Germany
    Science 316:1030-3. 2007
    ..Finally, we provide evidence that FT does not activate an intermediate messenger in leaves. We conclude that FT protein acts as a long-distance signal that induces Arabidopsis flowering...
  21. ncbi Local, efflux-dependent auxin gradients as a common module for plant organ formation
    Eva Benkova
    Zentrum für Molekularbiologie der Pflanzen, Universitat Tubingen, 72076 Tubingen, Germany
    Cell 115:591-602. 2003
    ..Our results suggest that PIN-dependent, local auxin gradients represent a common module for formation of all plant organs, regardless of their mature morphology or developmental origin...
  22. ncbi miR156-regulated SPL transcription factors define an endogenous flowering pathway in Arabidopsis thaliana
    Jia wei Wang
    Department of Molecular Biology, Max Planck Institute for Developmental Biology, D 72076 Tubingen, Germany
    Cell 138:738-49. 2009
    ....
  23. pmc The roles of segmental and tandem gene duplication in the evolution of large gene families in Arabidopsis thaliana
    Steven B Cannon
    Plant Biology Department, University of Minnesota, St, Paul, MN 55108, USA
    BMC Plant Biol 4:10. 2004
    ....
  24. ncbi A plant miRNA contributes to antibacterial resistance by repressing auxin signaling
    Lionel Navarro
    Sainsbury Laboratory, John Innes Centre, Colney Lane, Norwich NR4 7UH, UK
    Science 312:436-9. 2006
    ..Repression of auxin signaling restricts P. syringae growth, implicating auxin in disease susceptibility and miRNA-mediated suppression of auxin signaling in resistance...
  25. ncbi Cleavage of Scarecrow-like mRNA targets directed by a class of Arabidopsis miRNA
    Cesar Llave
    Center for Gene Research and Biotechnology, and Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR 97331, USA
    Science 297:2053-6. 2002
    ....
  26. ncbi FLS2: an LRR receptor-like kinase involved in the perception of the bacterial elicitor flagellin in Arabidopsis
    L Gomez-Gomez
    Friedrich Miescher Institut, Basel, Switzerland
    Mol Cell 5:1003-11. 2000
    ..FLS2 shares structural and functional homologies with known plant resistance genes and with components involved in the innate immune system of mammals and insects...
  27. pmc JASMONATE-INSENSITIVE1 encodes a MYC transcription factor essential to discriminate between different jasmonate-regulated defense responses in Arabidopsis
    Oscar Lorenzo
    Departamento de Genética Molecular de Plantas, Centro Nacional de Biotecnologia, Consejo Superior de Investigaciones Cientificas, Campus Universidad Autonoma, 28049 Madrid, Spain
    Plant Cell 16:1938-50. 2004
    ....
  28. ncbi NAC transcription factors: structurally distinct, functionally diverse
    Addie Nina Olsen
    Institute of Molecular Biology, University of Copenhagen, Øster Farimagsgade 2A, DK 1353 Copenhagen K, Denmark
    Trends Plant Sci 10:79-87. 2005
    ..Research into NAC transcription factors has demonstrated the importance of this protein family in the biology of plants and the need for further studies...
  29. ncbi Efflux-dependent auxin gradients establish the apical-basal axis of Arabidopsis
    Jiri Friml
    Zentrum für Molekularbiologie der Pflanzen, Universitat Tubingen, Auf der Morgenstelle 3, 72076 Tubingen, Germany
    Nature 426:147-53. 2003
    ..Our results indicate how the establishment of cell polarity, polar auxin efflux and local auxin response result in apical-basal axis formation of the embryo, and thus determine the axiality of the adult plant...
  30. ncbi A microRNA as a translational repressor of APETALA2 in Arabidopsis flower development
    Xuemei Chen
    Waksman Institute, Rutgers University, Piscataway, NJ 08854, USA
    Science 303:2022-5. 2004
    ..Therefore, miRNA172 likely acts in cell-fate specification as a translational repressor of APETALA2 in Arabidopsis flower development...
  31. ncbi Reactive oxygen species produced by NADPH oxidase regulate plant cell growth
    Julia Foreman
    Department of Cell and Developmental Biology, John Innes Centre, Norwich NR4 7UH, UK
    Nature 422:442-6. 2003
    ..This indicates that NADPH oxidases control development by making ROS that regulate plant cell expansion through the activation of Ca2+ channels...
  32. ncbi The PIN auxin efflux facilitator network controls growth and patterning in Arabidopsis roots
    Ikram Blilou
    Department of Molecular Genetics, Utrecht University, Padualaan 8, 3584CH Utrecht, The Netherlands
    Nature 433:39-44. 2005
    ..Our data reveal an interaction network of auxin transport facilitators and root fate determinants that control patterning and growth of the root primordium...
  33. ncbi ABA-mediated transcriptional regulation in response to osmotic stress in plants
    Yasunari Fujita
    Biological Resources Division, Japan International Research Center for Agricultural Sciences, 1 1 Ohwashi, Tsukuba, Ibaraki 305 8686, Japan
    J Plant Res 124:509-25. 2011
    ..This review mainly focuses on the transcriptional regulation of ABA-mediated gene expression in response to osmotic stress during the vegetative growth stage in Arabidopsis...
  34. pmc Sorting of small RNAs into Arabidopsis argonaute complexes is directed by the 5' terminal nucleotide
    Shijun Mi
    National Institute of Biological Sciences, No 7 Science Park Road, Zhongguancun Life Science Park, Beijing 102206, China
    Cell 133:116-27. 2008
    ..This suggests that specialization of AGO complexes might involve remodeling the 5' end-binding pocket to accept certain small RNA sequences, perhaps explaining the evolutionary drive for miRNAs to initiate with uridine...
  35. pmc The Arabidopsis Information Resource (TAIR): gene structure and function annotation
    David Swarbreck
    Carnegie Institution, Department of Plant Biology, 260 Panama St, Stanford, CA 94305, USA
    Nucleic Acids Res 36:D1009-14. 2008
    ..A total of 681 new genes and 1002 new splice variants were added. Overall, 10,098 loci (one-third of all loci from the previous TAIR6 release) were updated for the TAIR7 release...
  36. pmc Arabidopsis transcriptome profiling indicates that multiple regulatory pathways are activated during cold acclimation in addition to the CBF cold response pathway
    Sarah Fowler
    Department of Energy Plant Research Laboratory and Department of Crop and Soil Sciences, Michigan State University, East Lansing, MI 48824 1312, USA
    Plant Cell 14:1675-90. 2002
    ....
  37. pmc Cell signaling during cold, drought, and salt stress
    Liming Xiong
    Department of Plant Sciences, University of Arizona, Tucson, AZ 85721, USA
    Plant Cell 14:S165-83. 2002
  38. ncbi Locating proteins in the cell using TargetP, SignalP and related tools
    Olof Emanuelsson
    Stockholm Bioinformatics Center, AlbaNova, Stockholm University, SE 10691 Stockholm, Sweden
    Nat Protoc 2:953-71. 2007
    ..In addition, we describe and provide web references to other useful subcellular localization predictors. Finally, we discuss predictive performance measures in general and the performance of TargetP and SignalP in particular...
  39. ncbi Bacterial disease resistance in Arabidopsis through flagellin perception
    Cyril Zipfel
    Friedrich Miescher Institute for Biomedical Research, PO Box 2543, CH 4002 Basel, Switzerland
    Nature 428:764-7. 2004
    ..tomato DC3000 when it is sprayed on the leaf surface. Thus, flagellin perception restricts bacterial invasion, probably at an early step, and contributes to the plant's disease resistance...
  40. ncbi The F-box protein TIR1 is an auxin receptor
    Nihal Dharmasiri
    Department of Biology, Indiana University, Bloomington, Indiana 47405, USA
    Nature 435:441-5. 2005
    ..Finally, TIR1 synthesized in insect cells binds Aux/IAA proteins in an auxin-dependent manner. Together, these results indicate that TIR1 is an auxin receptor that mediates Aux/IAA degradation and auxin-regulated transcription...
  41. ncbi Multisubunit RNA polymerases IV and V: purveyors of non-coding RNA for plant gene silencing
    Jeremy R Haag
    Department of Biology, Indiana University, Bloomington, Indiana 47405, USA
    Nat Rev Mol Cell Biol 12:483-92. 2011
    ..However, their subunit compositions reveal that they evolved as specialized forms of RNA polymerase II, which provides the unique opportunity to study the functional diversification of a eukaryotic RNA polymerase family...
  42. pmc Arabidopsis ARGONAUTE1 is an RNA Slicer that selectively recruits microRNAs and short interfering RNAs
    N Baumberger
    Sainsbury Laboratory, Norwich Research Park, Norwich NR4 7UH, United Kingdom
    Proc Natl Acad Sci U S A 102:11928-33. 2005
    ..Based on sequence similarity, we predict that other Arabidopsis AGOs might have a similar catalytic activity but recruit different subsets of siRNAs or miRNAs...
  43. pmc ICE1: a regulator of cold-induced transcriptome and freezing tolerance in Arabidopsis
    Viswanathan Chinnusamy
    Department of Plant Sciences, University of Arizona, Tucson 85721, USA
    Genes Dev 17:1043-54. 2003
    ..ICE1 is expressed constitutively, and its overexpression in wild-type plants enhances the expression of the CBF regulon in the cold and improves freezing tolerance of the transgenic plants...
  44. ncbi Perception of the bacterial PAMP EF-Tu by the receptor EFR restricts Agrobacterium-mediated transformation
    Cyril Zipfel
    Botanical Institute, Zurich Basel Plant Science Centre, University of Basel, Hebelstrasse 1, CH 4056 Basel, Switzerland
    Cell 125:749-60. 2006
    ..These results demonstrate that EFR is the EF-Tu receptor and that plant defense responses induced by PAMPs such as EF-Tu reduce transformation by Agrobacterium...
  45. ncbi Signals from chloroplasts converge to regulate nuclear gene expression
    Shai Koussevitzky
    Howard Hughes Medical Institute, Salk Institute for Biological Studies, 10010 North Torrey Pines Road, La Jolla, CA 92037, USA
    Science 316:715-9. 2007
    ..We propose a model in which multiple indicators of aberrant plastid function in Arabidopsis are integrated upstream of GUN1 within plastids, which leads to ABI4-mediated repression of nuclear-encoded genes...
  46. pmc PHO2, microRNA399, and PHR1 define a phosphate-signaling pathway in plants
    Rajendra Bari
    Max Planck Institute for Molecular Plant Physiology, Science Park Golm, 14476 Potsdam, Germany
    Plant Physiol 141:988-99. 2006
    ....
  47. pmc Isolation and functional analysis of Arabidopsis stress-inducible NAC transcription factors that bind to a drought-responsive cis-element in the early responsive to dehydration stress 1 promoter
    Lam Son Phan Tran
    Biological Resources Division, Japan International Research Center for Agricultural Sciences, Tsukuba, Ibaraki 305 8686, Japan
    Plant Cell 16:2481-98. 2004
    ..However, erd1 was not upregulated in the transgenic plants. Other interacting factors may be necessary for the induction of erd1 in Arabidopsis under stress conditions...
  48. ncbi The R2R3-MYB gene family in Arabidopsis thaliana
    R Stracke
    Max Planck Institute for Plant Breeding Research, Carl von Linne Weg 10, D 50829, Koln, Germany
    Curr Opin Plant Biol 4:447-56. 2001
    ..R2R3-type MYB genes control many aspects of plant secondary metabolism, as well as the identity and fate of plant cells...
  49. pmc Arabidopsis AtMYC2 (bHLH) and AtMYB2 (MYB) function as transcriptional activators in abscisic acid signaling
    Hiroshi Abe
    Biological Resources Division, Japan International Research Center for Agricultural Sciences, 1 1 Ohwashi, Tsukuba, Ibaraki 305 8686, Japan
    Plant Cell 15:63-78. 2003
    ..These results indicate that both AtMYC2 and AtMYB2 proteins function as transcriptional activators in ABA-inducible gene expression under drought stress in plants...
  50. ncbi A multicolored set of in vivo organelle markers for co-localization studies in Arabidopsis and other plants
    Brook K Nelson
    Department of Biochemistry, Cellular and Molecular Biology, University of Tennessee, Knoxville, TN 37996 0840, USA
    Plant J 51:1126-36. 2007
    ..In addition, the Arabidopsis organelle marker lines can also be employed in plant cell biology teaching labs to demonstrate the distribution and dynamics of these organelles...
  51. pmc Arabidopsis circadian clock protein, TOC1, is a DNA-binding transcription factor
    Joshua M Gendron
    Section of Cell and Developmental Biology, Division of Biological Sciences, University of California at San Diego, La Jolla, CA 92093 0130, USA
    Proc Natl Acad Sci U S A 109:3167-72. 2012
    ..Taken together, these results define a biochemical action for the core clock protein TOC1 and refine our perspective on how plant clocks function...
  52. pmc Jasmonate perception by inositol-phosphate-potentiated COI1-JAZ co-receptor
    Laura B Sheard
    Department of Pharmacology, Box 357280, University of Washington, Seattle, Washington 98195, USA
    Nature 468:400-5. 2010
    ..Our results unravel the mechanism of jasmonate perception and highlight the ability of F-box proteins to evolve as multi-component signalling hubs...
  53. ncbi Molecular responses to dehydration and low temperature: differences and cross-talk between two stress signaling pathways
    K Shinozaki
    Laboratory of Plant Molecular Biology, Tsukuba Life Science Center, Institute of Physical and Chemical Research RIKEN, Tsukuba, 305 0074, Japan
    Curr Opin Plant Biol 3:217-23. 2000
    ..Recent studies are providing evidence of differences between dehydration-signaling and cold-stress-signaling cascades, and of cross-talk between them...
  54. pmc Posttranscriptional induction of two Cu/Zn superoxide dismutase genes in Arabidopsis is mediated by downregulation of miR398 and important for oxidative stress tolerance
    Ramanjulu Sunkar
    Institute for Integrative Genome Biology and Department of Botany and Plant Sciences, University of California, Riverside, California 92521, USA
    Plant Cell 18:2051-65. 2006
    ..Thus, relieving miR398-guided suppression of CSD2 in transgenic plants is an effective new approach to improving plant productivity under oxidative stress conditions...
  55. ncbi Genome-wide insertional mutagenesis of Arabidopsis thaliana
    Jose M Alonso
    Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA 92037, USA
    Science 301:653-7. 2003
    ..Insertion mutations were identified in genes that are regulated in response to the plant hormone ethylene...
  56. pmc Auxin: regulation, action, and interaction
    Andrew W Woodward
    Department of Biochemistry and Cell Biology, Rice University, 6100 Main Street, Houston, TX 77005, USA
    Ann Bot 95:707-35. 2005
    ..The phytohormone auxin is critical for plant growth and orchestrates many developmental processes...
  57. pmc A diverse and evolutionarily fluid set of microRNAs in Arabidopsis thaliana
    Ramya Rajagopalan
    Howard Hughes Medical Institute, Department of Biology, Massachusetts Institute of Technology, Whitehead Institute for Biomedical Research, Cambridge, Massachusetts 02142, USA
    Genes Dev 20:3407-25. 2006
    ....
  58. ncbi Auxin: a trigger for change in plant development
    Steffen Vanneste
    Department of Plant Systems Biology, VIB, Ghent University, Gent, Belgium
    Cell 136:1005-16. 2009
    ..Thus, auxin appears to be a versatile trigger of preprogrammed developmental changes in plant cells...
  59. pmc MYC2 differentially modulates diverse jasmonate-dependent functions in Arabidopsis
    Bruno Dombrecht
    Commonwealth Scientific and Industrial Research Organization Plant Industry, Queensland Bioscience Precinct, St Lucia, Queensland, 4067, Australia
    Plant Cell 19:2225-45. 2007
    ..Overall, these results provide new insights into the function of MYC2 and the transcriptional coordination of the JA signaling pathway...
  60. ncbi ABA induction of miR159 controls transcript levels of two MYB factors during Arabidopsis seed germination
    Jose L Reyes
    Laboratory of Plant Molecular Biology, The Rockefeller University, 1230 York Avenue, New York, NY 10021, USA
    Plant J 49:592-606. 2007
    ..Our results suggest that ABA-induced accumulation of miR159 is a homeostatic mechanism to direct MYB33 and MYB101 transcript degradation to desensitize hormone signaling during seedling stress responses...
  61. pmc Rational association of genes with traits using a genome-scale gene network for Arabidopsis thaliana
    Insuk Lee
    Department of Biotechnology, College of Life Science and Biotechnology, Yonsei University, Seodaemun gu, Seoul, Korea
    Nat Biotechnol 28:149-56. 2010
    ..AraNet (http://www.functionalnet.org/aranet/) provides a resource for plant gene function identification and genetic dissection of plant traits...
  62. pmc The action of ARGONAUTE1 in the miRNA pathway and its regulation by the miRNA pathway are crucial for plant development
    Herve Vaucheret
    Laboratoire de Biologie Cellulaire, Institut Jean Pierre Bourgin, INRA, 78026 Versailles Cedex, France
    Genes Dev 18:1187-97. 2004
    ....
  63. pmc Antagonistic interaction between abscisic acid and jasmonate-ethylene signaling pathways modulates defense gene expression and disease resistance in Arabidopsis
    Jonathan P Anderson
    Cooperative Research Centre for Tropical Plant Protection, University of Queensland, St Lucia, Queensland, 4072, Australia
    Plant Cell 16:3460-79. 2004
    ....
  64. pmc Glucosinolate metabolites required for an Arabidopsis innate immune response
    Nicole K Clay
    Department of Genetics, Harvard Medical School, Massachusetts General Hospital, Boston, MA 02114, USA
    Science 323:95-101. 2009
    ..Our study shows that well-studied plant metabolites, previously identified as important in avoiding damage by herbivores, are also required as a component of the plant defense response against microbial pathogens...
  65. pmc The Arabidopsis NFYA5 transcription factor is regulated transcriptionally and posttranscriptionally to promote drought resistance
    Wen Xue Li
    Key Laboratory of Plant and Soil Interactions, College of Resources and Environmental Sciences, China Agricultural University, Beijing 100094, China
    Plant Cell 20:2238-51. 2008
    ..Thus, NFYA5 is important for drought resistance, and its induction by drought stress occurs at both the transcriptional and posttranscriptional levels...
  66. pmc A battery of transcription factors involved in the regulation of secondary cell wall biosynthesis in Arabidopsis
    Ruiqin Zhong
    Department of Plant Biology, University of Georgia, Athens, Georgia 30602, USA
    Plant Cell 20:2763-82. 2008
    ....
  67. ncbi Radial patterning of Arabidopsis shoots by class III HD-ZIP and KANADI genes
    John F Emery
    Section of Plant Biology, University of California, Davis, Davis, CA 95616, USA
    Curr Biol 13:1768-74. 2003
    ..Thus, the class III HD-ZIP and KANADI genes comprise a genetic system that patterns abaxial-adaxial polarity in lateral organs produced from the apical meristem...
  68. pmc Uncovering small RNA-mediated responses to phosphate deficiency in Arabidopsis by deep sequencing
    Li Ching Hsieh
    Genomics Research Center, Academia Sinica, Taipei 115, Taiwan
    Plant Physiol 151:2120-32. 2009
    ..This study represents a comprehensive expression profiling of Pi-responsive small RNAs and advances our understanding of the regulation of Pi homeostasis mediated by small RNAs...
  69. ncbi Strigolactone inhibition of shoot branching
    Victoria Gomez-Roldan
    Universite de Toulouse, UPS, CNRS, Surface Cellulaire et Signalisation chez les Végétaux, 24 Chemin de Borde Rouge, F 31326 Castanet Tolosan, France
    Nature 455:189-94. 2008
    ..Furthermore, ccd8 mutants demonstrate the diverse effects of strigolactones in shoot branching, mycorrhizal symbiosis and parasitic weed interaction...
  70. pmc Plant immunity requires conformational changes [corrected] of NPR1 via S-nitrosylation and thioredoxins
    Yasuomi Tada
    Department of Biology, Post Office Box 90338, Duke University, Durham, NC 27708, USA
    Science 321:952-6. 2008
    ..Thus, the regulation of NPR1 is through the opposing action of GSNO and TRX. These findings suggest a link between pathogen-triggered redox changes and gene regulation in plant immunity...
  71. pmc Differential innate immune signalling via Ca(2+) sensor protein kinases
    Marie Boudsocq
    Department of Genetics, Harvard Medical School, Center for Computational and Integrative Biology, Massachusetts General Hospital, Massachusetts 02114, USA
    Nature 464:418-22. 2010
    ....
  72. ncbi Vernalization-mediated epigenetic silencing by a long intronic noncoding RNA
    Jae Bok Heo
    Section of Molecular Cell and Developmental Biology and Institute for Cellular and Molecular Biology, The University of Texas at Austin, TX 78712, USA
    Science 331:76-9. 2011
    ..COLDAIR physically associates with a component of PRC2 and targets PRC2 to FLC. Our results show that COLDAIR is required for establishing stable repressive chromatin at FLC through its interaction with PRC2...
  73. pmc SUBA: the Arabidopsis Subcellular Database
    Joshua L Heazlewood
    ARC Centre of Excellence in Plant Energy Biology, School of Biomedical, Biomolecular and Chemical Sciences, The University of Western Australia 35 Stirling Highway, Crawley 6009, Western Australia, Australia
    Nucleic Acids Res 35:D213-8. 2007
    ..undertaken to bring these various data sources together to build SUBA, a SUBcellular location database for Arabidopsis proteins. The localisation data in SUBA encompasses 10 distinct subcellular locations, >6743 non-redundant ..
  74. pmc ETHYLENE RESPONSE FACTOR1 integrates signals from ethylene and jasmonate pathways in plant defense
    Oscar Lorenzo
    Departamento de Genética Molecular de Plantas, Centro Nacional de Biotecnología Consejo Superior de Investigaciones Científicas, Campus Universidad Autonoma, 28049 Madrid, Spain
    Plant Cell 15:165-78. 2003
    ....
  75. ncbi Plant circadian clocks increase photosynthesis, growth, survival, and competitive advantage
    Antony N Dodd
    Department of Plant Sciences, University of Cambridge, Downing Street, Cambridge, CB2 3EA, UK
    Science 309:630-3. 2005
    ..This explains why plants gain advantage from circadian control...
  76. ncbi Methylation as a crucial step in plant microRNA biogenesis
    Bin Yu
    Waksman Institute, Rutgers University, Piscataway, NJ 08854, USA
    Science 307:932-5. 2005
    ..Our studies uncover a new and crucial step in plant miRNA biogenesis and have profound implications in the function of miRNAs...
  77. ncbi Regulation of polar auxin transport by AtPIN1 in Arabidopsis vascular tissue
    L Gälweiler
    Max Delbruck Laboratorium in der Max Planck Gesellschaft, Carl von Linne Weg 10, D 50829 Köln, Germany
    Science 282:2226-30. 1998
    ..AtPIN1 may act as a transmembrane component of the auxin efflux carrier...
  78. ncbi Roles of the CBF2 and ZAT12 transcription factors in configuring the low temperature transcriptome of Arabidopsis
    Jonathan T Vogel
    Michigan State University Department of Energy Plant Research Laboratory, Michigan State University, East Lansing, MI 48824 1312, USA
    Plant J 41:195-211. 2005
    ..In addition, ZAT12 downregulated the expression of the CBF genes indicating a role for ZAT12 in a negative regulatory circuit that dampens expression of the CBF cold response pathway...
  79. pmc The Arabidopsis bHLH transcription factors MYC3 and MYC4 are targets of JAZ repressors and act additively with MYC2 in the activation of jasmonate responses
    Patricia Fernández-Calvo
    Departamento de Genética Molecular de Plantas, Centro Nacional de Biotecnología Consejo Superior de Investigaciones Científicas, Campus Universidad Autonoma, 28049 Madrid, Spain
    Plant Cell 23:701-15. 2011
    ..Our results show that MYC3 and MYC4 are activators of JA-regulated programs that act additively with MYC2 to regulate specifically different subsets of the JA-dependent transcriptional response...
  80. pmc Genome-wide analysis of NBS-LRR-encoding genes in Arabidopsis
    Blake C Meyers
    Department of Vegetable Crops, University of California, Davis, California 95616, USA
    Plant Cell 15:809-34. 2003
    ..The observed diversity of these NBS-LRR proteins indicates the variety of recognition molecules available in an individual genotype to detect diverse biotic challenges...
  81. pmc Integrative epigenomic mapping defines four main chromatin states in Arabidopsis
    Francois Roudier
    Institut de Biologie de l Ecole Normale Supérieure, Centre National de la Recherche Scientifique CNRS UMR8197, Institut National de la Santé et de la Recherche Médicale INSERM U1024, Paris, France
    EMBO J 30:1928-38. 2011
    ..This first combinatorial view of the Arabidopsis epigenome points to simple principles of organization as in metazoans and provides a framework for further studies of chromatin-based regulatory mechanisms in plants...
  82. pmc ABP1 mediates auxin inhibition of clathrin-dependent endocytosis in Arabidopsis
    Stephanie Robert
    Department of Plant Systems Biology, VIB, 9052 Gent, Belgium
    Cell 143:111-21. 2010
    ....
  83. ncbi A dehydration-induced NAC protein, RD26, is involved in a novel ABA-dependent stress-signaling pathway
    Miki Fujita
    Laboratory of Plant Molecular Biology, RIKEN Tsukuba Institute, 3 1 1 Koyadai, Tsukuba, Ibaraki 305 0074, Japan
    Plant J 39:863-76. 2004
    ..Furthermore, RD26 activated a promoter of its target gene in Arabidopsis protoplasts. These results indicate that RD26 functions as a transcriptional activator in ABA-inducible gene expression under abiotic stress in plants...
  84. ncbi Arabidopsis microRNA167 controls patterns of ARF6 and ARF8 expression, and regulates both female and male reproduction
    Miin Feng Wu
    University of North Carolina at Chapel Hill, Department of Biology, CB 3280, Coker Hall, Chapel Hill, NC 27599 3280, USA
    Development 133:4211-8. 2006
    ..The essential patterning function of miR167 contrasts with cases from animals in which miRNAs reinforce or maintain transcriptionally established gene expression patterns...
  85. ncbi Auxin inhibits endocytosis and promotes its own efflux from cells
    Tomasz Paciorek
    Zentrum für Molekularbiologie der Pflanzen, Universitat Tubingen, 72076 Tubingen, Germany
    Nature 435:1251-6. 2005
    ....
  86. ncbi 'Green revolution' genes encode mutant gibberellin response modulators
    J Peng
    John Innes Centre, Norwich Research Park, UK
    Nature 400:256-61. 1999
    ..Transgenic rice plants containing a mutant GAI allele give reduced responses to gibberellin and are dwarfed, indicating that mutant GAI orthologues could be used to increase yield in a wide range of crop species...
  87. ncbi Plant ARGONAUTES
    Herve Vaucheret
    Laboratoire de Biologie Cellulaire, Institut Jean Pierre Bourgin, Institut National de la Recherche Agronomique INRA, 78026 Versailles Cedex, France
    Trends Plant Sci 13:350-8. 2008
    ....
  88. ncbi Inducers of plant systemic acquired resistance regulate NPR1 function through redox changes
    Zhonglin Mou
    Developmental, Cell, and Molecular Biology Group, Department of Biology, P O Box 91000, Duke University, Durham, NC 27708, USA
    Cell 113:935-44. 2003
    ..These data provide a missing link between accumulation of SA and activation of NPR1 in the SAR signaling pathway...
  89. ncbi An siRNA pathway prevents transgenerational retrotransposition in plants subjected to stress
    Hidetaka Ito
    Department of Plant Biology, University of Geneva, Sciences III, 30 Quai Ernest Ansermet, CH 1211 Geneva 4, Switzerland
    Nature 472:115-9. 2011
    ..Finally, we found that natural and experimentally induced variants in ONSEN insertions confer heat responsiveness to nearby genes, and therefore mobility bursts may generate novel, stress-responsive regulatory gene networks...
  90. ncbi Binding of brassinosteroids to the extracellular domain of plant receptor kinase BRI1
    Toshinori Kinoshita
    Howard Hughes Medical Institute and Plant Biology Laboratory, The Salk Institute for Biological Studies, 10010 N Torrey Pines Road, La Jolla, California 92037, USA
    Nature 433:167-71. 2005
    ..Our results demonstrate that brassinosteroids bind directly to the 94 amino acids comprising ID-LRR22 in the extracellular domain of BRI1, and define a new binding domain for steroid hormones...
  91. ncbi Arabidopsis type I metacaspases control cell death
    Nuria S Coll
    Department of Biology, 108 Coker Hall, University of North Carolina UNC, CB 3280, Chapel Hill, NC 27599 3280, USA
    Science 330:1393-7. 2010
    ..This does not lead to enhanced pathogen proliferation, decoupling HR from restriction of pathogen growth...
  92. pmc MicroRNA control of PHABULOSA in leaf development: importance of pairing to the microRNA 5' region
    Allison C Mallory
    Whitehead Institute for Biomedical Research, Cambridge, MA 02142 1479, USA
    EMBO J 23:3356-64. 2004
    ....
  93. pmc cis-Regulatory elements and chromatin state coordinately control temporal and spatial expression of FLOWERING LOCUS T in Arabidopsis
    Jessika Adrian
    Max Planck Institute for Plant Breeding Research, Koeln, Germany
    Plant Cell 22:1425-40. 2010
    ..Therefore, distant regulatory regions are required for FT transcription, reflecting the complexity of its control and differences in chromatin status delimit functionally important cis-regulatory regions...
  94. pmc Argonaute quenching and global changes in Dicer homeostasis caused by a pathogen-encoded GW repeat protein
    Jacinthe Azevedo
    Institut de Biologie Moleculaire des Plantes du CNRS, Universite de Strasbourg, 67084 Strasbourg Cedex, France
    Genes Dev 24:904-15. 2010
    ..The likely widespread occurrence and expected consequences of GW protein mimicry on host silencing pathways are discussed in the context of innate and adaptive immunity in plants and metazoans...
  95. pmc Comparative analysis of the receptor-like kinase family in Arabidopsis and rice
    Shin Han Shiu
    Department of Ecology and Evolution, University of Chicago, Chicago, Illinois 60637, USA
    Plant Cell 16:1220-34. 2004
    ..These findings led us to hypothesize that most of the recent expansions of the RLK/Pelle family have involved defense/resistance-related genes...
  96. pmc A conserved MYB transcription factor involved in phosphate starvation signaling both in vascular plants and in unicellular algae
    V Rubio
    Centro Nacional de Biotecnologia, Campus de Cantoblanco, 28049 Madrid, Spain
    Genes Dev 15:2122-33. 2001
    ..PHR1-binding sequences are present in the promoter of Pi starvation-responsive structural genes, indicating that this protein acts downstream in the Pi starvation signaling pathway...
  97. ncbi Visualization of protein interactions in living plant cells using bimolecular fluorescence complementation
    Michael Walter
    Institut fur Botanik und Botanischer Garten, Molekulare Entwicklungsbiologie der Pflanzen, Universitat Munster, Schlossplatz 4, 48149 Munster, Germany
    Plant J 40:428-38. 2004
    ..Consequently, the BiFC approach should significantly facilitate the visualization of the subcellular sites of protein interactions under conditions that closely reflect the normal physiological environment...
  98. ncbi A flagellin-induced complex of the receptor FLS2 and BAK1 initiates plant defence
    Delphine Chinchilla
    Zurich Basel Plant Science Center, Botanical Institute, University of Basel, Hebelstrasse 1, 4056 Basel, Switzerland
    Nature 448:497-500. 2007
    ..Thus, BAK1 is not only associated with developmental regulation through the plant hormone receptor BRI1 (refs 6,7), but also has a functional role in PRR-dependent signalling, which initiates innate immunity...
  99. ncbi Two novel GPCR-type G proteins are abscisic acid receptors in Arabidopsis
    Sona Pandey
    Biology Department, 208 Mueller Laboratory, Penn State University, University Park, PA 16802, USA
    Cell 136:136-48. 2009
    ..We identify and characterize two novel Arabidopsis proteins that show homology to an orphan vertebrate GPCR (GPR89) and interact with the sole Arabidopsis G protein ..
  100. pmc Two plant viral suppressors of silencing require the ethylene-inducible host transcription factor RAV2 to block RNA silencing
    Matthew W Endres
    Department of Biological Sciences, University of South Carolina, Columbia, South Carolina, USA
    PLoS Pathog 6:e1000729. 2010
    ....

Research Grants15

  1. Mucociliary Function in Chronic Bronchitis
    MATTHIAS A SALATHE; Fiscal Year: 2010
    ..The results of the proposed experiments, using novel and state-of-the-art methods, will provide new and important mechanistic insights into the regulation of mucociliary clearance in chronic bronchitis. ..
  2. DNA METHYLATION AND GENE SILENCING IN ARABIDOPSIS
    Judith Bender; Fiscal Year: 2008
    ..unreadable] [unreadable] [unreadable]..
  3. 2005 Epigenetics Gordon Research Conference
    Judith Bender; Fiscal Year: 2005
    ....
  4. MOLECULAR GENETIC STUDIES OF PLANT STEROID SIGNALING
    Jianming Li; Fiscal Year: 2008
    ....
  5. in vivo characterization of D2/D3 agonists & antagonists
    Gregory Collins; Fiscal Year: 2007
    ..abstract_text> ..
  6. Vernalization a cold-induced regulatory network establishing cellular memory
    Richard M Amasino; Fiscal Year: 2010
    ..A general understanding of epigenetic regulation in a range of multi-cellular organisms should ultimately contribute to the development of strategies to treat disease states. ..
  7. Analysis of the role of patellin in cytokinesis
    T Peterman; Fiscal Year: 2005
    ..Completion of the specific research aims will provide insight into the cellular role of patellin 1 during the maturation stage of cytokinesis. ..
  8. Preparing high resolution membrane protein crystals
    Zygmunt Derewenda; Fiscal Year: 2005
    ..abstract_text> ..
  9. Rapid protein crystallization by surface mutagenesis
    Zygmunt Derewenda; Fiscal Year: 2004
    ..Funds are requested to further test the general applicability and success rate of this method, and to apply the method to a subset of targets selected for the Structural Genomic Initiative. ..
  10. MEMBRANE FUNCTION IN MUTANTS OF CAENORHABDITIS ELEGANS
    John Browse; Fiscal Year: 2004
    ..Quantitative measures of low-temperature performance and thermotolerance of the range of desaturase mutants will be correlated with fatty acid composition and measurements of membrane fluidity. ..
  11. A Computational Genotyping System for Improved Influenza Surveillance
    Guoqing Lu; Fiscal Year: 2010
    ..With the genotyping database system, newly emerging influenza A viral genotypes can be identified in a timely and cost-effective manner. ..
  12. Interaction of auxin and abscisic acid signaling
    LUCIA STRADER; Fiscal Year: 2007
    ..By studying and cloning suppresors, as well as identifying IBR5 substrates, a more in-depth understanding of auxin and ABA cross-talk will be gained. ..
  13. Posttranscriptional control of meristem development
    KATHRYN BARTON; Fiscal Year: 2006
    ..Finally, we will perform experiments to determine to what degree PNH and AGO functions differ from one another and what gene or protein sequences are responsible for this specificity. ..
  14. METHODS FOR FUNCTIONAL/COMPARATIVE GENOMICS
    Xun Gu; Fiscal Year: 2003
    ..abstract_text> ..