دورية أكاديمية
Role of Histone Tails and Single Strand DNA Breaks in Nucleosomal Arrest of RNA Polymerase.
العنوان: | Role of Histone Tails and Single Strand DNA Breaks in Nucleosomal Arrest of RNA Polymerase. |
---|---|
المؤلفون: | Gerasimova NS; Institute of Gene Biology, Russian Academy of Sciences, 119334 Moscow, Russia.; Faculty of Biology, Lomonosov Moscow State University, 119234 Moscow, Russia., Pestov NA; Department of Pharmacology, Rutgers Robert Wood Johnson Medical School, Piscataway, NJ 08854, USA., Studitsky VM; Faculty of Biology, Lomonosov Moscow State University, 119234 Moscow, Russia.; Fox Chase Cancer Center, Philadelphia, PA 19111, USA. |
المصدر: | International journal of molecular sciences [Int J Mol Sci] 2023 Jan 24; Vol. 24 (3). Date of Electronic Publication: 2023 Jan 24. |
نوع المنشور: | Journal Article |
اللغة: | English |
بيانات الدورية: | Publisher: MDPI Country of Publication: Switzerland NLM ID: 101092791 Publication Model: Electronic Cited Medium: Internet ISSN: 1422-0067 (Electronic) Linking ISSN: 14220067 NLM ISO Abbreviation: Int J Mol Sci Subsets: MEDLINE |
أسماء مطبوعة: | Original Publication: Basel, Switzerland : MDPI, [2000- |
مواضيع طبية MeSH: | Nucleosomes*/genetics , Histones*/genetics , Histones*/metabolism, Transcription, Genetic ; RNA Polymerase II/genetics ; DNA Breaks, Single-Stranded ; DNA-Directed RNA Polymerases/genetics ; DNA-Directed RNA Polymerases/metabolism ; DNA/genetics ; DNA, Single-Stranded |
مستخلص: | Transcription through nucleosomes by RNA polymerases (RNAP) is accompanied by formation of small intranucleosomal DNA loops (i-loops). The i-loops form more efficiently in the presence of single-strand breaks or gaps in a non-template DNA strand (NT-SSBs) and induce arrest of transcribing RNAP, thus allowing detection of NT-SSBs by the enzyme. Here we examined the role of histone tails and extranucleosomal NT-SSBs in i-loop formation and arrest of RNAP during transcription of promoter-proximal region of nucleosomal DNA. NT-SSBs present in linker DNA induce arrest of RNAP +1 to +15 bp in the nucleosome, suggesting formation of the i-loops; the arrest is more efficient in the presence of the histone tails. Consistently, DNA footprinting reveals formation of an i-loop after stalling RNAP at the position +2 and backtracking to position +1. The data suggest that histone tails and NT-SSBs present in linker DNA strongly facilitate formation of the i-loops during transcription through the promoter-proximal region of nucleosomal DNA. |
References: | Mol Cell. 2014 Mar 6;53(5):819-30. (PMID: 24606920) J Mol Biol. 1994 Jan 21;235(3):1062-71. (PMID: 8289308) J Biol Chem. 2003 Sep 19;278(38):36148-56. (PMID: 12851391) Transcription. 2016 May 26;7(3):91-5. (PMID: 27115204) Cell. 2017 Feb 9;168(4):644-656. (PMID: 28187286) Sci Adv. 2015 Jul 03;1(6):e1500021. (PMID: 26601207) Nat Methods. 2012 Jun 28;9(7):676-82. (PMID: 22743772) Biochim Biophys Acta. 2002 Sep 13;1577(2):276-86. (PMID: 12213658) Annu Rev Genomics Hum Genet. 2007;8:37-55. (PMID: 17887919) DNA Repair (Amst). 2013 Aug;12(8):588-99. (PMID: 23684796) J Mol Biol. 1999 Apr 30;288(2):213-29. (PMID: 10329138) DNA Repair (Amst). 2013 Aug;12(8):620-36. (PMID: 23684800) Nucleic Acids Res. 2020 Feb 28;48(4):1925-1940. (PMID: 31828326) Cells. 2022 Aug 28;11(17):. (PMID: 36078089) Nucleic Acids Res. 2013 Feb 1;41(3):1817-28. (PMID: 23275544) EMBO Rep. 2022 Jun 7;23(6):e54217. (PMID: 35499251) Radiat Res. 1997 Jul;148(1):22-8. (PMID: 9216614) Proc Natl Acad Sci U S A. 2015 Oct 27;112(43):E5787-95. (PMID: 26460019) J Biol Chem. 2003 Apr 4;278(14):12344-55. (PMID: 12511572) Nat Genet. 2022 Feb;54(2):115-120. (PMID: 35145299) Nat Rev Neurosci. 2009 Feb;10(2):100-12. (PMID: 19145234) EMBO Rep. 2007 Nov;8(11):1038-43. (PMID: 17917675) Nat Rev Genet. 2008 Aug;9(8):619-31. (PMID: 18626472) DNA Repair (Amst). 2022 Aug;116:103345. (PMID: 35689883) Chem Rev. 1998 May 7;98(3):1089-1108. (PMID: 11848926) EMBO J. 1997 Aug 15;16(16):5046-56. (PMID: 9305646) Int J Mol Sci. 2022 Jun 26;23(13):. (PMID: 35806109) Proc Natl Acad Sci U S A. 2014 Mar 11;111(10):E924-32. (PMID: 24556991) J Biol Chem. 2004 Apr 30;279(18):18511-20. (PMID: 14978042) J Biol Chem. 2000 Mar 3;275(9):6530-6. (PMID: 10692458) Exp Cell Res. 2014 Nov 15;329(1):2-8. (PMID: 25176342) Mol Cell. 2002 Mar;9(3):541-52. (PMID: 11931762) Trends Cell Biol. 2022 Sep;32(9):733-745. (PMID: 35643889) J Mol Biol. 1998 Feb 13;276(1):19-42. (PMID: 9514715) Science. 2016 Jul 1;353(6294):45-50. (PMID: 27256882) Proc Natl Acad Sci U S A. 1993 Jul 15;90(14):6601-5. (PMID: 8341674) J Biol Chem. 2004 Apr 2;279(14):14418-26. (PMID: 14734564) Mutagenesis. 2006 Jan;21(1):49-53. (PMID: 16394029) J Biol Chem. 2008 Nov 21;283(47):32236-43. (PMID: 18815126) Nat Struct Mol Biol. 2009 Dec;16(12):1272-8. (PMID: 19935686) Proc Natl Acad Sci U S A. 2020 Aug 18;117(33):19888-19895. (PMID: 32747552) Biochemistry. 2012 Nov 6;51(44):8964-70. (PMID: 23066636) Cells. 2022 Aug 10;11(16):. (PMID: 36010552) Mol Cell. 2006 Nov 3;24(3):469-79. (PMID: 17081995) Nature. 1997 Sep 18;389(6648):251-60. (PMID: 9305837) Nucleic Acids Res. 2014 Feb;42(3):1619-27. (PMID: 24234452) DNA Repair (Amst). 2014 Jul;19:108-13. (PMID: 24755000) Biosci Rep. 1983 Mar;3(3):283-92. (PMID: 6860787) Methods Enzymol. 1991;208:380-413. (PMID: 1664026) Nature. 1993 Apr 22;362(6422):709-15. (PMID: 8469282) Elife. 2019 Jul 31;8:. (PMID: 31364986) |
معلومات مُعتمدة: | RO1 GM119398 United States NH NIH HHS; 21-64-00001 Russian Science Foundation |
فهرسة مساهمة: | Keywords: DNA damage; DNA loop; chromatin structure; nucleosome; single-strand DNA breaks; transcription-coupled DNA repair |
المشرفين على المادة: | 0 (Nucleosomes) 0 (Histones) EC 2.7.7.- (RNA Polymerase II) EC 2.7.7.6 (DNA-Directed RNA Polymerases) 9007-49-2 (DNA) 0 (DNA, Single-Stranded) |
تواريخ الأحداث: | Date Created: 20230211 Date Completed: 20230214 Latest Revision: 20230214 |
رمز التحديث: | 20240628 |
مُعرف محوري في PubMed: | PMC9917218 |
DOI: | 10.3390/ijms24032295 |
PMID: | 36768621 |
قاعدة البيانات: | MEDLINE |
تدمد: | 1422-0067 |
---|---|
DOI: | 10.3390/ijms24032295 |