Histone H3-variant Cse4-induced positive DNA supercoiling in the yeast plasmid has implications for a plasmid origin of a chromosome centromere

Proceedings of the National Academy of Sciences of the United States of America

Volumn 108, Issue 33, 2011, Pages 13671-13676

  Huang, Chu Chun ^a   Chang, Keng Ming ^a   Cui, Hong ^a   Jayaram, Makkuni ^a  

^a UNIVERSITY OF TEXAS AT AUSTIN   (United States)

Author keywords

CEN evolution; Nucleosome topology; Reversome

Indexed keywords

COHESIN; HISTONE H3;

ARTICLE; CENTROMERE; CHROMATIN STRUCTURE; DNA STRUCTURE; DNA SUPERCOILING; GENETIC ORGANIZATION; PLASMID; PRIORITY JOURNAL; SACCHAROMYCES CEREVISIAE;

BIOLOGICAL EVOLUTION; CENTROMERE; CHROMOSOMAL PROTEINS, NON-HISTONE; CHROMOSOMES; DNA, SUPERHELICAL; DNA-BINDING PROTEINS; GENETIC VARIATION; HISTONES; PLASMIDS; SACCHAROMYCES CEREVISIAE; SACCHAROMYCES CEREVISIAE PROTEINS;

SACCHAROMYCES CEREVISIAE; SACCHAROMYCETALES;

EID: 80052019048     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.1101944108     Document Type: Article

References (48)

1. Ghosh S.K., Hajra S., Paek A., Jayaram M. (2006) Mechanisms for chromosome and plasmid segregation. Annu Rev Biochem 75:211-241. (Pubitemid 44118032)
2. Jayaram M., Yang X-M, Mehta S., Voziyanov Y., Velmurugan S. (2004) The 2 micron plasmid of Saccharomyces cerevisiae. Plasmid Biology, eds Funnel BE, Phillips G (ASM Press, Washington, DC), pp 303-324.
3. Velmurugan S., Yang X-M, Chan C.S., Dobson M., Jayaram M. (2000) Partitioning of the 2-microm circle plasmid of Saccharomyces cerevisiae. Functional coordination with chromosome segregation and plasmid-encoded Rep protein distribution. J Cell Biol 149:553-566. (Pubitemid 30252390)
4. Futcher A.B. (1986) Copy number amplification of the 2 micron circle plasmid of Saccharomyces cerevisiae. J Theor Biol 119:197-204.
5. Volkert F.C., Broach J.R. (1986) Site-specific recombination promotes plasmid amplification in yeast. Cell 46:541-550. (Pubitemid 16022409)
6. Murray J.A., Scarpa M., Rossi N., Cesareni G. (1987) Antagonistic controls regulate copy number of the yeast 2 micron plasmid. EMBO J 6:4205-4212.
7. Reynolds A.E., Murray A.W., Szostak J.W. (1987) Roles of the 2 micron gene products in stable maintenance of the 2 micron plasmid of Saccharomyces cerevisiae. Mol Cell Biol 7:3566-3573.
8. Som T., Armstrong K.A., Volkert F.C., Broach J.R. (1988) Autoregulation of 2 micron circle gene expression provides a model for maintenance of stable plasmid copy levels. Cell 52:27-37.
9. Cui H., Ghosh S.K., Jayaram M. (2009) The selfish yeast plasmid uses the nuclear motor Kip1p but not Cin8p for its localization and equal segregation. J Cell Biol 185:251-264.
10. Ghosh S.K., Hajra S., Jayaram M. (2007) Faithful segregation of the multicopy yeast plasmid through cohesin-mediated recognition of sisters. Proc Natl Acad Sci USA 104:13034-13039. (Pubitemid 351737588)
11. Ghosh S.K., Huang C.C., Hajra S., Jayaram M. (2010) Yeast cohesin complex embraces 2 micron plasmid sisters in a tri-linked catenane complex. Nucleic Acids Res 38:570-584.
12. Hajra S., Ghosh S.K., Jayaram M. (2006) The centromere-specific histone variant Cse4p (CENP-A) is essential for functional chromatin architecture at the yeast 2-microm circle partitioning locus and promotes equal plasmid segregation. J Cell Biol 174:779-790. (Pubitemid 44373728)
13. Mehta S., et al. (2002) The 2 micron plasmid purloins the yeast cohesin complex: A mechanism for coupling plasmid partitioning and chromosome segregation? J Cell Biol 158:625-637. (Pubitemid 34920102)
14. Mehta S., Yang X.M., Jayaram M., Velmurugan S. (2005) A novel role for the mitotic spindle during DNA segregation in yeast: Promoting 2 microm plasmid-cohesin association. Mol Cell Biol 25:4283-4298. (Pubitemid 40617673)
15. Wong M.C., Scott-Drew S.R., Hayes M.J., Howard P.J., Murray J.A. (2002) RSC2, encoding a component of the RSC nucleosome remodeling complex, is essential for 2 microm plasmid maintenance in Saccharomyces cerevisiae. Mol Cell Biol 22:4218-4229. (Pubitemid 34556591)
16. Yang X.M., Mehta S., Uzri D., Jayaram M., Velmurugan S. (2004) Mutations in a partitioning protein and altered chromatin structure at the partitioning locus prevent cohesin recruitment by the Saccharomyces cerevisiae plasmid and cause plasmid missegregation. Mol Cell Biol 24:5290-5303. (Pubitemid 38738164)
17. Furuyama S., Biggins S. (2007) Centromere identity is specified by a single centromeric nucleosome in budding yeast. Proc Natl Acad Sci USA 104:14706-14711. (Pubitemid 350003207)
18. Keith K.C., Fitzgerald-Hayes M. (2000) CSE4 genetically interacts with the Saccharomyces cerevisiae centromere DNA elements CDE I and CDE II but not CDE III. Implications for the path of the centromere dna around a cse4p variant nucleosome. Genetics 156:973-981.
19. Meluh P.B., Yang P., Glowczewski L., Koshland D., Smith M.M. (1998) Cse4p is a component of the core centromere of Saccharomyces cerevisiae. Cell 94:607-613. (Pubitemid 28427579)
20. Malik H.S., Henikoff S. (2009) Major evolutionary transitions in centromere complexity. Cell 138:1067-1082.
21. Furuyama T., Henikoff S. (2009) Centromeric nucleosomes induce positive DNA supercoils. Cell 138:104-113.
22. Kingston I.J., Yung J.S., Singleton M.R. (2011) Biophysical characterization of the centromere-specific nucleosome from budding yeast. J Biol Chem 286:4021-4026.
23. Sekulic N., Bassett E.A., Rogers D.J., Black B.E. (2010) The structure of (CENP-A-H4)(2) reveals physical features that mark centromeres. Nature 467:347-351.
24. Huang C.C., Hajra S., Ghosh S.K., Jayaram M. (2011) Cse4 (CenH3) association with the Saccharomyces cerevisiae plasmid partitioning locus in its native and chromosomally integrated states: Implications in centromere evolution. Mol Cell Biol 31:1030-1040.
25. Camahort R., et al. (2009) Cse4 is part of an octameric nucleosome in budding yeast. Mol Cell 35:794-805.
26. Lefrançois P., et al. (2009) Efficient yeast ChIP-Seq using multiplex short-read DNA sequencing. BMC Genomics 10:37.
27. Pearson C.G., et al. (2004) Stable kinetochore-microtubule attachment constrains centromere positioning in metaphase. Curr Biol 14:1962-1967. (Pubitemid 39464822)
28. Dimitriadis E.K., Weber C., Gill R.K., Diekmann S., Dalal Y. (2010) Tetrameric organization of vertebrate centromeric nucleosomes. Proc Natl Acad Sci USA 107:20317-20322.
29. Dalal Y., Wang H., Lindsay S., Henikoff S. (2007) Tetrameric structure of centromeric nucleosomes in interphase Drosophila cells. PLoS Biol 5:e218.
30. Dalal Y., Furuyama T., Vermaak D., Henikoff S. (2007) Structure, dynamics, and evolution of centromeric nucleosomes. Proc Natl Acad Sci USA 104:15974-15981. (Pubitemid 350099363)
31. Mizuguchi G., Xiao H., Wisniewski J., Smith M.M., Wu C. (2007) Nonhistone Scm3 and histones CenH3-H4 assemble the core of centromere-specific nucleosomes. Cell 129:1153-1164. (Pubitemid 46900852)
32. Black B.E., Cleveland D.W. (2011) Epigenetic centromere propagation and the nature of CENP-a nucleosomes. Cell 144:471-479.
33. Gkikopoulos, T., et al. (2011) The SWI/SNF complex acts to constrain distribution of the centromeric histone variant Cse4. EMBO J 30:1919-1927.
34. Collins K.A., Furuyama S., Biggins S. (2004) Proteolysis contributes to the exclusive centromere localization of the yeast Cse4/CENP-A histone H3 variant. Curr Biol 14:1968-1972. (Pubitemid 39464823)
35. Hewawasam G., et al. (2010) Psh1 is an E3 ubiquitin ligase that targets the centromeric histone variant Cse4. Mol Cell 40:444-454.
36. Ranjitkar P., et al. (2010) An E3 ubiquitin ligase prevents ectopic localization of the centromeric histone H3 variant via the centromere targeting domain. Mol Cell 40:455-464.
37. Amor D.J., et al. (2004) Human centromere repositioning "in progress". Proc Natl Acad Sci USA 101:6542-6547.
38. Marshall O.J., Chueh A.C., Wong L.H., Choo K.H. (2008) Neocentromeres: New insights into centromere structure, disease development, and karyotype evolution. Am J Hum Genet 82:261-282. (Pubitemid 351726108)
39. Allshire R.C. (2004) RNA interference, heterochromatin, and centromere function. Cold Spring Harb Symp Quant Biol 69:389-395.
40. Carbon J., Clarke L. (1990) Centromere structure and function in budding and fission yeasts. New Biol 2:10-19. (Pubitemid 20210014)
41. Cheeseman I.M., Drubin D.G., Barnes G. (2002) Simple centromere, complex kinetochore: Linking spindle microtubules and centromeric DNA in budding yeast. J Cell Biol 157:199-203. (Pubitemid 34839816)
42. Aravind L., Watanabe H., Lipman D.J., Koonin E.V. (2000) Lineage-specific loss and divergence of functionally linked genes in eukaryotes. Proc Natl Acad Sci USA 97:11319-11324.
43. Futcher A.B., Cox B.S. (1983) Maintenance of the 2 microns circle plasmid in populations of Saccharomyces cerevisiae. J Bacteriol 154:612-622. (Pubitemid 13080996)
44. Mead D.J., Gardner D.C., Oliver S.G. (1986) The yeast 2 micron plasmid: Strategies for the survival of a selfish DNA. Mol Gen Genet 205:417-421. (Pubitemid 17038603)
45. Alilat M., Sivolob A., Révet B., Prunell A. (1999) Nucleosome dynamics. Protein and DNA contributions in the chiral transition of the tetrasome, the histone (H3-H4)2 tetramer-DNA particle. J Mol Biol 291:815-841. (Pubitemid 29403615)
46. Hamiche A., et al. (1996) Interaction of the histone (H3-H4)2 tetramer of the nucleosome with positively supercoiled DNA minicircles: Potential flipping of the protein from a left- to a right-handed superhelical form. Proc Natl Acad Sci USA 93:7588-7593.
47. Bancaud A., et al. (2007) Nucleosome chiral transition under positive torsional stress in single chromatin fibers. Mol Cell 27:135-147. (Pubitemid 46991385)
48. Lavelle C., et al. (2009) Right-handed nucleosome: Myth or reality? Cell 139:1216-1217, author reply 1217-1218.