|
Abruzzi,K.C., Lacadie,S., and Rosbash,M. (2004). Biochemical analysis of TREX complex recruitment to intronless and intron-containing yeast genes. EMBO J. 23, 2620-2631. Allsopp,R.C., Vaziri,H., Patterson,C., Goldstein,S., Younglai,E.V., Futcher,A.B., Grieder,C.W., and Harley,C.B. (1992). Telomere length predicts replicative capacity of human fibroblasts. Pro. Natl. Acad. Sci. USA 89, 10114-10118. Anderson,E.M., Halsey,W.A., and Wuttke,D.S. (2002). Delineation of the high-affinity single-stranded telomeric DNA-binding domain of Saccharomyces cerevisiae Cdc13. Nucleic Acids Res. 30, 4305-4313. Aparicio,O.M., Billington,B.L., and Gottschling,D.E. (1992). Modifiers of position effects are shared between telomeric and silent mating-type loci in S. cerevisiae. Cell 66, 1279-1287. Askree,S.H., Yehuda,T., Smolikov,S., Gurevich,R., Hawk,J., Coker,C., Krauskopf,A., Kupiec,M., and McEachern,M.J. (2004). A genome-wide screen for Saccharomyces cerevisiae deletion mutants that affect telomere length. Proc. Natl. Acad. Sci. U. S. A 101, 8658-8663. Bourns,B.D., Alexander,M.K., Smith,A.M., and Zakian,V.A. (1998). Sir proteins, Rif proteins, and Cdc13p bind Saccharomyces telomeres in vivo. Mol. Cell. Biol. 18, 5600-5608. Braunstein,M., Rose,A.B., Holmes,S.G., Allis,C.D., and Broach,J.R. (1993). Transcriptional silencing in yeast is associated with reduced nucleosome acetylation. Genes Dev. 7, 592-604. Chan,C.S.M. and Tye,B.-K. (1983). Organization of DNA sequences and replication origins at yeast telomeres. Cell 33, 563-573. Chapon,C., Cech,T.R., and Zaug,A.J. (1997). Polyadenylation of telomerase RNA in budding yeast. RNA. 3, 1337-1351. Cockell,M., Palladino,F., Laroche,T., Kyrion,G., Liu,C., Lustig,A.J., and Gasser,S.M. (1995). The carboxy termini of Sir4 and Rap1 affect Sir3 localization: evidence for a multicomponent complex required for yeast telomeric silencing. J. Cell Biol. 129, 909-924. Conrad,M.N., Wright,J.H., Wolf,A.J., and Zakian,V.A. (1990). RAP1 protein interacts with yeast telomeres in vivo: overproduction alters telomere structure and decreases chromosome stability. Cell 63, 739-750. Cuperus,G., Shafaatian,R., and Shore,D. (2000). Locus specificity determinants in the multifunctional yeast silencing protein Sir2. EMBO J. 19, 2641-2651. Dahlseid,J.N., Lew-Smith,J., Lelivelt,M.J., Enomoto,S., Ford,A., Desruisseaux,M., McClellan,M., Lue,N., Culbertson,M.R., and Berman,J. (2003). mRNAs encoding telomerase components and regulators are controlled by UPF genes in Saccharomyces cerevisiae. Eukaryot. Cell 2, 134-142. Dallaire,F., Dupuis,S., Fiset,S., and Chabot,B. (2000). Heterogeneous nuclear ribonucleoprotein A1 and UP1 protect mammalian telomeric repeats and modulate telomere replication in vitro. J. Biol. Chem. 275, 14509-14516. Denisenko,O. and Bomsztyk,K. (2002). Yeast hnRNP K-like genes are involved in regulation of the telomeric position effect and telomere length. Mol. Cell. Biol. 22, 286-297. Enomoto,S., Glowczewski,L., Lew-Smith,J., and Berman,J.G. (2004). Telomere cap components influence the rate of senescence in telomerase-deficient yeast cells. Mol. Cell. Biol. 24, 837-845. Felici,F., Cesareni,G., and Hughes,J.M. (1989). The most abundant small cytoplasmic RNA of Saccharomyces cerevisiae has an important function required for normal cell growth. Mol. Cell Biol. 9, 3260-3268. Ferrezuelo,F., Steiner,B., Aldea,M., and Futcher,B. (2002). Biogenesis of yeast telomerase depends on the importin mtr10. Mol. Cell. Biol. 22, 6046-6055. Fiset,S. and Chabot,B. (2001). hnRNP A1 may interact simultaneously with telomeric DNA and the human telomerase RNA in vitro. Nucleic Acids Res. 29, 2268-2275. Fritze,C.E., Verschueren,K., Strich,R., and Easton,E.R. (1997). Direct evidence for SIR2 modulation of chromatin structure in yeast rDNA. EMBO J. 16, 6495-6509. Garvik,B., Carson,M., and Hartwell,L. (1995). Single-stranded DNA arising at telomeres in cdc13 mutants may constitute a specific signal for the RAD9 checkpoint. Mol. Cell. Biol. 15, 6128-6138. Gonzalez,C.I., Ruiz-Echevarria,M.J., Vasudevan,S., Henry,M.F., and Peltz,S.W. (2000). The yeast hnRNP-like protein Hrp1/Nab4 marks a transcript for nonsense-mediated mRNA decay. Mol. Cell 5, 489-499. Gotta,M. and Cockell,M. (1997). Telomeres, not the end of the story. Bioessays 19, 367-370. Gotta,M., Strahl-Bolsinger,S., Renauld,H., Laroche,T., Kennedy,B.K., Grunstein,M., and Gasser,S.M. (1997). Localization of Sir2p: the nucleolus as a compartment for silent information regulators. EMBO J. 16, 3243-3255. Gottschling,D.E., Aparicio,O.M., Billington,B.L., and Zakian,V.A. (1990). Position effect at S. cerevisiae telomeres: reversible repression of Pol II transcription. Cell 63, 751-762. Grandin,N., Damon,C., and Charbonneau,M. (2001). Ten1 functions in telomere end protection and length regulation in association with Stn1 and Cdc13. EMBO J. 20, 1173-1183. Grandin,N., Reed,S.I., and Charbonneau,M. (1997). Stn1, a new Saccharomyces cerevisiae protein, is implicated in telomere size regulation in association with Cdc13. Genes Dev. 11, 512-527. Greider,C.W. and Blackburn,E.H. (1989). Telomeric sequence in the RNA of Tetrahymena telomerase required for telomere repeat synthesis. Nature 337, 331-337. Gross,S. and Moore,C.L. (2001). Rna15 interaction with the A-rich yeast polyadenylation signal is an essential step in mRNA 3'-end formation. Mol. Cell. Biol. 21, 8045-8055. Hacker,S. and Krebber,H. (2004). Differential export requirements for shuttling serine/arginine-type mRNA-binding proteins. J. Biol. Chem. 279, 5049-5052. Henderson,E.R. and Blackburn,E.H. (1989). An overhanging 3' terminus is a conserved feature of telomeres. Mol. Cell. Biol. 9, 345-348. Henry,M., Borland,C.Z., Bossie,M., and Silver,P.A. (1996). Potential RNA binding proteins in Saccharomyces cerevisiae identified as suppressors of temperature-sensitive mutations in NPL3. Genetics 142, 103-115. Ho,Y., Gruhler,A., Heilbut,A., Bader,G.D., Moore,L., Adams,S.L., Millar,A., Taylor,P., Bennett,K., Boutilier,K., Yang,L., Wolting,C., Donaldson,I., Schandorff,S., Shewnarane,J., Vo,M., Taggart,J., Goudreault,M., Muskat,B., Alfarano,C., Dewar,D., Lin,Z., Michalickova,K., Willems,A.R., Sassi,H., Nielsen,P.A., Rasmussen,K.J., Andersen,J.R., Johansen,L.E., Hansen,L.H., Jespersen,H., Podtelejnikov,A., Nielsen,E., Crawford,J., Poulsen,V., Sorensen,B.D., Matthiesen,J., Hendrickson,R.C., Gleeson,F., Pawson,T., Moran,M.F., Durocher,D., Mann,M., Hogue,C.W., Figeys,D., and Tyers,M. (2002). Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry. Nature 415, 180-183. Holmes,S.G., Rose,A.B., Steuerle,K., Saez,E., Sayegh,S., Lee,Y.M., and Broach,J.R. (1997). Hyperactivation of the silencing proteins, Sir2p and Sir3p, causes chromosome loss. Genetics 145, 605-614. Hoppe,G.J., Tanny,J.C., Rudner,A.D., Gerber,S.A., Danaie,S., Gygi,S.P., and Moazed,D. (2002). Steps in assembly of silent chromatin in yeast: Sir3-independent binding of a Sir2/Sir4 complex to silencers and role for Sir2-dependent deacetylation. Mol. Cell. Biol. 22, 4167-4180. Hsu,C.L., Chen,Y.S., Tsai,S.Y., Tu,P.J., Wang,M.J., and Lin,J.J. (2004). Interaction of Saccharomyces Cdc13p with Pol1p, Imp4p, Sir4p and Zds2p is involved in telomere replication, telomere maintenance and cell growth control. Nucleic Acids Res. 32, 511-521. Huang,J. and Moazed,D. (2003). Association of the RENT complex with nontranscribed and coding regions of rDNA and a regional requirement for the replication fork block protein Fob1 in rDNA silencing. Genes Dev. 17, 2162-2176. Hughes,T.R., Weilbaecher,R.G., Walterscheid,M., and Lundblad,V. (2000). Identification of the single-strand telomeric DNA binding domain of the Saccharomyces cerevisiae Cdc13 protein. Pro. Natl. Acad. Sci. USA 97, 6457-6462. Hurt,E., Luo,M.J., Rother,S., Reed,R., and Strasser,K. (2004). Cotranscriptional recruitment of the serine-arginine-rich (SR)-like proteins Gbp2 and Hrb1 to nascent mRNA via the TREX complex. Proc. Natl. Acad. Sci. U. S. A 101, 1858-1862. Ishikawa,F., Matunis,M.J., Dreyfuss,G., and Cech,T.R. (1993). Nuclear proteins that bind the pre-mRNA 3' splice site sequence r(UUAG/G) and the human telomeric DNA sequence d(TTAGGG)n. Mol. Cell. Biol. 13, 4301-4310. Joeng,K.S., Song,E.J., Lee,K.J., and Lee,J. (2004). Long lifespan in worms with long telomeric DNA. Nat. Genet. 36, 607-611. Johnson,E.S. and Gupta,A.A. (2001). An E3-like factor that promotes SUMO conjugation to the yeast septins. Cell 106, 735-744. Kessler,M.M., Henry,M.F., Shen,E., Zhao,J., Gross,S., Silver,P.A., and Moore,C.L. (1997). Hrp1, a sequence-specific RNA-binding protein that shuttles between the nucleus and the cytoplasm, is required for mRNA 3'-end formation in yeast. Genes Dev. 11, 2545-2556. Ko,T.P., Lin,J.J., Hu,C.Y., Hsu,Y.H., Wang,A.H., and Liaw,S.H. (2003). Crystal structure of yeast cytosine deaminase. Insights into enzyme mechanism and evolution. J. Biol. Chem. 278, 19111-19117. Konkel,L.M.C., Enomoto,S., Chamberlain,E.M., and McCune-Zierath,P. (1995). A class of single-stranded telomeric DNA-binding proteins required for Rap1p localization in yeast nuclei. Pro. Natl. Acad. Sci. USA 92, 5558-5562. LaBranche,H., Dupuis,S., Ben-David,Y., Bani,M.-R., Wellinger,R.J., and Chabot,B. (1998). Telomere elongation by hnRNP A1 and a derivative that interacts with telomeric repeats and telomerase. Nat. Genet. 19, 199-202. Lahue,E., Heckathorn,J., Meyer,Z., Smith,J., and Wolfe,C. (2005). The Saccharomyces cerevisiae Sub2 protein suppresses heterochromatic silencing at telomeres and subtelomeric genes. Yeast 22, 537-551. Larrivee,M. and Wellinger,R.J. (2006). Telomerase- and capping-independent yeast survivors with alternate telomere states. Nat. Cell Biol. 8, 741-747. Lee,S.E., Moore,J.K., Holmes,A., Umezu,K., Kolodner,R.D., and Haber,J.E. (1998). Saccharomyces Ku70, Mre11/Rad50, and RPA proteins regulate adaptation to G2/M arrest after DNA damage. Cell 94, 399-409. Lew,J.E., Enomoto,S., and Berman,J. (1998). Telomere length regulation and telomeric chromatin require the nonsense-mediated mRNA decay pathway. Mol. Cell. Biol. 18, 6121-6130. Lin,C.Y., Chang,H.H., Wu,K.J., Tseng,S.F., Lin,C.C., Lin,C.P., and Teng,S.C. (2005). Extrachromosomal telomeric circles contribute to Rad52-, Rad50-, and polymerase delta-mediated telomere-telomere recombination in Saccharomyces cerevisiae. Eukaryot. Cell 4, 327-336. Lin,J.-J. and Zakian,V.A. (1994). Isolation and characterization of two Saccharomyces cerevisiae genes that encode proteins that bind to (TG1-3)n single strand telomeric DNA in vitro. Nucleic Acid Res. 22, 4906-4913. Lin,J.-J. and Zakian,V.A. (1996). The Saccharomyces CDC13 protein is a single-strand TG1-3 telomeric DNA-binding protein in vitro that affects telomere behavior in vivo. Pro. Natl. Acad. Sci. USA 93, 13760-13765. Lin,Y.C., Hsu,C.L., Shih,J.W., and Lin,J.J. (2001). Specific binding of single-stranded telomeric DNA by Cdc13p of Saccharomyces cerevisiae. J. Biol. Chem. 276, 24588-24593. Louis,E.J. (1995). The chromosome ends of Saccharomyces cerevisiae. Yeast 11, 1553-1573. Louis,E.J., Naumova,E.S., Lee,A., Gennadi,N., and Haber,J.E. (1994a). The chromosome end in yeast: its mosaic nature and influence on recombination dynamics. Genetics 136, 789-802. Louis,E.J., Naumova,E.S., Lee,A., Naumov,G., and Haber,J.E. (1994b). The subtelomeric Y' repeat family in Saccharomyces cerevisiae: an experimental system for repeated sequence evolution. Genetics 136, 789-802. Lundblad,V. and Blackburn,E.H. (1993). An alternative pathway for yeast telomere maintenance rescues est1- senescence. Cell 73, 347-360. Marshall,M., Mahoney,D., Rose,A., Hicks,J.B., and Broach,J.R. (1987). Functional domains of SIR4, a gene required for position effect regulation in Saccharomyces cerevisiae. Mol. Cell Biol. 7, 4441-4452. Moazed,D. (2001). Common themes in mechanisms of gene silencing. Mol. Cell 8, 489-498. Nugent,C.I., Hughes,T.R., Lue,N.F., and Lundblad,V. (1996). Cdc13p: A single-strand telomeric DNA-binding protein with a dual role in yeast telomere maintenance. Science 274, 249-252. Palladino,F., Laroche,T., Gilson,E., Axelrod,A., Pillus,L., and Gasser,S.M. (1993). SIR3 and SIR4 proteins are required for the positioning and integrity of yeast telomere. Cell 75, 543-555. Pang,T.-L., Wang,C.-Y., Hsu,C.-L., Chen,M.-Y., and Lin,J.-J. (2003). Exposure of single-stranded telomeric DNA causes G2/M cell cycle arrest in Saccharomyces cerevisiae. The Journal of Biological Chemistry 278, 9318-9321. Paulovich,A.G., Margulies,R.U., Garvik,B.K., and Hartwell,L. (1997). RAD9, RAD17, and RAD24 are required for S phase regulation in Saccharomyces response to DNA damage. Genetics 145, 45-62. Petracek,M.E., Konkel,L.M., Kable,M.L., and Berman,J. (1994). A Chlamydomonas protein that binds single-stranded G-strand telomere DNA. EMBO J. 13, 3648-3658. Petreaca,R.C., Chiu,H.C., Eckelhoefer,H.A., Chuang,C., Xu,L., and Nugent,C.I. (2006). Chromosome end protection plasticity revealed by Stn1p and Ten1p bypass of Cdc13p. Nat. Cell Biol. 8, 748-755. Renauld,H., Aparicio,O.M., Zierath,P.D., Billington,B.L., Chhablani,S.K., and Gottschling,D.E. (1993). Silent domains are assembled continuously from the telomere and are defined by promoter distance and strength, and SIR3 dosage. Genes Dev. 7, 1133-1145. Rondon,A.G., Jimeno,S., Garcia-Rubio,M., and Aguilera,A. (2003). Molecular evidence that the eukaryotic THO/TREX complex is required for efficient transcription elongation. J. Biol. Chem. 278, 39037-39043. Roy,N. and Runge,K.W. (2000). Two paralogs involved in transcriptional silencing that antagonistically control yeast life span. Current Biology 10, 111-114. Rusche,L.N., Kirchmaier,A.L., and Rine,J. (2003). The establishment, inheritance, and function of silenced chromatin in Saccharomyces cerevisiae. Annu. Rev. Biochem. 72, 481-516. Sandell,L.L. and Zakian,V.A. (1993). Loss of a yeast telomere: arrest, recovery, and chromosome loss. Cell 75, 729-739. Schiestl,R.H., Reynolds,P., Prakash,S., and Prakash,L. (1989). Cloning and sequence analysis of the Saccharomyces cerevisiae RAD9 gene and further evidence that its product is required for cell cycle arrest induced by DNA damage. Mol. Cell. Biol. 9, 1882-1896. Schneider,B.L., Seufert,W., Steiner,B., Yang,Q.H., and Futcher,A.B. (1995). Use of polymerase chain reaction epitope tagging for protein tagging in Saccharomyces cerevisiae. Yeast 11, 1265-1274. Senger,B., Simos,G., Bischoff,F.R., Podtelejnikov,A., Mann,M., and Hurt,E. (1998). Mtr10p functions as a nuclear import receptor for the mRNA-binding protein Npl3p. EMBO J. 17, 2196-2207. Shore,D. (1994). RAP1: a protein regulator in yeast. Trends Genet. 10, 408-412. Shore,D. and Nasmyth,K. (1987). Purification and cloning of a DNA binding protein from yeast that binds to both silencer and activator elements. Cell 51, 721-732. Siede,W., Friedberg,A.S., Dianova,I., and Friedberg,E.C. (1994). Characterization of G1 checkpoint control in the yeast Saccharomyces cerevisiae following exposure to DNA-damaging agents. Genetics 138, 271-281. Singer,M.E. and Gottschling,D.E. (1994). TLC1: template RNA component of Saccharomyces cerevisiae telomerase. Science 266, 404-409. Smith,J.R. and Pereira-Smith,O.M. (1996). Replicative senescence: implications for in vivo aging and tumor suppression. Science 273, 63-67. Smith,J.S., Brachmann,C.B., Pillus,L., and Boeke,J.D. (1998). Distribution of a limited Sir2 protein pool regulates the strength of yeast rDNA silencing and is modulated by Sir4p. Genetics 149, 1205-1219. Strahl-Bolsinger,S., Hecht,A., Luo,K., and Grunstein,M. (1997). Sir2 and Sir4 interactions differ in core and extended telomeric heterochromatin in yeast. Genes Dev. 11, 83-93. Straight,A.F., Shou,W., Dowd,G.J., Turck,C.W., Deshaies,R.J., Johnson,A.D., and Moazed,D. (1999). Net1, a Sir2-associated nucleolar protein required for rDNA silencing and nucleolar integrity. Cell 97, 245-256. Strasser,K., Masuda,S., Mason,P., Pfannstiel,J., Oppizzi,M., Rodriguez-Navarro,S., Rondon,A.G., Aguilera,A., Struhl,K., Reed,R., and Hurt,E. (2002). TREX is a conserved complex coupling transcription with messenger RNA export. Nature 417, 304-308. Sussel,L. and Shore,D. (1991). Separation of transcriptional activation and silencing functions of the RAP1-encoded repressor/activator protein 1: isolation of viable mutants affecting both silencing and telomere length. Proc. Natl. Acad. Sci. U. S. A 88, 7749-7753. Teng,S.C. and Zakian,V.A. (1999). Telomere-telomere recombination is an efficient bypass pathway for telomere maintenance in Saccharomyces cerevisiae. Mol. Cell. Biol. 19, 8083-8093. Wang,M.-J., Lin,Y.-C., Pang,T.-L., Lee,J.-M., Chou,C.-C., and Lin,J.-J. (2000). Telomere-binding and Stn1p-interacting activities are required for the essential function of Saccahromyces cerevisiae Cdc13p. Nucleic Acid Res. 28, 4733-4741. Weiler,K.S. and Wakimoto,B.T. (1995). Heterochromatin and gene expression in Drosophila. Annu. Rev. Genet. 29, 577-605. Weinert,T.A. and Hartwell,L. (1990). Characterization of RAD9 of Saccharomyces cerevisiae and evidence that its function acts posttranscriptionally in cell cycle arrest after DNA damage. Mol. Cell. Biol. 10, 6554-6564. Weinert,T.A. and Hartwell,L. (1993). Cell cycle arrest of cdc mutants and specificity of the RAD9 checkpoint. Genetics 134, 63-80. Weinert,T.A. and Hartwell,L.H. (1988). The RAD9 gene controls the cell cycle response to DNA damage in Saccharomyces cerevisiae. Science 241, 317-322. Wellinger,R.J., Wolf,A.J., and Zakian,V.A. (1993). Saccharomyces telomeres acquires single-stranded TG1-3 tails late in S phase. Cell 72, 51-60. Will,C.L. and Luhrmann,R. (2001). Spliceosomal UsnRNP biogenesis, structure and function. Curr. Opin. Cell Biol. 13, 290-301. Windgassen,M. and Krebber,H. (2003). Identification of Gbp2 as a novel poly(A)+ RNA-binding protein involved in the cytoplasmic delivery of messenger RNAs in yeast. EMBO Rep. 4, 278-283. Windgassen,M., Sturm,D., Cajigas,I.J., Gonzalez,C.I., Seedorf,M., Bastians,H., and Krebber,H. (2004). Yeast shuttling SR proteins Npl3p, Gbp2p, and Hrb1p are part of the translating mRNPs, and Npl3p can function as a translational repressor. Mol. Cell. Biol. 24, 10479-10491. Wright,J.H., Gottschling,D.E., and Zakian,V.A. (1992). Saccarchromyces telomeres assume a non-nucleosomal chromatin structure. Genes Dev. 6, 197-210. Zakian,V.A. (1995). Telomeres: beginning to understand the end. Science 270, 1601-1607. Zubko,M.K. and Lydall,D. (2006). Linear chromosome maintenance in the absence of essential telomere-capping proteins. Nat. Cell Biol. 8, 734-740.
|