RNA interference and heterochromatin in the fission yeast Schizosaccharomyces pombe

Trends in Genetics

Volumn 21, Issue 8, 2005, Pages 450-456

  Martienssen, Robert A ^a   Zaratiegui, Mikel ^a   Goto, Derek B ^a  

^a Howard Hughes Medical Institute Cold Spring Harbor Laboratory Cold Spring Harbor   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CIS ACTING ELEMENT; DNA BINDING PROTEIN; DNA DIRECTED RNA POLYMERASE; DOUBLE STRANDED RNA; HISTONE; MICRORNA; RNA DIRECTED RNA POLYMERASE; RNA PRECURSOR; SMALL INTERFERING RNA; TRANS ACTING FACTOR;

BIOLOGICAL MODEL; CELL DIVISION; CENTROMERE; CHROMOSOME SEGREGATION; DELETION MUTANT; DICENTRIC CHROMOSOME; DNA DAMAGE; EUKARYOTE; GENE CASSETTE; GENE EXPRESSION; GENE LOCUS; GENE MUTATION; GENE SILENCING; HETEROCHROMATIN; MATING TYPE; MOLECULAR CLONING; NONHUMAN; POSTTRANSCRIPTIONAL GENE SILENCING; PRIORITY JOURNAL; PROTEIN MODIFICATION; REPORTER GENE; REVERTANT; REVIEW; RNA INTERFERENCE; RNA SPLICING; SCHIZOSACCHAROMYCES POMBE; TRANSCRIPTION INITIATION; TRANSCRIPTION REGULATION; TRANSPOSON;

CELL DIVISION; CENTROMERE; DNA TRANSPOSABLE ELEMENTS; GENE SILENCING; HETEROCHROMATIN; HISTONES; MODELS, GENETIC; POLYNUCLEOTIDE ADENYLYLTRANSFERASE; RNA INTERFERENCE; RNA REPLICASE; RNA-DIRECTED DNA POLYMERASE; SCHIZOSACCHAROMYCES;

EUKARYOTA; SCHIZOSACCHAROMYCES POMBE;

EID: 22144447822     PISSN: 01689525     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.tig.2005.06.005     Document Type: Review

References (90)

1. M. Baum The centromeric K-type repeat and the central core are together sufficient to establish a functional Schizosaccharomyces pombe centromere Mol. Biol. Cell 5 1994 747 761
2. A.L. Pidoux, and R.C. Allshire Kinetochore and heterochromatin domains of the fission yeast centromere Chromosome Res. 12 2004 521 534
3. T.A. Volpe Regulation of heterochromatic silencing and histone H3 lysine-9 methylation by RNAi Science 297 2002 1833 1837
4. B. Lehnertz Suv39h-mediated histone H3 lysine 9 methylation directs DNA methylation to major satellite repeats at pericentric heterochromatin Curr. Biol. 13 2003 1192 1200
5. R. Saffery Transcription within a functional human centromere Mol. Cell 12 2003 509 516
6. C. Maison Higher-order structure in pericentric heterochromatin involves a distinct pattern of histone modification and an RNA component Nat. Genet. 30 2002 329 334
7. D. Zilberman ARGONAUTE4 control of locus-specific siRNA accumulation and DNA and histone methylation Science 299 2003 716 719
8. S. Melquist, and J. Bender Transcription from an upstream promoter controls methylation signaling from an inverted repeat of endogenous genes in Arabidopsis Genes Dev. 17 2003 2036 2047
9. M. Pal-Bhadra Heterochromatic silencing and HP1 localization in Drosophila are dependent on the RNAi machinery Science 303 2004 669 672
10. T. Fukagawa Dicer is essential for formation of the heterochromatin structure in vertebrate cells Nat. Cell Biol. 6 2004 784 791
11. K.V. Morris Small interfering RNA-induced transcriptional gene silencing in human cells Science 305 2004 1289 1292
12. H. Kawasaki, and K. Taira Induction of DNA methylation and gene silencing by short interfering RNAs in human cells Nature 431 2004 211 217
13. C. Kanellopoulou Dicer-deficient mouse embryonic stem cells are defective in differentiation and centromeric silencing Genes Dev. 19 2005 489 501
14. R.C. Allshire Mutations derepressing silent centromeric domains in fission yeast disrupt chromosome segregation Genes Dev. 9 1995 218 233
15. T. Jenuwein, and C.D. Allis Translating the histone code Science 293 2001 1074 1080
16. S.I.S. Grewal Histone deacetylase homologs regulate epigenetic inheritance of transcriptional silencing and chromosome segregation in fission yeast Genetics 150 1998 563 576
17. S.I.S. Grewal, and A.J.S. Klar A recombinationally repressed region between mat2 and mat3 loci shares homology to centromeric repeats and regulates directionality of mating-type switching in fission yeast Genetics 146 1997 1221 1238
18. K. Ekwall Fission yeast mutants that alleviate transcriptional silencing in centromeric flanking repeats and disrupt chromosome segregation Genetics 153 1999 1153 1169
19. V. Wood The genome sequence of Schizosaccharomyces pombe Nature 415 2002 871 880
20. P. Provost Dicer is required for chromosome segregation and gene silencing in fission yeast cells Proc. Natl. Acad. Sci. U. S. A. 99 2002 16648 16653
21. B.J. Reinhart, and D.P. Bartel Small RNAs correspond to centromere heterochromatic repeats Science 297 2002 1831
22. A.J. Bannister Selective recognition of methylated lysine 9 on histone H3 by the HP1 chromo domain Nature 410 2001 120 124
23. J.F. Partridge cis-acting DNA from fission yeast centromeres mediates histone H3 methylation and recruitment of silencing factors and cohesin to an ectopic site Curr. Biol. 12 2002 1652 1660
24. M. Sadaie A chromodomain protein, Chp1, is required for the establishment of heterochromatin in fission yeast EMBO J. 23 2004 3825 3835
25. A.A. Aravin Double-stranded RNA-mediated silencing of genomic tandem repeats and transposable elements in the D. melanogaster germline Curr. Biol. 11 2001 1017 1027
26. I.M. Hall Establishment and maintenance of a heterochromatin domain Science 297 2002 2232 2237
27. T. Volpe RNA interference is required for normal centromere function in fission yeast Chromosome Res. 11 2003 137 146
28. N. Ayoub A fission yeast repression element cooperates with centromere-like sequences and defines a mat silent domain boundary Genetics 156 2000 983 994
29. G. Thon Localization and properties of a silencing element near the mat3-M mating-type cassette of Schizosaccharomyces pombe Genetics 151 1999 945 963
30. S. Jia RNAi-independent heterochromatin nucleation by the stress-activated ATF/CREB family proteins Science 304 2004 1971 1976
31. D. Chen Global transcriptional responses of fission yeast to environmental stress Mol. Biol. Cell 14 2003 214 229
32. + J. Biol. Chem. 279 2004 50857 50863
33. W.W. Steiner Meiotic DNA breaks at the S. pombe recombination hot spot M26 Mol. Cell 9 2002 847 855
34. K.R. Hansen Global effects on gene expression in fission yeast by silencing and RNA interference machineries Mol. Cell. Biol. 25 2005 590 601
35. H.S. Kim 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. 279 2004 42850 42859
36. V. Schramke, and R. Allshire Hairpin RNAs and retrotransposon LTRs effect RNAi and chromatin-based gene silencing Science 301 2003 1069 1074
37. Z. Lippman, and R. Martienssen The role of RNA interference in heterochromatic silencing Nature 431 2004 364 370
38. Z. Lippman Distinct mechanisms determine transposon inheritance and methylation via small interfering RNA and histone modification PLoS Biol. 1 2003 E67
39. D. Kipling, and P.E. Warburton Centromeres, CENP-B and tigger too Trends Genet. 13 1997 141 145
40. T. Sijen, and R.H. Plasterk Transposon silencing in the Caenorhabditis elegans germ line by natural RNAi Nature 426 2003 310 314
41. D. Donze The boundaries of the silenced HMR domain in Saccharomyces cerevisiae Genes Dev. 13 1999 698 708
42. S.C. Elgin, and S.I. Grewal Heterochromatin: silence is golden Curr. Biol. 13 2003 R895 R898
43. J.F. Partridge Distinct protein interaction domains and protein spreading in a complex centromere Genes Dev. 14 2000 783 791
44. A. Verdel RNAi-mediated targeting of heterochromatin by the RITS complex Science 303 2004 672 676
45. K. Noma RITS acts in cis to promote RNA interference-mediated transcriptional and post-transcriptional silencing Nat. Genet. 36 2004 1174 1180
46. M.R. Motamedi Two RNAi complexes, RITS and RDRC, physically interact and localize to noncoding centromeric RNAs Cell 119 2004 789 802
47. R. Martienssen Transposable elements, RNA interference and the origin of heterochromatin G. Hannon RNAi: a Guide to Gene Silencing 2003 Cold Spring Harbor Laboratory Press 129 148
48. P.D. Zamore Ancient pathways programmed by small RNAs Science 296 2002 1265 1269
49. E.V. Makeyev, and D.H. Bamford Cellular RNA-dependent RNA polymerase involved in posttranscriptional gene silencing has two distinct activity modes Mol. Cell 10 2002 1417 1427
50. K. Sugaya Alteration of the largest subunit of RNA polymerase II and its effect on chromosome stability in Schizosaccharomyces pombe Mol. Gen. Genet. 258 1998 279 287
51. H. Kato RNA polymerase II is required for siRNA generation and peri-centromeric heterochromatin formation in fission yeast Science 2005 http://www.sciencemag.org 10.1126/science.1114955
52. A.J. Herr RNA polymerase IV directs silencing of endogenous DNA Science 308 2005 118 120
53. S.I. Gunderson U1 snRNP inhibits pre-mRNA polyadenylation through a direct interaction between U1 70K and poly(A) polymerase Mol. Cell 1 1998 255 264
54. C.C. Chen A member of the polymerase beta nucleotidyltransferase superfamily is required for RNA interference in C. elegans Curr. Biol. 15 2005 378 383
55. R. Egel Unblocking of meiotic crossing over between the silent mating-type cassettes of fission yeast, conditioned by the recessive pleiotropic mutant rik1 Curr. Genet. 15 1989 407 410
56. K. Ekwall, and T. Ruusala Mutations in rik1, clr2, clr3 and clr4 genes asymmetrically derepress the silent mating-type loci in fission yeast Genetics 136 1994 53 64
57. + disrupt the localisation of the chromo domain protein Swi6p and impair centromere function J. Cell Sci. 109 1996 2637 2648
58. C.T. Tuzon The fission yeast heterochromatin protein Rik1 is required for telomere clustering during meiosis J. Cell Biol. 165 2004 759 765
59. B.O. Wittschieben, and R.D. Wood DDB complexities DNA Repair (Amst.) 2 2003 1065 1069
60. D.F. Schroeder De-etiolated 1 and damaged DNA binding protein 1 interact to regulate Arabidopsis photomorphogenesis Curr. Biol. 12 2002 1462 1472
61. Y. Yanagawa Arabidopsis COP10 forms a complex with DDB1 and DET1 in vivo and enhances the activity of ubiquitin conjugating enzymes Genes Dev. 18 2004 2172 2181
62. A.F. Neuwald, and A. Poleksic PSI-BLAST searches using hidden markov models of structural repeats: prediction of an unusual sliding DNA clamp and of beta-propellers in UV-damaged DNA-binding protein Nucleic Acids Res. 28 2000 3570 3580
63. W. Luo, and D. Bentley A ribonucleolytic Rat torpedoes RNA polymerase II Cell 119 2004 911 914
64. +) gene, encoding a putative nuclear 5′→3′ exoribonuclease, is required for proper chromosome segregation in fission yeast Nucleic Acids Res. 29 2001 1326 1333
65. M. Kim The yeast Rat1 exonuclease promotes transcription termination by RNA polymerase II Nature 432 2004 517 522
66. E.J. Yoo Fission yeast hrp1, a chromodomain ATPase, is required for proper chromosome segregation and its overexpression interferes with chromatin condensation Nucleic Acids Res. 28 2000 2004 2011
67. C. Alen A role for chromatin remodeling in transcriptional termination by RNA polymerase II Mol. Cell 10 2002 1441 1452
68. Y. Shi Histone demethylation mediated by the nuclear amine oxidase homolog LSD1 Cell 119 2004 941 953
69. L. Johnson Mass spectrometry analysis of Arabidopsis histone H3 reveals distinct combinations of post-translational modifications Nucleic Acids Res. 32 2004 6511 6518
70. K. Ahmad, and S. Henikoff Histone H3 variants specify modes of chromatin assembly Proc. Natl. Acad. Sci. U. S. A. 99 Suppl. 4 2002 16477 16484
71. M. Raponi, and G.M. Arndt Double-stranded RNA-mediated gene silencing in fission yeast Nucleic Acids Res. 31 2003 4481 4489
72. A. Sigova A single Argonaute protein mediates both transcriptional and posttranscriptional silencing in Schizosaccharomyces pombe Genes Dev. 18 2004 2359 2367
73. E. Lund Nuclear export of microRNA precursors Science 303 2004 95 98
74. R. Yi Exportin-5 mediates the nuclear export of pre-microRNAs and short hairpin RNAs Genes Dev. 17 2003 3011 3016
75. A. Kusano Schizosaccharomyces pombe RanGAP homolog, SpRna1, is required for centromeric silencing and chromosome segregation Mol. Biol. Cell 15 2004 4960 4970
76. M. Yoshida, and S. Sazer Nucleocytoplasmic transport and nuclear envelope integrity in the fission yeast Schizosaccharomyces pombe Methods 33 2004 226 238
77. J. Mandell Global expression changes resulting from loss of telomeric DNA in fission yeast Genome Biol. 6 2004 R1
78. I.M. Hall RNA interference machinery regulates chromosome dynamics during mitosis and meiosis in fission yeast Proc. Natl. Acad. Sci. U. S. A. 100 2003 193 198
79. M. Baum, and L. Clarke Fission yeast homologs of human CENP-B have redundant functions affecting cell growth and chromosome segregation Mol. Cell. Biol. 20 2000 2852 2864
80. H. Nakagawa Fission yeast CENP-B homologs nucleate centromeric heterochromatin by promoting heterochromatin-specific histone tail modifications Genes Dev. 16 2002 1766 1778
81. H. Kondoh Mis3 with a conserved RNA binding motif is essential for ribosome biogenesis and implicated in the start of cell growth and S phase checkpoint Genes Cells 5 2000 525 541
82. K. Takahashi Fission yeast minichromosome loss mutants mis cause lethal aneuploidy and replication abnormality Mol. Biol. Cell 5 1994 1145 1158
83. E.S. Chen A cell cycle-regulated GATA factor promotes centromeric localization of CENP-A in fission yeast Mol. Cell 11 2003 175 187
84. J.B. Carmichael Ago1 and Dcr1, two core components of the RNA interference pathway, functionally diverge from Rdp1 in regulating cell cycle events in Schizosaccharomyces pombe Mol. Biol. Cell 15 2004 1425 1435
85. G.J. Hannon RNA interference Nature 418 2002 244 251
86. C.C. Mello, and D. Conte Jr Revealing the world of RNA interference Nature 431 2004 338 342
87. Y. Tomari, and P.D. Zamore Perspective: machines for RNAi Genes Dev. 19 2005 517 529
88. D. Baulcombe RNA silencing in plants Nature 431 2004 356 363
89. J.C. Carrington, and V. Ambros Role of microRNAs in plant and animal development Science 301 2003 336 338
90. V. Ambros MicroRNAs and other tiny endogenous RNAs in C. elegans Curr. Biol. 13 2003 807 818