"ORCanization" On heterochromatin linking DNA replication initiation to chromatin organization

Epigenetics

Volumn 6, Issue 6, 2011, Pages 665-670

  Chakraborty, Arindam ^a   Shen, Zhen ^a   Prasanth, Supriya G ^a  

^a UNIVERSITY OF ILLINOIS AT URBANA CHAMPAIGN   (United States)

Author keywords

Heterochromatin; HPl; ORC; ORCA LRWD1; Replication

Indexed keywords

LYSINE; ORIGIN RECOGNITION COMPLEX; PROTEIN SUBUNIT;

ARTICLE; CENTROMERE; CHROMATIN; CHROMOSOME SEGREGATION; CHROMOSOME STRUCTURE; DNA REPLICATION; DROSOPHILA; HETEROCHROMATIN; HUMAN; MAMMAL; METHYLATION; NONHUMAN; PROTEIN BINDING; TELOMERE; TRANSCRIPTION INITIATION; XENOPUS; YEAST;

EUKARYOTA;

EID: 79958750543     PISSN: 15592294     EISSN: 15592308     Source Type: Journal    
DOI: 10.4161/epi.6.6.16179     Document Type: Article

References (72)

1. Bell SP, Dutta A. DNA replication in eukaryotic cells. Annu Rev Biochem 2002; 71:333-374.
2. Bell SP, Stillman B. ATP-dependent recognition of eukaryotic origins of DNA replication by a multiprotein complex. Nature 1992; 357:128-134.
3. Aparicio OM, Weinstein DM, Bell SP. Components and dynamics of DNA replication complexes in S. cerevisiae: redistribution of MCM proteins and Cdc45p during S phase. Cell 1997; 91:59-69.
4. Diffley JF, Cocker JH, Dowell SJ, Rowley A. Two steps in the assembly of complexes at yeast replication origins in vivo. Cell 1994; 78:303-316.
5. Weinreich M, Liang C, Stillman B. The Cdc6p nucleotide-binding motif is required for loading mcm proteins onto chromatin. Proc Natl Acad Sci USA 1999; 96:441-446.
6. Sun WH, Coleman TR, DePamphilis ML. Cell cycle-dependent regulation of the association between origin recognition proteins and somatic cell chromatin. EMBO J 2002; 21:1437-1446.
7. Coverley D, Laskey RA. Regulation of eukaryotic DNA replication. Annu Rev Biochem 1994; 63:745-776.
8. Chesnokov IN. Multiple functions of the origin recognition complex. Int Rev Cytol 2007; 256:69-109.
9. Duncker BP, Chesnokov IN, McConkey BJ. The origin recognition complex protein family. Genome Biol 2009; 10:214.
10. Mancio-Silva L, Rojas-Meza AP, Vargas M, Scherf A, Hernandez-Rivas R. Differential association of Orc1 and Sir2 proteins to telomeric domains in Plasmodium falciparum. J Cell Sci 2008; 121:2046-2053.
11. Sasaki T, Gilbert DM. The many faces of the origin recognition complex. Curr Opin Cell Biol 2007; 19:337-343.
12. Kato H, Matsunaga F, Miyazaki S, Yin L, D'Urso G, Tanaka K, Murakami Y. Schizosaccharomyces pombe Orc5 plays multiple roles in the maintenance of genome stability throughout the cell cycle. Cell Cycle 2008; 7:1085-1096.
13. Chesnokov IN, Chesnokova ON, Botchan M. A cytokinetic function of Drosophila ORC6 protein resides in a domain distinct from its replication activity. Proc Natl Acad Sci USA 2003; 100:9150-915.
14. Bernal JA, Venkitaraman AR. A vertebrate N-end rule degron reveals that Orc6 is required in mitosis for daughter cell abscission. J Cell Biol 2011; 192:969-978.
15. Dhar SK, Delmolino L, Dutta A. Architecture of the human origin recognition complex. J Biol Chem 2001; 276:29067-29071.
16. Siddiqui K, Stillman B. ATP-dependent assembly of the human origin recognition complex. J Biol Chem 2007; 282:32370-32383.
17. Vashee S, Simancek P, Challberg MD, Kelly TJ. Assembly of the human origin recognition complex. J Biol Chem 2001; 276:26666-26673.
18. DePamphilis ML. The 'ORC cycle': a novel pathwayfor regulating eukaryotic DNA replication. Gene 2003; 310:1-15.
19. Mendez J, Zou-Yang XH, Kim SY, Hidaka M, Tansey WP, Stillman B. Human origin recognition complex large subunit is degraded by ubiquitinmediated proteolysis after initiation of DNA replication. Mol Cell 2002; 9:481-491.
20. Hemerly AS, Prasanth SG, Siddiqui K, Stillman B. Orc1 controls centriole and centrosome copy number in human cells. Science 2009; 323:789-793.
21. Prasanth SG, Prasanth KV, Siddiqui K, Spector DL, Stillman B. Human Orc2 localizes to centrosomes, centromeres and heterochromatin during chromosome inheritance. EMBO J 2004; 23:2651-2663.
22. Prasanth SG, Prasanth KV, Stillman B. Orc6 involved in DNA replication, chromosome segregation and cytokinesis. Science 2002; 297:1026-1031.
23. Liu S, Balasov M, Wang H, Wu L, Chesnokov IN, Liu Y. Structural analysis of human Orc6 protein reveals a homology with transcription factor TFIIB. Proc Natl Acad Sci USA 2011; 108:7373-7378.
24. Prasanth SG, Shen Z, Prasanth KV, Stillman B. Human origin recognition complex is essential for HP1 binding to chromatin and heterochromatin organization. Proc Natl Acad Sci USA 2010; 107:15093-15098.
25. Kirchmaier AL, Rine J. DNA replication-independent silencing in S. cerevisiae. Science 2001; 291:646-650.
26. Foss M, McNally FJ, Laurenson P, Rine J. Origin recognition complex (ORC) in transcriptional silencing and DNA replication in S. cerevisiae. Science 1993; 262:1838-1844.
27. Micklem G, Rowley A, Harwood J, Nasmyth K, Diff ley JF. Yeast origin recognition complex is involved in DNA replication and transcriptional silencing. Nature 1993; 366:87-89.
28. Triolo T, Sternglanz R. Role of interactions between the origin recognition complex and SIR1 in transcriptional silencing. Nature 1996; 381:251-253.
29. Gallagher JE, Babiarz JE, Teytelman L, Wolfe KH, Rine J. Elaboration, diversification and regulation of the Sir1 family of silencing proteins in Saccharomyces. Genetics 2009; 181:1477-1491.
30. Fox CA, Ehrenhofer-Murray AE, Loo S, Rine J. The origin recognition complex, SIR1, and the S phase requirement for silencing. Science 1997; 276:1547-1551.
31. Bell SP, Mitchell J, Leber J, Kobayashi R, Stillman B. The multidomain structure of Orc1p reveals similarity to regulators of DNA replication and transcriptional silencing. Cell 1995; 83:563-568.
32. Gardner KA, Fox CA. The Sir1 protein's association with a silenced chromosome domain. Genes Dev 2001; 15:147-157.
33. Bose ME, McConnell KH, Gardner-Aukema KA, Muller U, Weinreich M, Keck JL, Fox CA. The origin recognition complex and Sir4 protein recruit Sir1p to yeast silent chromatin through independent interactions requiring a common Sir1p domain. Mol Cell Biol 2004; 24:774-786.
34. Ozaydin B, Rine J. Expanded roles of the origin recognition complex in the architecture and function of silenced chromatin in Saccharomyces cerevisiae. Mol Cell Biol 2010; 30:626-639.
35. Palacios DeBeer MA, Muller U, Fox CA. Differential DNA affinity specifies roles for the origin recognition complex in budding yeast heterochromatin. Genes Dev 2003; 17:1817-1822.
36. Sharp JA, Krawitz DC, Gardner KA, Fox CA, Kaufman PD. The budding yeast silencing protein Sir1 is a functional component of centromeric chromatin. Genes Dev 2003; 17:2356-2361.
37. Hickman MA, Rusche LN. Transcriptional silencing functions of the yeast protein Orc1/Sir3 subfunctionalized after gene duplication. Proc Natl Acad Sci USA 2010; 107:19384-19389.
38. Muller P, Park S, Shor E, Huebert DJ, Warren CL, Ansari AZ, Weinreich M, et al. The conserved bromo-adjacent homology domain of yeast Orc1 functions in the selection of DNA replication origins within chromatin. Genes Dev 2010; 24:1418-1433.
39. Sutton A, Heller RC, Landry J, Choy JS, Sirko A, Sternglanz R. A novel form of transcriptional silencing by Sum1-1 requires Hst1 and the origin recognition complex. Mol Cell Biol 2001; 21:3514-3522.
40. Geissenhoner A, Weise C, Ehrenhofer-Murray AE. Dependence of ORC silencing function on NatAmediated Nalpha acetylation in Saccharomyces cerevisiae. Mol Cell Biol 2004; 24:10300-10312.
41. Chien CT, Buck S, Sternglanz R, Shore D. Targeting of SIR1 protein establishes transcriptional silencing at HM loci and telomeres in yeast. Cell 1993; 75:531-541.
42. Huang J, Moazed D. Association of the RENT complex with nontranscribed and coding regions of rDNA and a regional requirement for the replication fork block protein Fob1 in rDNA silencing. Genes Dev 2003; 17:2162-2176.
43. Kan J, Zou L, Zhang J, Wu R, Wang Z, Liang C. Origin recognition complex (ORC) mediates histone 3 lysine 4 methylation through cooperation with Spp1 in Saccharomyces cerevisiae. J Biol Chem 2008; 283:33803-33807.
44. Pokholok DK, Harbison CT, Levine S, Cole M, Hannett NM, Lee TI, et al. Genome-wide map of nucleosome acetylation and methylation in yeast. Cell 2005; 122:517-527.
45. Krogan NJ, Dover J, Khorrami S, Greenblatt JF, Schneider J, Johnston M, Shilatifard A. COMPASS, a histone H3 (Lysine 4) methyltransferase required for telomeric silencing of gene expression. J Biol Chem 2002; 277:10753-10755.
46. Santos-Rosa H, Bannister AJ, Dehe PM, Geli V, Kouzarides T. Methylation of H3 lysine 4 at euchromatin promotes Sir3p association with heterochromatin. J Biol Chem 2004; 279:47506-47512.
47. Bryk M, Briggs SD, Strahl BD, Curcio MJ, Allis CD, Winston F. Evidence that Set1, a factor required for methylation of histone H3, regulates rDNA silencing in S. cerevisiae by a Sir2-independent mechanism. Curr Biol 2002; 12:165-170.
48. Koren A, Tsai HJ, Tirosh I, Burrack LS, Barkai N, Berman J. Epigenetically-inherited centromere and neocentromere DNA replicates earliest in S-phase. PLoS Genet 2010; 6:1001068.
49. Segurado M, de Luis A, Antequera F. Genome-wide distribution of DNA replication origins at A + T-rich islands in Schizosaccharomyces pombe. EMBO Rep 2003; 4:1048-1053.
50. Pak DT, Pflumm M, Chesnokov I, Huang DW, Kellum R, Marr J, et al. Association of the origin recognition complex with heterochromatin and HP1 in higher eukaryotes. Cell 1997; 91:311-323.
51. Huang DW, Fanti L, Pak DT, Botchan MR, Pimpinelli S, d Kellum R. Distinct cytoplasmic and nuclear fractions of Drosophila heterochromatin protein 1: their phosphorylation levels and associations with origin recognition complex proteins. J Cell Biol 1998; 142:307-318.
52. Loupart ML, Krause SA, Heck MS. Aberrant replication timing induces defective chromosome condensation in Drosophila ORC2 mutants. Curr Biol 2000; 10:1547-1556.
53. Shareef MM, Badugu R, Kellum R. HP1/ORC complex and heterochromatin assembly. Genetica 2003; 117:127-134.
54. Pflumm MF, Botchan MR. Orc mutants arrest in metaphase with abnormally condensed chromosomes. Development 2001; 128:1697-1707.
55. Badugu R, Shareef MM, Kellum R. Novel Drosophila heterochromatin protein 1 (HP1)/origin recognition complex-associated protein (HOAP) repeat motif in HP1/HOAP interactions and chromocenter associations. J Biol Chem 2003; 278:34491-34498.
56. Shareef MM, King C, Damaj M, Badagu R, Huang DW, Kellum R. Drosophila heterochromatin protein 1 (HP1)/origin recognition complex (ORC) protein is associated with HP1 and ORC and functions in heterochromatin-induced silencing. Mol Biol Cell 2001; 12:1671-1685.
57. Cenci G, Siriaco G, Raffa GD, Kellum R, Gatti M. The Drosophila HOAP protein is required for telomerecapping. Nat Cell Biol 2003; 5:82-84.
58. Auth T, Kunkel E, Grummt F. Interaction between HP1alpha and replication proteins in mammalian cells. Exp Cell Res 2006; 312:3349-3359.
59. Deng Z, Dheekollu J, Broccoli D, Dutta A, Lieberman PM. The origin recognition complex localizes to telomere repeats and prevents telomerecircle formation. Curr Biol 2007; 17:1989-1995.
60. Lidonnici MR, Rossi R, Paixao S, Mendoza- Maldonado R, Paolinelli R, Arcangeli C, et al. Subnuclear distribution of the largest subunit of the human origin recognition complex during the cell cycle. J Cell Sci 2004; 117:5221-231.
61. Wallace JA, Orr-Weaver TL. Replication of heterochromatin: insights into mechanisms of epigenetic inheritance. Chromosoma 2005; 114:389-402.
62. Leatherwood J, Vas A. Connecting ORC and heterochromatin: why? Cell Cycle 2003; 2:573-575.
63. Deng Z, Norseen J, Wiedmer A, Riethman H, Lieberman PM. TERRA RNA binding to TRF2 facilitates heterochromatin formation and ORC recruitment at telomeres. Mol Cell 2009; 35:403-413.
64. Tatsumi Y, Ezura K, Yoshida K, Yugawa T, Narisawa-Saito M, Kiyono T, et al. Involvement of human ORC and TRF2 in pre-replication complex assembly at telomeres. Genes Cells 2008; 13:1045-1059.
65. Beall EL, Manak JR, Zhou S, Bell M, Lipsick JS, Botchan MR. Role for a Drosophila Myb-containing protein complex in site-specific DNA replication. Nature 2002; 420:833-837.
66. Dhar SK, Yoshida K, Machida Y, Khaira P, Chaudhuri B, Wohlschlegel JA, et al. Replication from oriP of Epstein-Barr virus requires human ORC and is inhibited by geminin. Cell 2001; 106:287-296.
67. Royzman I, Austin RJ, Bosco G, Bell SP and Orr- Weaver TL. ORC localization in Drosophila follicle cells and the effects of mutations in dE2F and dDP. Genes Dev 1999; 13:827-840.
68. Shen Z, Sathyan KM, Geng Y, Zheng R, Chakraborty A, Freeman B, et al. A WD-repeat protein stabilizes ORC binding to chromatin. Mol Cell 2010; 40:99-111.
69. Thomae AW, Pich D, Brocher J, Spindler MP, Berens C, Hock R, et al. Interaction between HMGA1a and the origin recognition complex creates site-specific replication origins. Proc Natl Acad Sci USA 2008; 105:1692-1697.
70. Bartke T, Vermeulen M, Xhemalce B, Robson SC, Mann M, Kouzarides T. Nucleosome-interacting proteins regulated by DNA and histone methylation. Cell 2010; 143:470-484.
71. Vermeulen M, Eberl HC, Matarese F, Marks H, Denissov S, Butter F, et al. Quantitative interaction proteomics and genome-wide profiling of epigenetic histone marks and their readers. Cell 2010; 142:967-980.
72. Bell SP, Kobayashi R, Stillman B. Yeast origin recognition complex functions in transcription silencing and DNA replcation. Science 1993; 262:1844