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Volumn 4, Issue 11, 2008, Pages

Silent but not static: Accelerated base-pair substitution in silenced chromatin of budding yeasts

Author keywords

[No Author keywords available]

Indexed keywords

DNA; NUCLEOTIDE; FUNGAL DNA; FUNGAL PROTEIN; SPACER DNA;

EID: 57149102482     PISSN: 15537390     EISSN: 15537404     Source Type: Journal    
DOI: 10.1371/journal.pgen.1000247     Document Type: Article
Times cited : (32)

References (43)
  • 1
    • 57149086347 scopus 로고    scopus 로고
    • Nosek J, Tomaska L, eds , Austin, TX: Landes Bioscience
    • Nosek J, Tomaska L, eds (2008) Origin and evolution of telomeres. Austin, TX: Landes Bioscience.
    • (2008) Origin and evolution of telomeres
  • 2
    • 0038349948 scopus 로고    scopus 로고
    • Sequencing and comparison of yeast species to identify genes and regulatory elements
    • Kellis M, Patterson N, Endrizzi M, Birren B, Lander ES (2003) Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423: 241-254.
    • (2003) Nature , vol.423 , pp. 241-254
    • Kellis, M.1    Patterson, N.2    Endrizzi, M.3    Birren, B.4    Lander, E.S.5
  • 3
    • 0029417194 scopus 로고
    • The chromosome ends of Saccharomyces cerevisiae
    • Louis EJ (1995) The chromosome ends of Saccharomyces cerevisiae. Yeast 11: 1553-1573.
    • (1995) Yeast , vol.11 , pp. 1553-1573
    • Louis, E.J.1
  • 4
    • 24344442909 scopus 로고    scopus 로고
    • Human subtelomeres are hot spots of interchromosomal recombination and segmental duplication
    • Linardopoulou EV, Williams EM, Fan Y, Friedman C, Young JM, et al. (2005) Human subtelomeres are hot spots of interchromosomal recombination and segmental duplication. Nature 437: 94-100.
    • (2005) Nature , vol.437 , pp. 94-100
    • Linardopoulou, E.V.1    Williams, E.M.2    Fan, Y.3    Friedman, C.4    Young, J.M.5
  • 5
    • 9244235053 scopus 로고    scopus 로고
    • The dynamic nature and evolutionary history of subtelomeric and pericentromeric regions
    • Mewborn SK, Lese Martin C, Ledbetter DH (2005) The dynamic nature and evolutionary history of subtelomeric and pericentromeric regions. Cytogenet Genome Res 108: 22-25.
    • (2005) Cytogenet Genome Res , vol.108 , pp. 22-25
    • Mewborn, S.K.1    Lese Martin, C.2    Ledbetter, D.H.3
  • 6
    • 33845755946 scopus 로고    scopus 로고
    • Heterochromatin revisited
    • Grewal SI, Jia S (2007) Heterochromatin revisited. Nat Rev Genet 8: 35-46.
    • (2007) Nat Rev Genet , vol.8 , pp. 35-46
    • Grewal, S.I.1    Jia, S.2
  • 7
    • 0037636027 scopus 로고    scopus 로고
    • The establishment, inheritance, and function of silenced chromatin in Saccharomyces cerevisiae
    • Rusche LN, Kirchmaier AL, Rine J (2003) The establishment, inheritance, and function of silenced chromatin in Saccharomyces cerevisiae. Annu Rev Biochem 72: 481-516.
    • (2003) Annu Rev Biochem , vol.72 , pp. 481-516
    • Rusche, L.N.1    Kirchmaier, A.L.2    Rine, J.3
  • 8
    • 0034934774 scopus 로고    scopus 로고
    • Promoter-specific binding of Rap1 revealed by genome-wide maps of protein-DNA association
    • Lieb JD, Liu X, Botstein D, Brown PO (2001) Promoter-specific binding of Rap1 revealed by genome-wide maps of protein-DNA association. Nat Genet 28: 327-334.
    • (2001) Nat Genet , vol.28 , pp. 327-334
    • Lieb, J.D.1    Liu, X.2    Botstein, D.3    Brown, P.O.4
  • 9
    • 0037148368 scopus 로고    scopus 로고
    • Transcriptional silencing at Saccharomyces telomeres: Implications for other organisms
    • Tham WH, Zakian VA (2002) Transcriptional silencing at Saccharomyces telomeres: implications for other organisms. Oncogene 21: 512-521.
    • (2002) Oncogene , vol.21 , pp. 512-521
    • Tham, W.H.1    Zakian, V.A.2
  • 10
    • 0025201982 scopus 로고
    • Position effect at S. cerevisiae telomeres: Reversible repression of Pol II transcription
    • Gottschling DE, Aparicio OM, Billington BL, Zakian VA (1990) Position effect at S. cerevisiae telomeres: reversible repression of Pol II transcription. Cell 63: 751-762.
    • (1990) Cell , vol.63 , pp. 751-762
    • Gottschling, D.E.1    Aparicio, O.M.2    Billington, B.L.3    Zakian, V.A.4
  • 12
    • 33745400096 scopus 로고    scopus 로고
    • Telomeric silencing of an open reading frame in Saccharomyces cerevisiae
    • Barton AB, Kaback DB (2006) Telomeric silencing of an open reading frame in Saccharomyces cerevisiae. Genetics 173: 1169-1173.
    • (2006) Genetics , vol.173 , pp. 1169-1173
    • Barton, A.B.1    Kaback, D.B.2
  • 13
    • 0033604609 scopus 로고    scopus 로고
    • Chromosomal landscape of nucleosome-dependent gene expression and silencing in yeast
    • Wyrick JJ, Holstege FC, Jennings EG, Causton HC, Shore D, et al. (1999) Chromosomal landscape of nucleosome-dependent gene expression and silencing in yeast. Nature 402: 418-421.
    • (1999) Nature , vol.402 , pp. 418-421
    • Wyrick, J.J.1    Holstege, F.C.2    Jennings, E.G.3    Causton, H.C.4    Shore, D.5
  • 14
    • 0034919548 scopus 로고    scopus 로고
    • Surveying Saccharomyces genomes to identify functional elements by comparative DNA sequence analysis
    • Cliften PF, Hillier LW, Fulton L, Graves T, Miner T, et al. (2001) Surveying Saccharomyces genomes to identify functional elements by comparative DNA sequence analysis. Genome Res 11: 1175-1186.
    • (2001) Genome Res , vol.11 , pp. 1175-1186
    • Cliften, P.F.1    Hillier, L.W.2    Fulton, L.3    Graves, T.4    Miner, T.5
  • 15
    • 0038724989 scopus 로고    scopus 로고
    • Finding functional features in Saccharomyces genomes by phylogenetic footprinting
    • Cliften P, Sudarsanam P, Desikan A, Fulton L, Fulton B, et al. (2003) Finding functional features in Saccharomyces genomes by phylogenetic footprinting. Science 301: 71-76.
    • (2003) Science , vol.301 , pp. 71-76
    • Cliften, P.1    Sudarsanam, P.2    Desikan, A.3    Fulton, L.4    Fulton, B.5
  • 16
    • 0031832807 scopus 로고    scopus 로고
    • Transposable elements and genome organization: A comprehensive survey of retrotransposons revealed by the complete Saccharomyces cerevisiae genome sequence
    • Kim JM, Vanguri S, Boeke JD, Gabriel A, Voytas DF (1998) Transposable elements and genome organization: a comprehensive survey of retrotransposons revealed by the complete Saccharomyces cerevisiae genome sequence. Genome Res 8: 464-478.
    • (1998) Genome Res , vol.8 , pp. 464-478
    • Kim, J.M.1    Vanguri, S.2    Boeke, J.D.3    Gabriel, A.4    Voytas, D.F.5
  • 17
    • 33846957102 scopus 로고    scopus 로고
    • High intrachromosomal similarity of retrotransposon long terminal repeats: Evidence for homogenization by gene conversion on plant sex chromosomes?
    • Kejnovsky E, Hobza R, Kubat Z, Widmer A, Marais GA, et al. (2007) High intrachromosomal similarity of retrotransposon long terminal repeats: evidence for homogenization by gene conversion on plant sex chromosomes? Gene 390: 92-97.
    • (2007) Gene , vol.390 , pp. 92-97
    • Kejnovsky, E.1    Hobza, R.2    Kubat, Z.3    Widmer, A.4    Marais, G.A.5
  • 18
    • 31144439046 scopus 로고    scopus 로고
    • Human endogenous retroviral elements as indicators of ectopic recombination events in the primate genome
    • Hughes JF, Coffin JM (2005) Human endogenous retroviral elements as indicators of ectopic recombination events in the primate genome. Genetics 171: 1183-1194.
    • (2005) Genetics , vol.171 , pp. 1183-1194
    • Hughes, J.F.1    Coffin, J.M.2
  • 19
    • 61349172570 scopus 로고    scopus 로고
    • Population genomics of domestic and wild yeasts. Nature Precedings; hdl:10101/npre
    • Carter D, Liti G, Moses A, Parts L, James S, et al. (2008) Population genomics of domestic and wild yeasts. Nature Precedings; hdl:10101/npre.2008. 1988.1.
    • (2008) , vol.1988 , pp. 1
    • Carter, D.1    Liti, G.2    Moses, A.3    Parts, L.4    James, S.5
  • 20
    • 0036363646 scopus 로고    scopus 로고
    • Mechanisms of transcription-coupled DNA repair
    • Svejstrup JQ (2002) Mechanisms of transcription-coupled DNA repair. Nat Rev Mol Cell Biol 3: 21-29.
    • (2002) Nat Rev Mol Cell Biol , vol.3 , pp. 21-29
    • Svejstrup, J.Q.1
  • 21
    • 45549088326 scopus 로고    scopus 로고
    • The transcriptional landscape of the yeast genome defined by RNA sequencing
    • Nagalakshmi U, Wang Z, Waern K, Shou C, Raha D, et al. (2008) The transcriptional landscape of the yeast genome defined by RNA sequencing. Science 320: 1344-1349.
    • (2008) Science , vol.320 , pp. 1344-1349
    • Nagalakshmi, U.1    Wang, Z.2    Waern, K.3    Shou, C.4    Raha, D.5
  • 22
    • 0024409266 scopus 로고
    • Differential repair of UV damage in Saccharomyces cerevisiae
    • Terleth C, van Sluis CA, van de Putte P (1989) Differential repair of UV damage in Saccharomyces cerevisiae. Nucleic Acids Res 17: 4433-4439.
    • (1989) Nucleic Acids Res , vol.17 , pp. 4433-4439
    • Terleth, C.1    van Sluis, C.A.2    van de Putte, P.3
  • 23
    • 0141509951 scopus 로고    scopus 로고
    • Repair of UV lesions in silenced chromatin provides in vivo evidence for a compact chromatin structure
    • Livingstone-Zatchej M, Marcionelli R, Moller K, de Pril R, Thoma F (2003) Repair of UV lesions in silenced chromatin provides in vivo evidence for a compact chromatin structure. J Biol Chem 278: 37471-37479.
    • (2003) J Biol Chem , vol.278 , pp. 37471-37479
    • Livingstone-Zatchej, M.1    Marcionelli, R.2    Moller, K.3    de Pril, R.4    Thoma, F.5
  • 24
    • 4644312235 scopus 로고    scopus 로고
    • The role of RNA interference in heterochromatic silencing
    • Lippman Z, Martienssen R (2004) The role of RNA interference in heterochromatic silencing. Nature 431: 364-370.
    • (2004) Nature , vol.431 , pp. 364-370
    • Lippman, Z.1    Martienssen, R.2
  • 25
    • 0042528729 scopus 로고    scopus 로고
    • Heterochromatin and epigenetic control of gene expression
    • Grewal SI, Moazed D (2003) Heterochromatin and epigenetic control of gene expression. Science 301: 798-802.
    • (2003) Science , vol.301 , pp. 798-802
    • Grewal, S.I.1    Moazed, D.2
  • 26
    • 0038612981 scopus 로고    scopus 로고
    • Controlling integration specificity of a yeast retrotransposon
    • Zhu Y, Dai J, Fuerst PG, Voytas DF (2003) Controlling integration specificity of a yeast retrotransposon. Proc Natl Acad Sci U S A 100: 5891-5895.
    • (2003) Proc Natl Acad Sci U S A , vol.100 , pp. 5891-5895
    • Zhu, Y.1    Dai, J.2    Fuerst, P.G.3    Voytas, D.F.4
  • 27
    • 0033985560 scopus 로고    scopus 로고
    • Heterochromatin function in complex genomes
    • Henikoff S (2000) Heterochromatin function in complex genomes. Biochim Biophys Acta 1470: 1-8.
    • (2000) Biochim Biophys Acta , vol.1470 , pp. 1-8
    • Henikoff, S.1
  • 28
    • 0031010660 scopus 로고    scopus 로고
    • Clustering of meiotic double-strand breaks on yeast chromosome III
    • Baudat F, Nicolas A (1997) Clustering of meiotic double-strand breaks on yeast chromosome III. Proc Natl Acad Sci U S A 94: 5213-5218.
    • (1997) Proc Natl Acad Sci U S A , vol.94 , pp. 5213-5218
    • Baudat, F.1    Nicolas, A.2
  • 29
    • 0033653140 scopus 로고    scopus 로고
    • Decreased meiotic reciprocal recombination in subtelomeric regions in Saccharomyces cerevisiae
    • Su Y, Barton AB, Kaback DB (2000) Decreased meiotic reciprocal recombination in subtelomeric regions in Saccharomyces cerevisiae. Chromosoma 109: 467-475.
    • (2000) Chromosoma , vol.109 , pp. 467-475
    • Su, Y.1    Barton, A.B.2    Kaback, D.B.3
  • 30
    • 0242318257 scopus 로고    scopus 로고
    • A function for subtelomeric DNA in Saccharomyces cerevisiae
    • Barton AB, Su Y, Lamb J, Barber D, Kaback DB (2003) A function for subtelomeric DNA in Saccharomyces cerevisiae. Genetics 165: 929-934.
    • (2003) Genetics , vol.165 , pp. 929-934
    • Barton, A.B.1    Su, Y.2    Lamb, J.3    Barber, D.4    Kaback, D.B.5
  • 31
    • 27144526423 scopus 로고    scopus 로고
    • Yeast evolution and comparative genomics
    • Liti G, Louis EJ (2005) Yeast evolution and comparative genomics. Annu Rev Microbiol 59: 135-153.
    • (2005) Annu Rev Microbiol , vol.59 , pp. 135-153
    • Liti, G.1    Louis, E.J.2
  • 33
    • 0037245489 scopus 로고    scopus 로고
    • Why are parasite contingency genes often associated with telomeres?
    • Barry JD, Ginger ML, Burton P, McCulloch R (2003) Why are parasite contingency genes often associated with telomeres? Int J Parasitol 33: 29-45.
    • (2003) Int J Parasitol , vol.33 , pp. 29-45
    • Barry, J.D.1    Ginger, M.L.2    Burton, P.3    McCulloch, R.4
  • 34
    • 35048817481 scopus 로고    scopus 로고
    • Evolution of gene sequence in response to chromosomal location
    • Diaz-Castillo C, Golic KG (2007) Evolution of gene sequence in response to chromosomal location. Genetics 177: 359-374.
    • (2007) Genetics , vol.177 , pp. 359-374
    • Diaz-Castillo, C.1    Golic, K.G.2
  • 35
    • 40849138186 scopus 로고    scopus 로고
    • Molecular population genetics of Drosophila subtelomeric DNA
    • Anderson JA, Song YS, Langley CH (2008) Molecular population genetics of Drosophila subtelomeric DNA. Genetics 178: 477-487.
    • (2008) Genetics , vol.178 , pp. 477-487
    • Anderson, J.A.1    Song, Y.S.2    Langley, C.H.3
  • 36
    • 0032873415 scopus 로고    scopus 로고
    • Three new dominant drug resistance cassettes for gene disruption in Saccharomyces cerevisiae
    • Goldstein AL, McCusker JH (1999) Three new dominant drug resistance cassettes for gene disruption in Saccharomyces cerevisiae. Yeast 15: 1541-1553.
    • (1999) Yeast , vol.15 , pp. 1541-1553
    • Goldstein, A.L.1    McCusker, J.H.2
  • 37
    • 0037088811 scopus 로고    scopus 로고
    • A second set of loxP marker cassettes for Cre-mediated multiple gene knockouts in budding yeast
    • Gueldener U, Heinisch J, Koehler GJ, Voss D, Hegemann JH (2002) A second set of loxP marker cassettes for Cre-mediated multiple gene knockouts in budding yeast. Nucleic Acids Res 30: e23.
    • (2002) Nucleic Acids Res , vol.30
    • Gueldener, U.1    Heinisch, J.2    Koehler, G.J.3    Voss, D.4    Hegemann, J.H.5
  • 39
  • 40
    • 0019887799 scopus 로고
    • Identification of common molecular subsequences
    • Smith TF, Waterman MS (1981) Identification of common molecular subsequences. J Mol Biol 147: 195-197.
    • (1981) J Mol Biol , vol.147 , pp. 195-197
    • Smith, T.F.1    Waterman, M.S.2
  • 41
    • 0034201441 scopus 로고    scopus 로고
    • EMBOSS: The European Molecular Biology Open Software Suite
    • Rice P, Longden I, Bleasby A (2000) EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet 16: 276-277.
    • (2000) Trends Genet , vol.16 , pp. 276-277
    • Rice, P.1    Longden, I.2    Bleasby, A.3
  • 43
    • 28444445926 scopus 로고    scopus 로고
    • R Development Core Team , Vienna, Austria: R Foundation for Statistical Computing
    • R Development Core Team (2005) R: A language and environment for statistical computing. Vienna, Austria: R Foundation for Statistical Computing.
    • (2005) R: A language and environment for statistical computing


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.