Biotin-tag affinity purification of a centromeric nucleosome assembly complex

Cell Cycle

Volumn 5, Issue 12, 2006, Pages 1269-1274

  Furuyama, Takehito ^a   Henikoff, Steven ^a,b,c  

^a Fred Hutchinson Cancer Research Center   (United States)

^b HOWARD HUGHES MEDICAL INSTITUTE   (United States)

^c NONE   (United States)

Author keywords

BirA; CENP A; Centromere; Chromatin assembly; CID; Histone chaperone

Indexed keywords

BIOTIN; CHAPERONE; HISTONE H3;

BIOTINYLATION; CENTROMERE; CONTROLLED STUDY; DROSOPHILA; EPIGENETICS; IN VIVO STUDY; NONHUMAN; NUCLEOSOME; PROTEIN PURIFICATION; REVIEW;

EID: 33745149033     PISSN: 15384101     EISSN: 15514005     Source Type: Journal    
DOI: 10.4161/cc.5.12.2889     Document Type: Review

References (43)

1. Draper GC, Gober JW. Bacterial chromosome segregation. Annu Rev Microbiol 2002; 56:567-97.
2. Choo KH. The Centromere. Oxford University Press, 1997.
3. Malik HS, Henikoff S. Conflict begets complexity: The evolution of centromeres. Curr Opin Genet Dev 2002; 12:711-8.
4. Amor DJ, Choo KH. Neocentromeres: Role in human disease, evolution, and centromere study. Am J Hum Genet 2002; 71:695-714.
5. Nagaki K, Cheng Z, Ouyang S, Talbert PB, Kim M, Jones KM, Henikoff S, Buell CR, Jiang J. Sequencing of a rice centromere uncovers active genes. Nat Genet 2004; 36:138-45.
6. Blower MD, Sullivan BA, Karpen GH. Conserved organization of centromeric chromatin in flies and humans. Dev Cell 2002; 2:319-30.
7. Meluh PB, Yang P, Glowczewski L, Koshland D, Smith MM. Cse4p is a component of the core centromere of Saccharomyces cerevisiae. Cell 1998; 94:607-13.
8. Henikoff S, Ahmad K, Malik HS. The centromere paradox: Stable inheritance with rapidly evolving DNA. Science 2001; 293:1098-102.
9. Blower MD, Karpen GH. The role of Drosophila CID in kinetochore formation, cell-cycle progression and heterochromatin interactions. Nat Cell Biol 2001; 3:730-9.
10. Hayashi T, Fujita Y, Iwasaki O, Adachi Y, Takahashi K, Yanagida M. Mis16 and Mis18 are required for CENP-A loading and histone deacetylation at centromeres. Cell 2004; 118:715-29.
11. Howman EV, Fowler KJ, Newson AJ, Redward S, MacDonald AC, Kalitsis P, Choo KH. Early disruption of centromeric chromatin organization in centromere protein A (Cenpa) null mice. Proc Natl Acad Sci USA 2000; 97:1148-53.
12. Warburton PE, Cooke CA, Bourassa S, Vafa O, Sullivan BA, Stetten G, Gimelli G, Warburton D, Tyler-Smith C, Sullivan KF, Poirier GG, Earnshaw WC. Immunolocalization of CENP-A suggests a distinct nucleosome structure at the inner kinetochore plate of active centromeres. Curr Biol 1997; 7:901-4.
13. Marzluff WF. Metazoan replication-dependent histone mRNAs: A distinct set of RNA polymerase II transcripts. Curr Opin Cell Biol 2005; 17:274-80.
14. Hoek M, Stillman B. Chromatin assembly factor 1 is essential and couples chromatin assembly to DNA replication in vivo. Proc Natl Acad Sci USA 2003; 100:12183-8.
15. Ye X, Franco AA, Santos H, Nelson DM, Kaufman PD, Adams PD. Defective S phase chromatin assembly causes DNA damage, activation of the S phase checkpoint, and S phase arrest. Mol Cell 2003; 11:341-51.
16. Collins KA, Furuyama S, Biggins S. Proteolysis contributes to the exclusive centromere localization of the yeast Cse4/CENP-A histone H3 variant. Curr Biol 2004; 14:1968-72.
17. Heun P, Erhardt S, Blower MD, Weiss S, Skora AD, Karpen GH. Mislocalization of the Drosophila centromere-specific histone CID promotes formation of functional ectopic kinetochores. Dev Cell 2006; 10:303-15.
18. Van Hooser AA, Ouspenski II, Gregson HC, Starr DA, Yen TJ, Goldberg ML, Yokomori K, Earnshaw WC, Sullivan KF, Brinkley BR. Specification of kinetochore-forming chromatin by the histone H3 variant CENP-A. J Cell Sci 2001; 114:3529-42.
19. Furuyama T, Dalal Y, Henikoff S. Chaperone-mediated assembly of centromeric chromatin in vitro. Proc Natl Acad Sci USA 2006.
20. Puig O, Caspary F, Rigaut G, Rutz B, Bouveret E, Bragado-Nilsson E, Wilm M, Seraphin B. The tandem affinity purification (TAP) method: A general procedure of protein complex purification. Methods 2001; 24:218-29.
21. Beckett D, Kovaleva E, Schatz PJ. A minimal peptide substrate in biotin holoenzyme synthetase-catalyzed biotinylation. Protein Sci 1999; 8:921-9.
22. de Boer E, Rodriguez P, Bonte E, Krijgsveld J, Katsantoni E, Heck A, Grosveld F, Strouboulis J. Efficient biotinylation and single-step purification of tagged transcription factors in mammalian cells and transgenic mice. Proc Natl Acad Sci USA 2003; 100:7480-5.
23. Viens A, Mechold U, Lehrmann H, Harel-Bellan A, Ogryzko V. Use of protein biotinylation in vivo for chromatin immunoprecipitation. Anal Biochem 2004; 325:68-76.
24. Mito Y, Henikoff JG, Henikoff S. Genome-scale profiling of histone H3.3 replacement patterns. Nat Genet 2005; 37:1090-7.
25. Penalva LO, Keene JD. Biotinylated tags for recovery and characterization of ribonucleo-protein complexes. Biotechniques 2004; 37:604, 6, 8-10.
26. Tagami H, Ray-Gallet D, Almouzni G, Nakatani Y. Histone H3.1 and H3.3 complexes mediate nucleosome assembly pathways dependent or independent of DNA synthesis. Cell 2004; 116:51-61.
27. Vermaak D, Wade PA, Jones PL, Shi YB, Wolffe AP. Functional analysis of the SIN3-histone deacetylase RPD3-RbAp48-histone H4 connection in the Xenopus oocyte. Mol Cell Biol 1999; 19:5847-60.
28. Verreault A, Kaufman PD, Kobayashi R, Stillman B. Nucleosomal DNA regulates the core-histone-binding subunit of the human Hat1 acetyltransferase. Curr Biol 1998; 8:96-108.
29. Verreault A, Kaufman PD, Kobayashi R, Stillman B. Nucleosome assembly by a complex of CAF-1 and acetylated histones H3/H4. Cell 1996; 87:95-104.
30. Vermaak D, Hayden HS, Henikoff S. Centromere targeting element within the histone fold domain of Cid. Mol Cell Biol 2002; 22:7553-61.
31. Black BE, Foltz DR, Chakravarthy S, Luger K, Woods Jr VL, Cleveland DW. Structural determinants for generating centromeric chromatin. Nature 2004; 430:578-82.
32. Wieland G, Orthaus S, Ohndorf S, Diekmann S, Hemmerich P. Functional complementation of human centromere protein A (CENP-A) by Cse4p from Saccharomyces cerevisiae. Mol Cell Biol 2004; 24:6620-30.
33. Malik HS, Henikoff S. Phylogenomics of the nucleosome. Nat Struct Biol 2003; 10:882-91.
34. Ahmad K, Henikoff S. Histone H3 variants specify modes of chromatin assembly. Proc Natl Acad Sci USA 2002; 99:16477-84.
35. Ahmad K, Henikoff S. The histone variant H3.3 marks active chromatin by replication-independent nucleosome assembly. Mol Cell 2002; 9:1191-200.
36. Walfridsson J, Bjerling P, Thalen M, Yoo EJ, Park SD, Ekwall K. The CHD remodeling factor Hrp1 stimulates CENP-A loading to centromeres. Nucleic Acids Res 2005; 33:2868-79.
37. Mellone BG, Allshire RC. Stretching it: Putting the CEN(P-A) in centromere. Curr Opin Genet Dev 2003; 13:191-8.
38. Henikoff S, Dalal Y. Centromeric chromatin: What makes it unique? Curr Opin Genet Dev 2005; 15:177-84.
39. Zhang Z, Shibahara K, Stillman B. PCNA connects DNA replication to epigenetic inheritance in yeast. Nature 2000; 408:221-5.
40. Goshima G, Kiyomitsu T, Yoda K, Yanagida M. Human centromere chromatin protein hMis12, essential for equal segregation, is independent of CENP-A loading pathway. J Cell Biol 2003; 160:25-39.
41. Takahashi K, Chen ES, Yanagida M. Requirement of Mis6 centromere connector for localizing a CENP-A-like protein in fission yeast. Science 2000; 288:2215-9.
42. Topp CN, Zhong CX, Dawe RK. Centromere-encoded RNAs are integral components of the maize kinetochore. Proc Natl Acad Sci USA 2004; 101:15986-91.
43. Ortiz J, Stemmann O, Rank S, Lechner J. A putative protein complex consisting of Ctf19, Mcm21, and Okp1 represents a missing link in the budding yeast kinetochore. Genes Dev 1999; 13:1140-55.