ATP-Dependent Chromatin Remodeling by Cockayne Syndrome Protein B and NAP1-Like Histone Chaperones Is Required for Efficient Transcription-Coupled DNA Repair

PLoS Genetics

Volumn 9, Issue 4, 2013, Pages

  Cho, Iltaeg ^a   Tsai, Pei Fang ^a   Lake, Robert J ^a   Basheer, Asjad ^a   Fan, Hua Ying ^a  

^a UNIVERSITY OF PENNSYLVANIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ADENOSINE TRIPHOSPHATE; COCKAYNE SYNDROME COMPLEMENTATION GROUP B; DNA FRAGMENT; NUCLEAR PROTEIN; NUCLEOSOME ASSEMBLY PROTEIN 1; NUCLEOSOME ASSEMBLY PROTEIN 1 LIKE HISTONE CHAPERONE; PROTEIN NAP1L1; PROTEIN NAP1L4; UNCLASSIFIED DRUG; CHAPERONE; DNA HELICASE; DNA LIGASE;

AMINO TERMINAL SEQUENCE; ARTICLE; CHROMATIN ASSEMBLY AND DISASSEMBLY; CHROMATIN STRUCTURE; COCKAYNE SYNDROME; CSB GENE; DNA REPAIR; GENE INTERACTION; GENE LOCATION; GENE MAPPING; GENETIC CONSERVATION; IN VITRO STUDY; NAP1L1 GENE; NUCLEOSOME; PROTEIN BINDING; PROTEIN DOMAIN; PROTEIN HYDROLYSIS; PROTEIN PROTEIN INTERACTION; TRANSCRIPTION REGULATION; GENETIC TRANSCRIPTION; GENETICS; HUMAN; METABOLISM;

ADENOSINE TRIPHOSPHATE; CHROMATIN ASSEMBLY AND DISASSEMBLY; COCKAYNE SYNDROME; DNA HELICASES; DNA REPAIR; DNA REPAIR ENZYMES; HISTONE CHAPERONES; HUMANS; TRANSCRIPTION, GENETIC;

EID: 84876875641     PISSN: 15537390     EISSN: 15537404     Source Type: Journal    
DOI: 10.1371/journal.pgen.1003407     Document Type: Article

References (38)

1. Balajee AS, May A, Dianov GL, Friedberg EC, Bohr VA, (1997) Reduced RNA polymerase II transcription in intact and permeabilized Cockayne syndrome group B cells. Proc Natl Acad Sci U S A 94: 4306-4311.
2. Newman JC, Bailey AD, Weiner AM, (2006) Cockayne syndrome group B protein (CSB) plays a general role in chromatin maintenance and remodeling. Proc Natl Acad Sci U S A 103: 9613-9618.
3. Bradsher J, Auriol J, Proietti de Santis L, Iben S, Vonesch JL, et al. (2002) CSB is a component of RNA pol I transcription. Mol Cell 10: 819-829.
4. Yu A, Fan HY, Liao D, Bailey AD, Weiner AM, (2000) Activation of p53 or loss of the Cockayne syndrome group B repair protein causes metaphase fragility of human U1, U2, and 5S genes. Mol Cell 5: 801-810.
5. Stevnsner T, Muftuoglu M, Aamann MD, Bohr VA, (2008) The role of Cockayne Syndrome group B (CSB) protein in base excision repair and aging. Mech Ageing Dev 129: 441-448.
6. Hanawalt PC, Spivak G, (2008) Transcription-coupled DNA repair: two decades of progress and surprises. Nat Rev Mol Cell Biol 9: 958-970.
7. Fan HY, Narlikar GJ, Kingston RE, (2004) Noncovalent modification of chromatin: different remodeled products with different ATPase domains. Cold Spring Harb Symp Quant Biol 69: 183-192.
8. Clapier CR, Cairns BR, (2009) The biology of chromatin remodeling complexes. Annu Rev Biochem 78: 273-304.
9. Selby CP, Sancar A, (1997) Human transcription-repair coupling factor CSB/ERCC6 is a DNA-stimulated ATPase but is not a helicase and does not disrupt the ternary transcription complex of stalled RNA polymerase II. J Biol Chem 272: 1885-1890.
10. Lake RJ, Basheer A, Fan HY, (2011) Reciprocally regulated chromatin association of Cockayne syndrome protein B and p53 protein. J Biol Chem 286: 34951-34958.
11. Muftuoglu M, Sharma S, Thorslund T, Stevnsner T, Soerensen MM, et al. (2006) Cockayne syndrome group B protein has novel strand annealing and exchange activities. Nucleic Acids Res 34: 295-304.
12. Beerens N, Hoeijmakers JH, Kanaar R, Vermeulen W, Wyman C, (2005) The CSB protein actively wraps DNA. J Biol Chem 280: 4722-4729.
13. Citterio E, Van Den Boom V, Schnitzler G, Kanaar R, Bonte E, et al. (2000) ATP-dependent chromatin remodeling by the Cockayne syndrome B DNA repair-transcription-coupling factor. Mol Cell Biol 20: 7643-7653.
14. Lake RJ, Geyko A, Hemashettar G, Zhao Y, Fan HY, (2010) UV-induced association of the CSB remodeling protein with chromatin requires ATP-dependent relief of N-terminal autorepression. Mol Cell 37: 235-246.
15. Park Y-J, Luger K, (2008) Histone chaperones in nucleosome eviction and histone exchange. Curr Opin Struct Biol 18: 282-289.
16. Lusser A, Urwin DL, Kadonaga JT, (2005) Distinct activities of CHD1 and ACF in ATP-dependent chromatin assembly. Nat Struct Mol Biol 12: 160-166.
17. Lorch Y, Maier-Davis B, Kornberg RD, (2006) Chromatin remodeling by nucleosome disassembly in vitro. Proc Natl Acad Sci U S A 103: 3090-3093.
18. Ishimi Y, Kikuchi A, (1991) Identification and molecular cloning of yeast homolog of nucleosome assembly protein I which facilitates nucleosome assembly in vitro. J Biol Chem 266: 7025-7029.
19. Park YJ, Luger K, (2006) Structure and function of nucleosome assembly proteins. Biochem Cell Biol 84: 549-558.
20. Wood AJ, Roberts RG, Monk D, Moore GE, Schulz R, et al. (2007) A screen for retrotransposed imprinted genes reveals an association between X chromosome homology and maternal germ-line methylation. PLoS Genet 3: e20 doi:10.1371/journal.pgen.0030020.
21. Rodriguez P, Munroe D, Prawitt D, Chu LL, Bric E, et al. (1997) Functional characterization of human nucleosome assembly protein-2 (NAP1L4) suggests a role as a histone chaperone. Genomics 44: 253-265.
22. Simon HU, Mills GB, Kozlowski M, Hogg D, Branch D, et al. (1994) Molecular characterization of hNRP, a cDNA encoding a human nucleosome-assembly-protein-I-related gene product involved in the induction of cell proliferation. Biochem J 297 (Pt 2): 389-397.
23. Attia M, Forster A, Rachez C, Freemont P, Avner P, et al. (2011) Interaction between nucleosome assembly protein 1-like family members. J Mol Biol 407: 647-660.
24. Lowary PT, Widom J, (1998) New DNA sequence rules for high affinity binding to histone octamer and sequence-directed nucleosome positioning. J Mol Biol 276: 19-42.
25. He X, Fan HY, Narlikar GJ, Kingston RE, (2006) Human ACF1 Alters the Remodeling Strategy of SNF2h. J Biol Chem 281: 28636-28647.
26. Fan HY, He X, Kingston RE, Narlikar GJ, (2003) Distinct strategies to make nucleosomal DNA accessible. Mol Cell 11: 1311-1322.
27. Bouazoune K, Miranda TB, Jones PA, Kingston RE, (2009) Analysis of individual remodeled nucleosomes reveals decreased histone-DNA contacts created by hSWI/SNF. Nucleic Acids Res 37: 5279-5294.
28. Fousteri M, Vermeulen W, van Zeeland AA, Mullenders LH, (2006) Cockayne syndrome A and B proteins differentially regulate recruitment of chromatin remodeling and repair factors to stalled RNA polymerase II in vivo. Mol Cell 23: 471-482.
29. Ito T, Levenstein ME, Fyodorov DV, Kutach AK, Kobayashi R, et al. (1999) ACF consists of two subunits, Acf1 and ISWI, that function cooperatively in the ATP-dependent catalysis of chromatin assembly. Genes Dev 13: 1529-1539.
30. Petesch SJ, Lis JT, (2012) Overcoming the nucleosome barrier during transcript elongation. Trends Genet 28: 285-294.
31. Lagerwerf S, Vrouwe MG, Overmeer RM, Fousteri MI, Mullenders LHF, (2011) DNA damage response and transcription. DNA repair 10: 743-750.
32. Andrews AJ, Chen X, Zevin A, Stargell LA, Luger K, (2010) The histone chaperone Nap1 promotes nucleosome assembly by eliminating nonnucleosomal histone DNA interactions. Mol Cell 37: 834-842.
33. Selby CP, Drapkin R, Reinberg D, Sancar A, (1997) RNA polymerase II stalled at a thymine dimer: footprint and effect on excision repair. Nucleic Acids Res 25: 787-793.
34. Hara R, Sancar A, (2003) Effect of damage type on stimulation of human excision nuclease by SWI/SNF chromatin remodeling factor. Mol Cell Biol 23: 4121-4125.
35. Zhao Q, Wang QE, Ray A, Wani G, Han C, et al. (2009) Modulation of nucleotide excision repair by mammalian SWI/SNF chromatin-remodeling complex. J Biol Chem 284: 30424-30432.
36. Selby CP, Sancar A, (1995) Structure and function of transcription-repair coupling factor. II. Catalytic properties. J Biol Chem 270: 4890-4895.
37. Walfridsson J, Khorosjutina O, Matikainen P, Gustafsson CM, Ekwall K, (2007) A genome-wide role for CHD remodelling factors and Nap1 in nucleosome disassembly. EMBO J 26: 2868-2879.
38. Sif S, Saurin AJ, Imbalzano AN, Kingston RE, (2001) Purification and characterization of mSin3A-containing Brg1 and hBrm chromatin remodeling complexes. Genes Dev 15: 603-618.