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Genetics. Mar 2003; 163(3): 1109–1122.
PMCID: PMC1462485

Arabidopsis MET1 cytosine methyltransferase mutants.

Abstract

We describe the isolation and characterization of two missense mutations in the cytosine-DNA-methyltransferase gene, MET1, from the flowering plant Arabidopsis thaliana. Both missense mutations, which affect the catalytic domain of the protein, led to a global reduction of cytosine methylation throughout the genome. Surprisingly, the met1-2 allele, with the weaker DNA hypomethylation phenotype, alters a well-conserved residue in methyltransferase signature motif I. The stronger met1-1 allele caused late flowering and a heterochronic delay in the juvenile-to-adult rosette leaf transition. The distribution of late-flowering phenotypes in a mapping population segregating met1-1 indicates that the flowering-time phenotype is caused by the accumulation of inherited defects at loci unlinked to the met1 mutation. The delay in flowering time is due in part to the formation and inheritance of hypomethylated fwa epialleles, but inherited defects at other loci are likely to contribute as well. Centromeric repeat arrays hypomethylated in met1-1 mutants are partially remethylated when introduced into a wild-type background, in contrast to genomic sequences hypomethylated in ddm1 mutants. ddm1 met1 double mutants were constructed to further our understanding of the mechanism of DDM1 action and the interaction between two major genetic loci affecting global cytosine methylation levels in Arabidopsis.

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Selected References

These references are in PubMed. This may not be the complete list of references from this article.
  • Henikoff S, Comai L. A DNA methyltransferase homolog with a chromodomain exists in multiple polymorphic forms in Arabidopsis. Genetics. 1998 May;149(1):307–318. [PMC free article] [PubMed]
  • Holliday R, Pugh JE. DNA modification mechanisms and gene activity during development. Science. 1975 Jan 24;187(4173):226–232. [PubMed]
  • Jackson James P, Lindroth Anders M, Cao Xiaofeng, Jacobsen Steven E. Control of CpNpG DNA methylation by the KRYPTONITE histone H3 methyltransferase. Nature. 2002 Apr 4;416(6880):556–560. [PubMed]
  • Jacobsen SE, Sakai H, Finnegan EJ, Cao X, Meyerowitz EM. Ectopic hypermethylation of flower-specific genes in Arabidopsis. Curr Biol. 2000 Feb 24;10(4):179–186. [PubMed]
  • Jeddeloh JA, Richards EJ. mCCG methylation in angiosperms. Plant J. 1996 May;9(5):579–586. [PubMed]
  • Jeddeloh JA, Bender J, Richards EJ. The DNA methylation locus DDM1 is required for maintenance of gene silencing in Arabidopsis. Genes Dev. 1998 Jun 1;12(11):1714–1725. [PMC free article] [PubMed]
  • Bartee L, Bender J. Two Arabidopsis methylation-deficiency mutations confer only partial effects on a methylated endogenous gene family. Nucleic Acids Res. 2001 May 15;29(10):2127–2134. [PMC free article] [PubMed]
  • Jeddeloh JA, Stokes TL, Richards EJ. Maintenance of genomic methylation requires a SWI2/SNF2-like protein. Nat Genet. 1999 May;22(1):94–97. [PubMed]
  • Bartee L, Malagnac F, Bender J. Arabidopsis cmt3 chromomethylase mutations block non-CG methylation and silencing of an endogenous gene. Genes Dev. 2001 Jul 15;15(14):1753–1758. [PMC free article] [PubMed]
  • Jenuwein T, Allis CD. Translating the histone code. Science. 2001 Aug 10;293(5532):1074–1080. [PubMed]
  • Johnson Lianna, Cao Xiaofeng, Jacobsen Steven. Interplay between two epigenetic marks. DNA methylation and histone H3 lysine 9 methylation. Curr Biol. 2002 Aug 20;12(16):1360–1367. [PubMed]
  • Kakutani T. Genetic characterization of late-flowering traits induced by DNA hypomethylation mutation in Arabidopsis thaliana. Plant J. 1997 Dec;12(6):1447–1451. [PubMed]
  • Busslinger M, deBoer E, Wright S, Grosveld FG, Flavell RA. The sequence GGCmCGG is resistant to MspI cleavage. Nucleic Acids Res. 1983 Jun 11;11(11):3559–3569. [PMC free article] [PubMed]
  • Kakutani T, Jeddeloh JA, Richards EJ. Characterization of an Arabidopsis thaliana DNA hypomethylation mutant. Nucleic Acids Res. 1995 Jan 11;23(1):130–137. [PMC free article] [PubMed]
  • Cao Xiaofeng, Jacobsen Steven E. Locus-specific control of asymmetric and CpNpG methylation by the DRM and CMT3 methyltransferase genes. Proc Natl Acad Sci U S A. 2002 Dec 10;99 (Suppl 4):16491–16498. [PMC free article] [PubMed]
  • Kakutani T, Jeddeloh JA, Flowers SK, Munakata K, Richards EJ. Developmental abnormalities and epimutations associated with DNA hypomethylation mutations. Proc Natl Acad Sci U S A. 1996 Oct 29;93(22):12406–12411. [PMC free article] [PubMed]
  • Cao Xiaofeng, Jacobsen Steven E. Role of the arabidopsis DRM methyltransferases in de novo DNA methylation and gene silencing. Curr Biol. 2002 Jul 9;12(13):1138–1144. [PubMed]
  • Kakutani T, Munakata K, Richards EJ, Hirochika H. Meiotically and mitotically stable inheritance of DNA hypomethylation induced by ddm1 mutation of Arabidopsis thaliana. Genetics. 1999 Feb;151(2):831–838. [PMC free article] [PubMed]
  • Cao X, Springer NM, Muszynski MG, Phillips RL, Kaeppler S, Jacobsen SE. Conserved plant genes with similarity to mammalian de novo DNA methyltransferases. Proc Natl Acad Sci U S A. 2000 Apr 25;97(9):4979–4984. [PMC free article] [PubMed]
  • Kishimoto N, Sakai H, Jackson J, Jacobsen SE, Meyerowitz EM, Dennis ES, Finnegan EJ. Site specificity of the Arabidopsis METI DNA methyltransferase demonstrated through hypermethylation of the superman locus. Plant Mol Biol. 2001 May;46(2):171–183. [PubMed]
  • Cedar H, Solage A, Glaser G, Razin A. Direct detection of methylated cytosine in DNA by use of the restriction enzyme MspI. Nucleic Acids Res. 1979;6(6):2125–2132. [PMC free article] [PubMed]
  • Li E, Bestor TH, Jaenisch R. Targeted mutation of the DNA methyltransferase gene results in embryonic lethality. Cell. 1992 Jun 12;69(6):915–926. [PubMed]
  • Chen RZ, Pettersson U, Beard C, Jackson-Grusby L, Jaenisch R. DNA hypomethylation leads to elevated mutation rates. Nature. 1998 Sep 3;395(6697):89–93. [PubMed]
  • Lindroth AM, Cao X, Jackson JP, Zilberman D, McCallum CM, Henikoff S, Jacobsen SE. Requirement of CHROMOMETHYLASE3 for maintenance of CpXpG methylation. Science. 2001 Jun 15;292(5524):2077–2080. [PubMed]
  • Cheng X. Structure and function of DNA methyltransferases. Annu Rev Biophys Biomol Struct. 1995;24:293–318. [PubMed]
  • Malagnac F, Wendel B, Goyon C, Faugeron G, Zickler D, Rossignol JL, Noyer-Weidner M, Vollmayr P, Trautner TA, Walter J. A gene essential for de novo methylation and development in Ascobolus reveals a novel type of eukaryotic DNA methyltransferase structure. Cell. 1997 Oct 17;91(2):281–290. [PubMed]
  • Cocciolone SM, Cone KC. Pl-Bh, an anthocyanin regulatory gene of maize that leads to variegated pigmentation. Genetics. 1993 Oct;135(2):575–588. [PMC free article] [PubMed]
  • Miura A, Yonebayashi S, Watanabe K, Toyama T, Shimada H, Kakutani T. Mobilization of transposons by a mutation abolishing full DNA methylation in Arabidopsis. Nature. 2001 May 10;411(6834):212–214. [PubMed]
  • Colot V, Rossignol JL. Eukaryotic DNA methylation as an evolutionary device. Bioessays. 1999 May;21(5):402–411. [PubMed]
  • Dodge Jonathan E, Ramsahoye Bernard H, Wo Z Galen, Okano Masaki, Li En. De novo methylation of MMLV provirus in embryonic stem cells: CpG versus non-CpG methylation. Gene. 2002 May 1;289(1-2):41–48. [PubMed]
  • Okano M, Bell DW, Haber DA, Li E. DNA methyltransferases Dnmt3a and Dnmt3b are essential for de novo methylation and mammalian development. Cell. 1999 Oct 29;99(3):247–257. [PubMed]
  • Papa CM, Springer NM, Muszynski MG, Meeley R, Kaeppler SM. Maize chromomethylase Zea methyltransferase2 is required for CpNpG methylation. Plant Cell. 2001 Aug;13(8):1919–1928. [PMC free article] [PubMed]
  • Finnegan EJ, Kovac KA. Plant DNA methyltransferases. Plant Mol Biol. 2000 Jun;43(2-3):189–201. [PubMed]
  • Pósfai J, Bhagwat AS, Pósfai G, Roberts RJ. Predictive motifs derived from cytosine methyltransferases. Nucleic Acids Res. 1989 Apr 11;17(7):2421–2435. [PMC free article] [PubMed]
  • Finnegan EJ, Peacock WJ, Dennis ES. Reduced DNA methylation in Arabidopsis thaliana results in abnormal plant development. Proc Natl Acad Sci U S A. 1996 Aug 6;93(16):8449–8454. [PMC free article] [PubMed]
  • Pradhan S, Bacolla A, Wells RD, Roberts RJ. Recombinant human DNA (cytosine-5) methyltransferase. I. Expression, purification, and comparison of de novo and maintenance methylation. J Biol Chem. 1999 Nov 12;274(46):33002–33010. [PubMed]
  • Fuks Francois, Hurd Paul J, Wolf Daniel, Nan Xinsheng, Bird Adrian P, Kouzarides Tony. The methyl-CpG-binding protein MeCP2 links DNA methylation to histone methylation. J Biol Chem. 2003 Feb 7;278(6):4035–4040. [PubMed]
  • Gendrel Anne-Valérie, Lippman Zachary, Yordan Cristy, Colot Vincent, Martienssen Robert A. Dependence of heterochromatic histone H3 methylation patterns on the Arabidopsis gene DDM1. Science. 2002 Sep 13;297(5588):1871–1873. [PubMed]
  • Rice JC, Allis CD. Code of silence. Nature. 2001 Nov 15;414(6861):258–261. [PubMed]
  • Richards Eric J. Chromatin methylation: who's on first? Curr Biol. 2002 Oct 15;12(20):R694–R695. [PubMed]
  • Tamaru H, Selker EU. A histone H3 methyltransferase controls DNA methylation in Neurospora crassa. Nature. 2001 Nov 15;414(6861):277–283. [PubMed]
  • Telfer A, Bollman KM, Poethig RS. Phase change and the regulation of trichome distribution in Arabidopsis thaliana. Development. 1997 Feb;124(3):645–654. [PubMed]
  • Ronemus MJ, Galbiati M, Ticknor C, Chen J, Dellaporta SL. Demethylation-induced developmental pleiotropy in Arabidopsis. Science. 1996 Aug 2;273(5275):654–657. [PubMed]
  • Ungerer Mark C, Halldorsdottir Solveig S, Modliszewski Jennifer L, Mackay Trudy F C, Purugganan Michael D. Quantitative trait loci for inflorescence development in Arabidopsis thaliana. Genetics. 2002 Mar;160(3):1133–1151. [PMC free article] [PubMed]
  • Singer T, Yordan C, Martienssen RA. Robertson's Mutator transposons in A. thaliana are regulated by the chromatin-remodeling gene Decrease in DNA Methylation (DDM1). Genes Dev. 2001 Mar 1;15(5):591–602. [PMC free article] [PubMed]
  • Vongs A, Kakutani T, Martienssen RA, Richards EJ. Arabidopsis thaliana DNA methylation mutants. Science. 1993 Jun 25;260(5116):1926–1928. [PubMed]
  • Soppe WJ, Jacobsen SE, Alonso-Blanco C, Jackson JP, Kakutani T, Koornneef M, Peeters AJ. The late flowering phenotype of fwa mutants is caused by gain-of-function epigenetic alleles of a homeodomain gene. Mol Cell. 2000 Oct;6(4):791–802. [PubMed]
  • Wilkinson CR, Bartlett R, Nurse P, Bird AP. The fission yeast gene pmt1+ encodes a DNA methyltransferase homologue. Nucleic Acids Res. 1995 Jan 25;23(2):203–210. [PMC free article] [PubMed]
  • Soppe Wim J J, Jasencakova Zuzana, Houben Andreas, Kakutani Tetsuji, Meister Armin, Huang Michael S, Jacobsen Steven E, Schubert Ingo, Fransz Paul F. DNA methylation controls histone H3 lysine 9 methylation and heterochromatin assembly in Arabidopsis. EMBO J. 2002 Dec 2;21(23):6549–6559. [PMC free article] [PubMed]

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