Чарльз Эллис - Эпигенетика

Aravin A.A., Naumova N.M., Tulin A. V., Vagin V.V., Rozovsky Y.M., and Gvozdev V.A. 2001. Double-stranded RNA-mediated silencing of genomic tandem repeats and transposable elements in the D. melanogaster germline. Curr. Biol. 11: 1017-1027.

Bao N., Lye K.W., and Barton M.K. 2004. Micro RNA binding sites in Arabidopsis class III HD-ZIP mRNAs are required for methylation of the template chromosome. Dev. Cell 7: 653-662.

Barabino S.M., Ohnacker M., and Keller W. 2000. Distinct roles of two Ythlp domains in 3’-end cleavage and polyadenylation of yeast pre-mRNAs. EMBO J. 19: 3778-3787.

Bartel D.P. 2004. MicroRNAs: Genomics, biogenesis, mechanism, and function. Cell 116: 281-297.

Baulcombe D. 2004. RNA silencing in plants. Nature 431: 356-363.

Bernstein E., CaudyA.A., Hammond S.M., and Hannon G.J. 2001. Role for a bidentate ribonuclease in the initiation step of RNA interference. Nature 409: 363-366.

Bntten R.J. and Davidson E.H. 1969. Gene regulation for higher cells: A theory. Science 165: 349-357.

Buhler M., \ferdel A., and Moazed D. 2006. Tethering RITS to a nascent transcript initiates RNAi- and heterochromatin-dependent gene silencing. Cell 125: 873-886.

CaoX., Aufsatz W., Zilberman D., Mette M.F., Huang M.S., Matzke M., and Jacobsen S.E. 2003. Role of the DRM and CMT3 methyltrans-ferases in RNA-directed DNA methylation. Curr. Biol. 13: 2212-2217.

Chan S.W., Zilberman D., Xie Z., Johansen L.K., Carrington, J.C., and Jacobsen S.E. 2004. RNA silencing genes control de novo DNA methylation. Science 303: 1336.

Chen C.C., Simard M.J., Tabara H., Brownell D.R., McCollough J.A., and Mello C.C. 2005. A member of the polymerase (3 nucleotidyltransferase superfamily is required for RNA interference in C. elegans. Curr. Biol. 15: 378-383.

Dalmay T., Hamilton A., Mueller E., and Baulcombe D.C. 2000. Potato vims X amplicons in Arabidopsis mediate genetic and epigenetic gene silencing. Plant Cell 12: 369-379.

Davis E., Caiment E., Tordoir X., Cavaille J., Ferguson-Smith A., Cockett N., Georges M., and Charlier C. 2005. RNAi-mediated allelic trans-interaction at the imprinted Rtl 1/Peg 11 locus. Curr. Biol. 15: 743-749.

Djupedal I., Portoso M., Spahr H., Bonilla C., Gustafsson C.M., Allshire R.C., and Ekwall K. 2005. RNA Pol II subunit Rpb7 promotes centromeric transcription and RNAi-directed chromatin silencing. Genes Dev. 19: 2301-2306.

Ebbs M.L., Bartee L., and Bender J. 2005. H3 lysine 9 methylation is maintained on a transcribed inverted repeat by combined action of SUVH6 and SUVH4 methyltransferases. Mol. Cell. Biol. 25: 10507-10515.

Elbashir S.M., Lendeckel W., and Tuschl T. 2001. RNA interference is mediated by 21- and 22-nucleotide RNAs. Genes Dev. 15: 188-200.

Filipowicz W., Jaskiewicz L., Kolb F.A., and Pillai R.S. 2005. Post-transcriptional gene silencing by siRNAs and miRNAs. Curr. Opin. Stmct. Biol. 15: 331-341.

Fire A., Xu S., Montgomery M.K., Kostas S.A., Driver S.E., and Mello C.C. 1998. Potent and specific genetic interference by double-stranded RNA in Caenorhabditis elegans. Nature 391: 806-811.

Francis N.J. and Kingston R.E. 2001. Mechanisms of transcriptional memory. Nat. Rev. Mol. Biol. 2: 409-421.

Fukagawa T., Nogami M., Yoshikawa M., Ikeno M., Okazaki T., Takami Y., Nakayama T., and Oshimura M. 2004. Dicer is essential for formation of the heterochromatin structure in vertebrate cells. Nat. Cell Biol. 6: 784-791.

Galagan J.E. and Selker E.U. 2004. RIP: The evolutionary cost of genome defense. Trends Genet. 20: 417-423.

GasciolliV., Mallory A.C., Bartel D.P., and Vaucheret H. 2005. Partially redundant functions of Arabidopsis DICER-like enzymes and a role for DCL4 in producing trans -acting siRNAs. Curr. Biol. 15: 1494-1500.

Gasser S.M., Hediger E., Taddei A., Neumann F.R., and Garten-berg M.R. 2004. The function of telomere clustering in yeast: The circe effect. Cold Spring Harbor Symp. Quant. Biol. 69: 327-337.

Gilbert W. and Muller-Hill B. 1966. Isolation of the Lac repressor. Proc. Natl. Acad. Sci. 56: 1891-1898.

Grewal S.I. 2000. Transcriptional silencing in fission yeast. J. Cell. Physiol. 184: 311-318.

Grewal S.I. and Moazed D. 2003. Heterochromatin and epigenetic control of gene expression. Science 30: 798-802.

Grishok A., Sinskey J.L., and Sharp P.A. 2005. Transcriptional silencing of a transgene by RNAi in the soma of C. elegans. Genes Dev. 19: 683-696.

Hall I.M., Shankaranarayana G.D., Noma K., Ayoub N.. Cohen A., and Grewal S.I. 2002. Establishment and maintenance of a heterochromatin domain. Science 297: 2232-2237.

Hamilton A.J. and Baulcombe D.C. 1999. A species of small antisense RNA in posttranscriptional gene silencing in plants. Science 286: 950-952.

Hampsey M. and Reinberg D. 2003. Tails of intrigue: Phosphorylation of RNA polymerase II mediates histone methylation Cell 113: 429-432.

Hannon G.J. 2002. RNA interference. Nature 418: 244-251.

Herr A. J., Jensen M.B., Dalmay T, and Baulcombe D.C. 2005. RNA polymerase IV directs silencing of endogenous DNA. Science 308: 118-120.

Higa L.A., Mihaylov I.S., Banks D.P., Zheng J., and Zhang H. 2003. Radiation-mediated proteolysis of CDT1 by CUL4-ROC1 and CSN complexes constitutes a new checkpoint. Nat. Cell Biol. 5: 1008-1015.

Hong E.E., Villen J., Gerace E.L., Gygi, S.P., and Moazed D. 2005. A Cullin E3 ubiquitin ligase complex associates with Rikl and the Clr4 histone H3-K9 methyltransferase and is required for RNAi-mediated heterochromatin formation. RNA Biol. 2: 1 06-111.

Horn P.J., Bastie J.N., and Peterson C.L 2005. A Rikl-associated, cullin-dependent E3 ubiquitin ligase is essential for heterochromatin formation. Genes Dev. 19: 1705-1714.

Jacob F. and Monod J. 1961. Genetic regulatory mechanisms in the synthesis of proteins. J. Mol. Biol. 3: 318-356.

Jeffery L. and Nakielny S. 2004. Components of the DNA methylation system of chromatin control are RNA-binding proteins. J. Biol. Chem. 279: 49479-49487.

Jia S., Kobayashi R., and Grewal S.I. 2005. Ubiquitin ligase component Cul4 associates with Clr4 histone methyltransferase to assemble heterochromatin. Nat. Cell Biol. 7: 1007-1013.

Jia S., Noma K., and Grewal S.I. 2004. RNAi-independent heterochromatin nucleationby the stress-activated ATF/CREB family proteins. Science 304: 1971-1976.

Kanellopoulou C., Muljo S.A., Kung A.L., Ganesan S., Drapkin R., Jenuwein T., Livingston D.M., and Rajewsky K. 2005. Dicer-deficient mouse embryonic stem cells are defective in differentiation and centromeric silencing. Genes Dev. 19: 489-501.

Kanno T., Huettel B., Mette M.F., Aufsatz W., Jaligot E., Daxinger L., Kreil D.P., Matzke M., and Matzke A.J. 2005. Atypical RNA polymerase subunits required for RNA-directed DNA methylation. Nat. Genet. 37: 761-765.

Kanno T., Mette M.F., Kreil D.P., Aufsatz W., Matzke M., and Matzke A.J. 2004. Involvement of putative SNF2 chromatin remodeling protein DRD1 in RNA-directed DNA methylation. Curr. Biol. 14: 801-805.

Kanoh J., Sadaie M., Urano T., and Ishikawa F. 2005. Telomere binding protein Tazl establishes Swi6 heterochromatin independently of RNAi at telomeres. Curr. Biol. 15: 1808-1819.

Kato H., Goto D.B., Martienssen R.A., Urano T., Furukawa K., and Murakami Y. 2005. RNA polymerase II is required for RNAi-dependent heterochromatin assembly. Science 309: 467-469.

Kim J.K., Gabel H.W., Kamath R.S., Tewari M., Pasquinelli A., Rual J.F., Kennedy S., Dybbs M., Bertin N., Kaplan J.M., etal. 2005. Functional genomic analysis of RNA interference in C. elegans. Science 308: 1164-1167.

KinoshitaT., Miura A., Choi Y., Kinoshita Y., CaoX., Jacobsen S.E., Fischer R.L., and Kakutani T. 2004. One-way control of FWA imprinting in Arabidopsis endosperm by DNA methylation. Science 303: 521-523.

Li F.. Goto D.B.. Zaratiegui M., TangX., Martienssen R., and Cande W.Z. 2005. Two novel proteins, Dosl and Dos2, interact with Rikl to regulate heterochromatic RNA interference and histone modification. Curr. Biol. 15: 1448-1457.

Li H.W. and Ding S.W. 2005. Antiviral silencing in animals. FEES Lett. 579: 5965-5973.

Lippman Z., Gendrel A.V., Black M., Vaughn M.W., Dedhia N., McCombie W.R., Lavine K., Mittal V., May B., Kasschau K.D., et al. 2004. Role of transposable elements in heterochromatin and epigenetic control. Nature 430: 471-476.

Lippman Z. and Martienssen R. 2004. The role of RNA interference in heterochromatic silencing. Nature 431: 364-370.

Lippman Z., May B., Yordan C., Singer T., and Martienssen R. 2003. Distinct mechanisms determine transposon inheritance and methylation via small interfering RNA and histone modification. PLoS Biol 1: E67.

Maine E.M., Hauth J., RatliffT., Vough V.E., SheX., and Kelly W.G. 2005. EGO-1, a putative RNA-dependent RNA polymerase, is required for heterochromatin assembly on unpaired dna during C. elegans meiosis. Curr. Biol. 15: 1972-1978.

Martienssen R.A. 2003. Maintenance of heterochromatin by RNA interference of tandem repeats. Nat. Genet. 35: 213—214.

Martienssen R.A., Zaratiegui M., and Goto D.B. 2005. RNA interference and heterochromatin in the fission yeast Schizosaccharomyces pombe. Trends Genet. 21: 450-456.

Martienssen R., Lippman Z., May B., Ronemus M., and Vaughn M. 2004. Transposons, tandem repeats, and the silencing of imprinted genes. Cold Spring Harbor Symp. Quant. Biol. 69: 371-379.

Mathieu O. and Bender J. 2004. RNA-directed DNA methylation. J.Cell Sci. 117: 4881-4888.

Matzke M., Aufsatz W., Kanno T., Daxinger L., Papp I., Mette M.F., and Matzke A.J. 2004. Genetic analysis of RNA-mediated transcriptional gene silencing. Biochim. Biophys. Acta 1677: 129-141.

May B.P., Lippman Z.B., Fang Y., Spector D.L., and Martienssen R.A. 2005. Differential regulation of strand-specific transcripts from Arabidopsis centromeric satellite repeats. PLoS Genet. 1: e79.

Mette M.F., van der Winden J., Matzke M.A., and Matzke A.J. 1999. Production of aberrant promoter transcripts contributes to methylation and silencing of unlinked homologous promoters in trans. EMBO J. 18: 241-248.

Mette M.F., Aufsatz W., van der Winden J., Matzke M.A., and Matzke A.J. 2000. Transcriptional silencing and promoter methylation triggered by double-stranded RNA. EMBO J. 19: 5194-5201.