دورية أكاديمية
Identification of a DNA N6-Adenine Methyltransferase Complex and Its Impact on Chromatin Organization.
| العنوان: | Identification of a DNA N6-Adenine Methyltransferase Complex and Its Impact on Chromatin Organization. |
|---|---|
| المؤلفون: | Beh LY; Departments of Biochemistry & Molecular Biophysics and Biological Sciences, Columbia University, New York, NY 10032, USA; Department of Chemistry, Princeton University, Princeton, NJ 08544, USA; Department of Ecology and Evolutionary Biology, Princeton University, Princeton, NJ 08544, USA., Debelouchina GT; Department of Chemistry, Princeton University, Princeton, NJ 08544, USA., Clay DM; Departments of Biochemistry & Molecular Biophysics and Biological Sciences, Columbia University, New York, NY 10032, USA., Thompson RE; Department of Chemistry, Princeton University, Princeton, NJ 08544, USA., Lindblad KA; Departments of Biochemistry & Molecular Biophysics and Biological Sciences, Columbia University, New York, NY 10032, USA., Hutton ER; Department of Ecology and Evolutionary Biology, Princeton University, Princeton, NJ 08544, USA., Bracht JR; Department of Biology, American University, Washington, DC 20016, USA., Sebra RP; Icahn Institute and Department of Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai, New York, NY 10029, USA., Muir TW; Department of Chemistry, Princeton University, Princeton, NJ 08544, USA. Electronic address: muir@princeton.edu., Landweber LF; Departments of Biochemistry & Molecular Biophysics and Biological Sciences, Columbia University, New York, NY 10032, USA. Electronic address: laura.landweber@columbia.edu. |
| المصدر: | Cell [Cell] 2019 Jun 13; Vol. 177 (7), pp. 1781-1796.e25. Date of Electronic Publication: 2019 May 16. |
| نوع المنشور: | Journal Article; Research Support, N.I.H., Extramural |
| اللغة: | English |
| بيانات الدورية: | Publisher: Cell Press Country of Publication: United States NLM ID: 0413066 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1097-4172 (Electronic) Linking ISSN: 00928674 NLM ISO Abbreviation: Cell Subsets: MEDLINE |
| أسماء مطبوعة: | Publication: Cambridge, Ma : Cell Press Original Publication: Cambridge, MIT Press. |
| مواضيع طبية MeSH: | Multienzyme Complexes/*metabolism , Nucleosomes/*enzymology , Oxytricha/*enzymology , Protozoan Proteins/*metabolism , Site-Specific DNA-Methyltransferase (Adenine-Specific)/*metabolism , Tetrahymena thermophila/*enzymology, Multienzyme Complexes/genetics ; Nucleosomes/genetics ; Oxytricha/genetics ; Protozoan Proteins/genetics ; Site-Specific DNA-Methyltransferase (Adenine-Specific)/genetics ; Tetrahymena thermophila/genetics |
| مستخلص: | DNA N6-adenine methylation (6mA) has recently been described in diverse eukaryotes, spanning unicellular organisms to metazoa. Here, we report a DNA 6mA methyltransferase complex in ciliates, termed MTA1c. It consists of two MT-A70 proteins and two homeobox-like DNA-binding proteins and specifically methylates dsDNA. Disruption of the catalytic subunit, MTA1, in the ciliate Oxytricha leads to genome-wide loss of 6mA and abolishment of the consensus ApT dimethylated motif. Mutants fail to complete the sexual cycle, which normally coincides with peak MTA1 expression. We investigate the impact of 6mA on nucleosome occupancy in vitro by reconstructing complete, full-length Oxytricha chromosomes harboring 6mA in native or ectopic positions. We show that 6mA directly disfavors nucleosomes in vitro in a local, quantitative manner, independent of DNA sequence. Furthermore, the chromatin remodeler ACF can overcome this effect. Our study identifies a diverged DNA N6-adenine methyltransferase and defines the role of 6mA in chromatin organization. (Copyright © 2019 Elsevier Inc. All rights reserved.) |
| References: | Methods Enzymol. 1999;304:3-19. (PMID: 10372352) Proc Natl Acad Sci U S A. 1978 Oct;75(10):4992-6. (PMID: 105360) J Biol Chem. 1999 Nov 12;274(46):33020-4. (PMID: 10551870) Proc Natl Acad Sci U S A. 1999 Dec 21;96(26):14967-72. (PMID: 10611321) Nucleic Acids Res. 2001 Jul 15;29(14):2994-3005. (PMID: 11452024) Methods. 2001 Dec;25(4):402-8. (PMID: 11846609) Cell. 2002 Sep 20;110(6):701-11. (PMID: 12297044) Anal Chem. 2003 Sep 1;75(17):4646-58. (PMID: 14632076) Methods Enzymol. 2003;371:499-515. (PMID: 14712724) Methods Enzymol. 2004;377:460-74. (PMID: 14979045) Genome Res. 2005 Oct;15(10):1451-5. (PMID: 16169926) J Mol Biol. 2006 Apr 28;358(2):559-70. (PMID: 16524590) PLoS Biol. 2006 Sep;4(9):e286. (PMID: 16933976) Genes Dev. 2007 Jun 15;21(12):1530-45. (PMID: 17575054) Nat Protoc. 2007;2(8):1896-906. (PMID: 17703201) Nature. 2008 Jan 10;451(7175):153-8. (PMID: 18046331) Nat Methods. 2008 Jul;5(7):621-8. (PMID: 18516045) Genome Res. 2008 Jul;18(7):1073-83. (PMID: 18550805) Nat Biotechnol. 2008 Dec;26(12):1351-9. (PMID: 19029915) PLoS One. 2009;4(2):e4429. (PMID: 19204800) Annu Rev Biochem. 2009;78:273-304. (PMID: 19355820) Bioinformatics. 2010 Mar 1;26(5):680-2. (PMID: 20053844) Curr Protoc Mol Biol. 2010 Jan;Chapter 19:Unit 19.10.1-21. (PMID: 20069535) Genome Biol. 2010;11(8):R86. (PMID: 20738864) Cell. 2011 Jan 21;144(2):175-86. (PMID: 21241889) Sci China Life Sci. 2011 Jan;54(1):65-7. (PMID: 21253873) Curr Protoc Mol Biol. 2011 Apr;Chapter 21:Unit21.21. (PMID: 21472695) PLoS One. 2012;7(2):e30630. (PMID: 22347391) Nat Methods. 2012 Mar 04;9(4):357-9. (PMID: 22388286) Methods Cell Biol. 2012;109:237-76. (PMID: 22444147) Genome Res. 2013 Jan;23(1):169-80. (PMID: 22936248) Cell. 2012 Dec 7;151(6):1243-55. (PMID: 23217708) Curr Protoc Bioinformatics. 2012 Dec;Chapter 13:Unit13.20. (PMID: 23255153) Cell. 2013 Jan 31;152(3):406-16. (PMID: 23374338) PLoS Biol. 2013;11(1):e1001473. (PMID: 23382650) Nat Struct Mol Biol. 2013 Mar;20(3):267-73. (PMID: 23463311) Nucleic Acids Res. 2013 Jul;41(Web Server issue):W22-8. (PMID: 23677614) PLoS Genet. 2013 May;9(5):e1003541. (PMID: 23737758) J Am Soc Mass Spectrom. 1994 Nov;5(11):976-89. (PMID: 24226387) Nat Chem Biol. 2014 Feb;10(2):93-5. (PMID: 24316715) Cell. 2014 Mar 13;156(6):1286-1297. (PMID: 24630728) Genetics. 2014 Jul;197(3):839-49. (PMID: 24793090) Cell. 2014 Aug 28;158(5):1187-1198. (PMID: 25171416) Nucleic Acids Res. 2015 Apr 30;43(8):e51. (PMID: 25653163) Mol Cell Biol. 2015 May;35(9):1588-605. (PMID: 25733687) Cell. 2015 May 7;161(4):879-892. (PMID: 25936837) Cell. 2015 May 7;161(4):893-906. (PMID: 25936838) Cell. 2015 May 7;161(4):868-78. (PMID: 25936839) Nucleic Acids Res. 2015 Jul 1;43(W1):W30-8. (PMID: 25943547) Microbiol Spectr. 2014 Dec;2(6):null. (PMID: 26104449) Genome Res. 2015 Nov;25(11):1727-38. (PMID: 26330564) Nat Rev Mol Cell Biol. 2015 Dec;16(12):705-10. (PMID: 26507168) Bioessays. 2016 Jan;38(1):27-40. (PMID: 26660621) Nat Struct Mol Biol. 2016 Jan;23(1):24-30. (PMID: 26689968) Nat Chem Biol. 2016 Mar;12(3):188-93. (PMID: 26807716) Nature. 2016 Apr 21;532(7599):329-33. (PMID: 27027282) Nature. 2016 May 25;534(7608):575-8. (PMID: 27281194) Mol Cell. 2016 Jul 21;63(2):306-317. (PMID: 27373337) Elife. 2016 Sep 14;5:. (PMID: 27627798) Nat Commun. 2016 Oct 07;7:13052. (PMID: 27713410) Nat Chem Biol. 2017 Jan;13(1):105-110. (PMID: 27870837) Angew Chem Int Ed Engl. 2017 Sep 4;56(37):11268-11271. (PMID: 28371147) Nat Genet. 2017 Jun;49(6):964-968. (PMID: 28481340) Cell. 2017 May 18;169(5):824-835.e14. (PMID: 28525753) Nat Rev Mol Cell Biol. 2017 Sep;18(9):548-562. (PMID: 28537572) Brief Bioinform. 2017 Sep 6;:null. (PMID: 28968734) Nucleic Acids Res. 2017 Nov 16;45(20):11594-11606. (PMID: 29036602) EMBO Rep. 2017 Nov;18(11):2004-2014. (PMID: 29051200) Nat Commun. 2017 Oct 24;8(1):1122. (PMID: 29066820) RNA. 2018 Jan;24(1):18-29. (PMID: 29079634) Nucleic Acids Res. 2018 Jan 25;46(2):840-848. (PMID: 29228259) Protein Cell. 2019 Apr;10(4):272-284. (PMID: 29542011) Dev Cell. 2018 May 7;45(3):406-416.e3. (PMID: 29656930) Mol Cell. 2018 Jul 19;71(2):306-318.e7. (PMID: 30017583) Nat Plants. 2018 Aug;4(8):554-563. (PMID: 30061746) Mol Cell. 2018 Sep 6;71(5):848-857.e6. (PMID: 30078725) Genome Biol. 2018 Nov 19;19(1):200. (PMID: 30454035) Biochim Biophys Acta. 1974 Nov 20;374(1):1-11. (PMID: 4429738) J Cell Biol. 1973 Mar;56(3):697-701. (PMID: 4631666) J Biol Chem. 1978 Feb 10;253(3):927-34. (PMID: 621212) Cell. 1984 Sep;38(2):501-10. (PMID: 6432344) Eur J Cell Biol. 1981 Apr;24(1):154-6. (PMID: 6786890) J Bacteriol. 1982 May;150(2):993-6. (PMID: 6950932) Microbiol Rev. 1994 Jun;58(2):233-67. (PMID: 8078435) Cell. 1976 Jan;7(1):67-74. (PMID: 820431) Cell. 1996 Mar 22;84(6):843-51. (PMID: 8601308) Cell. 1997 Jul 11;90(1):145-55. (PMID: 9230310) Nucleic Acids Res. 1997 Sep 1;25(17):3389-402. (PMID: 9254694) Mol Cell Biol. 1981 Jul;1(7):600-8. (PMID: 9279374) Proc Natl Acad Sci U S A. 1998 Jun 23;95(13):7480-4. (PMID: 9636175) Cold Spring Harb Symp Quant Biol. 1978;42 Pt 1:483-92. (PMID: 98283) J Bacteriol. 1978 Sep;135(3):1156-7. (PMID: 99431) |
| معلومات مُعتمدة: | R01 GM059708 United States GM NIGMS NIH HHS; R01 GM107047 United States GM NIGMS NIH HHS; R01 GM109459 United States GM NIGMS NIH HHS; R35 GM122555 United States GM NIGMS NIH HHS |
| فهرسة مساهمة: | Keywords: DNA methylation; N6-methyladenine; chromatin remodeling; nucleosome positioning; synthetic chromosomes |
| المشرفين على المادة: | 0 (Multienzyme Complexes) 0 (Nucleosomes) 0 (Protozoan Proteins) EC 2.1.1.72 (Site-Specific DNA-Methyltransferase (Adenine-Specific)) |
| تواريخ الأحداث: | Date Created: 20190521 Date Completed: 20200310 Latest Revision: 20200613 |
| رمز التحديث: | 20231215 |
| مُعرف محوري في PubMed: | PMC6570567 |
| DOI: | 10.1016/j.cell.2019.04.028 |
| PMID: | 31104845 |
| قاعدة البيانات: | MEDLINE |
| تدمد: | 1097-4172 |
|---|---|
| DOI: | 10.1016/j.cell.2019.04.028 |