Centromeric Heterochromatin Assembly in Fission Yeast--balancing Transcription, RNA Interference and Chromatin Modification

Overview

Journal Chromosome Res

Date 2012 Jun 27

PMID 22733402

Citations 21

Authors

Benjamin J Alper

Brandon R Lowe

Janet F Partridge

Affiliations

Soon will be listed here.

Abstract

Distinct regions of the eukaryotic genome are packaged into different types of chromatin, with euchromatin representing gene rich, transcriptionally active regions and heterochromatin more condensed and gene poor. The assembly and maintenance of heterochromatin is important for many aspects of genome control, including silencing of gene transcription, suppression of recombination, and to ensure proper chromosome segregation. The precise mechanisms underlying heterochromatin establishment and maintenance are still unclear, but much progress has been made towards understanding this process during the last few years, particularly from studies performed in fission yeast. In this review, we hope to provide a conceptual model of centromeric heterochromatin in fission yeast that integrates our current understanding of the competing forces of transcription, replication, and RNA decay that influence its assembly and propagation.

Citing Articles

Evolutional heterochromatin condensation delineates chromocenter formation and retrotransposon silencing in plants.

Zhang W, Cheng L, Li K, Xie L, Ji J, Lei X Nat Plants. 2024; 10(8):1215-1230.

PMID: 39014153 DOI: 10.1038/s41477-024-01746-4.

Mathematical model for the role of multiple pericentromeric repeats on heterochromatin assembly.

Ghimire P, Motamedi M, Joh R PLoS Comput Biol. 2024; 20(4):e1012027.

PMID: 38598558 PMC: 11034663. DOI: 10.1371/journal.pcbi.1012027.

Epigenetic inheritance and boundary maintenance at human centromeres.

Sidhwani P, Straight A Curr Opin Struct Biol. 2023; 82:102694.

PMID: 37657353 PMC: 10530090. DOI: 10.1016/j.sbi.2023.102694.

The molecular basis of heterochromatin assembly and epigenetic inheritance.

Grewal S Mol Cell. 2023; 83(11):1767-1785.

PMID: 37207657 PMC: 10309086. DOI: 10.1016/j.molcel.2023.04.020.

Structural and functional specificity of H3K36 methylation.

Lam U, Tan B, Poh J, Chen E Epigenetics Chromatin. 2022; 15(1):17.

PMID: 35581654 PMC: 9116022. DOI: 10.1186/s13072-022-00446-7.

References

Volpe T, Kidner C, Hall I, Teng G, Grewal S, Martienssen R . Regulation of heterochromatic silencing and histone H3 lysine-9 methylation by RNAi. Science. 2002; 297(5588):1833-7. DOI: 10.1126/science.1074973. View

Buscaino A, White S, Houston D, Lejeune E, Simmer F, de Lima Alves F . Raf1 Is a DCAF for the Rik1 DDB1-like protein and has separable roles in siRNA generation and chromatin modification. PLoS Genet. 2012; 8(2):e1002499. PMC: 3271066. DOI: 10.1371/journal.pgen.1002499. View

Irvine D, Zaratiegui M, Tolia N, Goto D, Chitwood D, Vaughn M . Argonaute slicing is required for heterochromatic silencing and spreading. Science. 2006; 313(5790):1134-7. DOI: 10.1126/science.1128813. View

Yamagishi Y, Sakuno T, Shimura M, Watanabe Y . Heterochromatin links to centromeric protection by recruiting shugoshin. Nature. 2008; 455(7210):251-5. DOI: 10.1038/nature07217. View

Zhang K, Fischer T, Porter R, Dhakshnamoorthy J, Zofall M, Zhou M . Clr4/Suv39 and RNA quality control factors cooperate to trigger RNAi and suppress antisense RNA. Science. 2011; 331(6024):1624-7. PMC: 6309853. DOI: 10.1126/science.1198712. View

Li F, Goto D, Zaratiegui M, Tang X, Martienssen R, Cande W . Two novel proteins, dos1 and dos2, interact with rik1 to regulate heterochromatic RNA interference and histone modification. Curr Biol. 2005; 15(16):1448-57. DOI: 10.1016/j.cub.2005.07.021. View

Petrie V, Wuitschick J, Givens C, Kosinski A, Partridge J . RNA interference (RNAi)-dependent and RNAi-independent association of the Chp1 chromodomain protein with distinct heterochromatic loci in fission yeast. Mol Cell Biol. 2005; 25(6):2331-46. PMC: 1061622. DOI: 10.1128/MCB.25.6.2331-2346.2005. View

Yamada T, Fischle W, Sugiyama T, Allis C, Grewal S . The nucleation and maintenance of heterochromatin by a histone deacetylase in fission yeast. Mol Cell. 2005; 20(2):173-85. DOI: 10.1016/j.molcel.2005.10.002. View

Kouzarides T . Chromatin modifications and their function. Cell. 2007; 128(4):693-705. DOI: 10.1016/j.cell.2007.02.005. View

10.

Motamedi M, Verdel A, Colmenares S, Gerber S, Gygi S, Moazed D . Two RNAi complexes, RITS and RDRC, physically interact and localize to noncoding centromeric RNAs. Cell. 2004; 119(6):789-802. DOI: 10.1016/j.cell.2004.11.034. View

11.

Ekwall K, Javerzat J, Lorentz A, Schmidt H, Cranston G, Allshire R . The chromodomain protein Swi6: a key component at fission yeast centromeres. Science. 1995; 269(5229):1429-31. DOI: 10.1126/science.7660126. View

12.

Bermejo R, Lai M, Foiani M . Preventing replication stress to maintain genome stability: resolving conflicts between replication and transcription. Mol Cell. 2012; 45(6):710-8. DOI: 10.1016/j.molcel.2012.03.001. View

13.

Sugiyama T, Cam H, Sugiyama R, Noma K, Zofall M, Kobayashi R . SHREC, an effector complex for heterochromatic transcriptional silencing. Cell. 2007; 128(3):491-504. DOI: 10.1016/j.cell.2006.12.035. View

14.

Kloc A, Zaratiegui M, Nora E, Martienssen R . RNA interference guides histone modification during the S phase of chromosomal replication. Curr Biol. 2008; 18(7):490-5. PMC: 2408823. DOI: 10.1016/j.cub.2008.03.016. View

15.

Kim H, Choi E, Shin J, Jang Y, Park S . Regulation of Swi6/HP1-dependent heterochromatin assembly by cooperation of components of the mitogen-activated protein kinase pathway and a histone deacetylase Clr6. J Biol Chem. 2004; 279(41):42850-9. DOI: 10.1074/jbc.M407259200. View

16.

Thon G, Hansen K, Altes S, Sidhu D, Singh G, Verhein-Hansen J . The Clr7 and Clr8 directionality factors and the Pcu4 cullin mediate heterochromatin formation in the fission yeast Schizosaccharomyces pombe. Genetics. 2005; 171(4):1583-95. PMC: 1456086. DOI: 10.1534/genetics.105.048298. View

17.

Halic M, Moazed D . Dicer-independent primal RNAs trigger RNAi and heterochromatin formation. Cell. 2010; 140(4):504-16. PMC: 3020400. DOI: 10.1016/j.cell.2010.01.019. View

18.

Sadaie M, Iida T, Urano T, Nakayama J . A chromodomain protein, Chp1, is required for the establishment of heterochromatin in fission yeast. EMBO J. 2004; 23(19):3825-35. PMC: 522800. DOI: 10.1038/sj.emboj.7600401. View

19.

Maison C, Bailly D, Roche D, Montes de Oca R, Probst A, Vassias I . SUMOylation promotes de novo targeting of HP1α to pericentric heterochromatin. Nat Genet. 2011; 43(3):220-7. DOI: 10.1038/ng.765. View

20.

Baum M, Ngan V, Clarke L . The centromeric K-type repeat and the central core are together sufficient to establish a functional Schizosaccharomyces pombe centromere. Mol Biol Cell. 1994; 5(7):747-61. PMC: 301093. DOI: 10.1091/mbc.5.7.747. View