Home LiteratureArticle Details
PMID: 19901554 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

The Arabidopsis chromatin modifier ATX1, the myotubularin-like AtMTM and the response to drought.

Plant signaling & behavior ·Vol. 4 ·No. 11 ·2009-11-00 ·Pages 1049-58

Ding Y, Lapko H, Ndamukong I, Xia Y, Al-Abdallat A, Lalithambika S, Sadder M, Saleh A, Fromm M, Riethoven JJ, Lu G, Avramova Z

Abstract

Plants respond to environmental stresses by altering transcription of genes involved in the response. The chromatin modifier ATX1 regulates expression of a large number of genes; consequently, factors that affect ATX1 activity would also influence expression from ATX1-regulated genes. Here, we demonstrate that dehydration is such a factor implicating ATX1 in the plant's response to drought. In addition, we report that a hitherto unknown Arabidopsis gene, At3g10550, encodes a phosphoinositide 3'-phosphatase related to the animal myotubularins (AtMTM1). Myotubularin activities in plants have not been described and herein, we identify an overlapping set of genes co-regulated by ATX1 and AtMTM under drought conditions. We propose that these shared genes represent the ultimate targets of partially overlapping branches of the pathways of the nuclear ATX1 and the cytoplasmic AtMTM1. Our analyses offer first genome-wide insights into the relationship of an epigenetic factor and a lipid phosphatase from the other end of a shared drought responding pathway in Arabidopsis.

MeSH Terms
Adaptation, Physiological/genetics Animals Arabidopsis/genetics,metabolism,physiology Arabidopsis Proteins/genetics,metabolism Cell Nucleus Chromatin Cytoplasm Dehydration Droughts Epigenesis, Genetic Gene Expression Gene Expression Regulation, Plant Genes, Plant Genome, Plant Histone-Lysine N-Methyltransferase Mitochondrial Proteins Phosphoric Monoester Hydrolases/genetics,metabolism Protein Tyrosine Phosphatases, Non-Receptor/genetics,metabolism Transcription Factors/genetics,metabolism
Chemicals
Arabidopsis Proteins Chromatin Mitochondrial Proteins Transcription Factors At2g31650 protein, Arabidopsis Histone-Lysine N-Methyltransferase myotubulerin protein, Arabidopsis Phosphoric Monoester Hydrolases Protein Tyrosine Phosphatases, Non-Receptor myotubularin
Authors & Affiliations
12 authors, click to expand affiliations / ORCID
Ding Yong
UNL Center for Biotechnology and Plant Science Initiative, UNL, Lincoln, NE, USA.
Lapko Hanna
Ndamukong Ivan
Xia Yuannan
Al-Abdallat Ayed
Lalithambika Sreedevi
Sadder Monther
Saleh Abdelaty
Fromm Michael
Riethoven Jean-Jack
Lu Guoqing
Avramova Zoya
References (42)
42 references, click to expand
  1. Loss of phosphatase activity in myotubularin-related protein 2 is associated with Charcot-Marie-Tooth disease type 4B1.
    Hum Mol Genet. 2002 Jun 15;11(13):1569-79 PMID: 12045210
  2. Arabidopsis DREB2A-interacting proteins function as RING E3 ligases and negatively regulate plant drought stress-responsive gene expression.
    Plant Cell. 2008 Jun;20(6):1693-707 PMID: 18552202
  3. Systematic mapping of genetic interactions in Caenorhabditis elegans identifies common modifiers of diverse signaling pathways.
    Nat Genet. 2006 Aug;38(8):896-903 PMID: 16845399
  4. Identification of a new polyphosphoinositide in plants, phosphatidylinositol 5-monophosphate (PtdIns5P), and its accumulation upon osmotic stress.
    Biochem J. 2001 Dec 1;360(Pt 2):491-8 PMID: 11716778
  5. Epigenetic control of a transcription factor at the cross section of two antagonistic pathways.
    Epigenetics. 2007 Apr-Jun;2(2):106-13 PMID: 17965588
  6. Linking lipids to chromatin.
    Curr Opin Genet Dev. 2004 Apr;14(2):196-202 PMID: 15196467
  7. A single gene network accurately predicts phenotypic effects of gene perturbation in Caenorhabditis elegans.
    Nat Genet. 2008 Feb;40(2):181-8 PMID: 18223650
  8. Emerging roles of phosphatidylinositol monophosphates in cellular signaling and trafficking.
    Adv Enzyme Regul. 2005;45:201-14 PMID: 16023705
  9. The highly similar Arabidopsis homologs of trithorax ATX1 and ATX2 encode proteins with divergent biochemical functions.
    Plant Cell. 2008 Mar;20(3):568-79 PMID: 18375658
  10. The Arabidopsis homolog of trithorax, ATX1, binds phosphatidylinositol 5-phosphate, and the two regulate a common set of target genes.
    Proc Natl Acad Sci U S A. 2006 Apr 11;103(15):6049-54 PMID: 16585509
  11. Methylation patterns of histone H3 Lys 4, Lys 9 and Lys 27 in transcriptionally active and inactive Arabidopsis genes and in atx1 mutants.
    Nucleic Acids Res. 2005 Sep 12;33(16):5199-207 PMID: 16157865
  12. Molecular basis for substrate recognition by MTMR2, a myotubularin family phosphoinositide phosphatase.
    Proc Natl Acad Sci U S A. 2006 Jan 24;103(4):927-32 PMID: 16410353
  13. Floral dip: a simplified method for Agrobacterium-mediated transformation of Arabidopsis thaliana.
    Plant J. 1998 Dec;16(6):735-43 PMID: 10069079
  14. Wall-modifying genes regulated by the Arabidopsis homolog of trithorax, ATX1: repression of the XTH33 gene as a test case.
    Plant J. 2009 May;58(4):541-53 PMID: 19154201
  15. Evolutionary capacitance as a general feature of complex gene networks.
    Nature. 2003 Jul 31;424(6948):549-52 PMID: 12891357
  16. Analysis of phosphoinositide binding domain properties within the myotubularin-related protein MTMR3.
    J Cell Sci. 2005 May 1;118(Pt 9):2005-12 PMID: 15840652
  17. Polycomb group and trithorax group proteins in Arabidopsis.
    Biochim Biophys Acta. 2007 May-Jun;1769(5-6):375-82 PMID: 17363079
  18. Transcriptional regulatory networks in cellular responses and tolerance to dehydration and cold stresses.
    Annu Rev Plant Biol. 2006;57:781-803 PMID: 16669782
  19. Pseudo-phosphatase Sbf1 contains an N-terminal GEF homology domain that modulates its growth regulatory properties.
    J Cell Sci. 2001 Aug;114(Pt 16):2921-7 PMID: 11686296
  20. Polycomb silencers control cell fate, development and cancer.
    Nat Rev Cancer. 2006 Nov;6(11):846-56 PMID: 17060944
  21. Alterations of lysine modifications on the histone H3 N-tail under drought stress conditions in Arabidopsis thaliana.
    Plant Cell Physiol. 2008 Oct;49(10):1580-8 PMID: 18779215
  22. Set domain-dependent regulation of transcriptional silencing and growth control by SUV39H1, a mammalian ortholog of Drosophila Su(var)3-9.
    Mol Cell Biol. 2000 Jul;20(13):4900-9 PMID: 10848615
  23. Phosphatidylinositol-5-phosphate activation and conserved substrate specificity of the myotubularin phosphatidylinositol 3-phosphatases.
    Curr Biol. 2003 Mar 18;13(6):504-9 PMID: 12646134
  24. Association of SET domain and myotubularin-related proteins modulates growth control.
    Nat Genet. 1998 Apr;18(4):331-7 PMID: 9537414
  25. The structure and regulation of myotubularin phosphatases.
    Curr Opin Struct Biol. 2005 Dec;15(6):614-20 PMID: 16289848
  26. Trithorax and dCBP acting in a complex to maintain expression of a homeotic gene.
    Science. 2001 Nov 9;294(5545):1331-4 PMID: 11701926
  27. Phosphatidylinositol 5-phosphate biosynthesis is linked to PIKfyve and is involved in osmotic response pathway in mammalian cells.
    J Biol Chem. 2002 Dec 6;277(49):47276-84 PMID: 12270933
  28. Epigenetics in development.
    Dev Dyn. 2007 Apr;236(4):1144-56 PMID: 17304537
  29. Use of fluorinated tyrosine phosphates to probe the substrate specificity of the low molecular weight phosphatase activity of calcineurin.
    J Biol Chem. 1985 Dec 5;260(28):14932-7 PMID: 2415511
  30. Myotubularin and MTMR2, phosphatidylinositol 3-phosphatases mutated in myotubular myopathy and type 4B Charcot-Marie-Tooth disease.
    J Biol Chem. 2002 Feb 8;277(6):4526-31 PMID: 11733541
  31. Myotubularin, a phosphatase deficient in myotubular myopathy, acts on phosphatidylinositol 3-kinase and phosphatidylinositol 3-phosphate pathway.
    Hum Mol Genet. 2000 Sep 22;9(15):2223-9 PMID: 11001925
  32. From genetics to epigenetics: the tale of Polycomb group and trithorax group genes.
    Chromosome Res. 2006;14(4):363-75 PMID: 16821133
  33. GATEWAY vectors for Agrobacterium-mediated plant transformation.
    Trends Plant Sci. 2002 May;7(5):193-5 PMID: 11992820
  34. Osmotic stress activates phosphatidylinositol-3,5-bisphosphate synthesis.
    Nature. 1997 Nov 13;390(6656):187-92 PMID: 9367158
  35. Perceptions of epigenetics.
    Nature. 2007 May 24;447(7143):396-8 PMID: 17522671
  36. Myotubularin phosphatases: policing 3-phosphoinositides.
    Trends Cell Biol. 2006 Aug;16(8):403-12 PMID: 16828287
  37. Salinity and hyperosmotic stress induce rapid increases in phosphatidylinositol 4,5-bisphosphate, diacylglycerol pyrophosphate, and phosphatidylcholine in Arabidopsis thaliana cells.
    J Biol Chem. 1999 Dec 31;274(53):38232-40 PMID: 10608898
  38. ATX-1, an Arabidopsis homolog of trithorax, activates flower homeotic genes.
    Curr Biol. 2003 Apr 15;13(8):627-37 PMID: 12699618
  39. Production of phosphatidylinositol 5-phosphate by the phosphoinositide 3-phosphatase myotubularin in mammalian cells.
    J Biol Chem. 2004 Feb 20;279(8):7304-12 PMID: 14660569
  40. Does chromatin remodeling mark systemic acquired resistance?
    Trends Plant Sci. 2009 May;14(5):286-94 PMID: 19369112
  41. Phosphoinositide 5-phosphate and phosphoinositide 4-phosphate trigger distinct specific responses of Arabidopsis genes: genome-wide expression analyses.
    Plant Signal Behav. 2006 May;1(3):140-51 PMID: 19521494
  42. AffyMiner: mining differentially expressed genes and biological knowledge in GeneChip microarray data.
    BMC Bioinformatics. 2006 Dec 12;7 Suppl 4:S26 PMID: 17217519
Article Info
Journal
Plant signaling & behavior
Abbr.
Plant Signal Behav
ISSN
1559-2324
DOI
10.4161/psb.4.11.10103
Published
2009-11-00
Epub
2009-00-15
Pages
1049-58
Language
English
Region
United States
NLM ID
101291431
PMCID
PMC2819512
Subset
IM
External Links
PubMed source DOI: 10.4161/psb.4.11.10103 PMC Full Text View journal details
Analysis Services
Analysis Services

Contact

No. 2 Wenbo Road, Zhangqiu District, Jinan, Shandong

Qilu Normal University · Genelibs Bioinformatics Lab

750 Shunhua Rd, Jinan

2F, Bldg F, University Science Park

Tel: 0531-88819269

WeChat Official Account

Follow our WeChat subscription account for real-time updates and the latest in medical and biological research.


Business Email

E-mail: product@genelibs.com

Copyright © 2026.Genelibs Jinan Honghui Biotechnology Co., Ltd. 鲁ICP备20007159号-2