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Volumn 114, Issue , 2017, Pages 28-38

Quantitative telomeric chromatin isolation protocol for human cells

Author keywords

Affinity purification; Chromatin; Mass spectrometry; SILAC; Telomeres

Indexed keywords

AMINO ACID; CROSS LINKING REAGENT;

EID: 84981743109     PISSN: 10462023     EISSN: 10959130     Source Type: Journal    
DOI: 10.1016/j.ymeth.2016.08.003     Document Type: Article
Times cited : (7)

References (56)
  • 1
    • 71149093724 scopus 로고    scopus 로고
    • How telomeres solve the end-protection problem
    • [1] de Lange, T., How telomeres solve the end-protection problem. Science 326:5955 (2009), 948–952.
    • (2009) Science , vol.326 , Issue.5955 , pp. 948-952
    • de Lange, T.1
  • 2
    • 0035844082 scopus 로고    scopus 로고
    • Pot1, the putative telomere end-binding protein in fission yeast and humans
    • [2] Baumann, P., Cech, T., Pot1, the putative telomere end-binding protein in fission yeast and humans. Science 292 (2001), 1171–1175.
    • (2001) Science , vol.292 , pp. 1171-1175
    • Baumann, P.1    Cech, T.2
  • 3
    • 84860456242 scopus 로고    scopus 로고
    • Removal of shelterin reveals the telomere end-protection problem
    • [3] Sfeir, A., de Lange, T., Removal of shelterin reveals the telomere end-protection problem. Science 336:6081 (2012), 593–597.
    • (2012) Science , vol.336 , Issue.6081 , pp. 593-597
    • Sfeir, A.1    de Lange, T.2
  • 5
    • 33645747064 scopus 로고    scopus 로고
    • Semi-conservative DNA replication through telomeres requires Taz1
    • [5] Miller, K.M., Rog, O., Cooper, J.P., Semi-conservative DNA replication through telomeres requires Taz1. Nature 440:7085 (2006), 824–828.
    • (2006) Nature , vol.440 , Issue.7085 , pp. 824-828
    • Miller, K.M.1    Rog, O.2    Cooper, J.P.3
  • 7
    • 84864607108 scopus 로고    scopus 로고
    • TPP1 OB-Fold domain controls telomere maintenance by recruiting telomerase to chromosome ends
    • [7] Zhong, F.L., Batista, L.F., Freund, A., Pech, M.F., Venteicher, A.S., Artandi, S.E., TPP1 OB-Fold domain controls telomere maintenance by recruiting telomerase to chromosome ends. Cell 150:3 (2012), 481–494.
    • (2012) Cell , vol.150 , Issue.3 , pp. 481-494
    • Zhong, F.L.1    Batista, L.F.2    Freund, A.3    Pech, M.F.4    Venteicher, A.S.5    Artandi, S.E.6
  • 8
    • 84870980867 scopus 로고    scopus 로고
    • The TEL patch of telomere protein TPP1 mediates telomerase recruitment and processivity
    • [8] Nandakumar, J., Bell, C.F., Weidenfeld, I., Zaug, A.J., Leinwand, L.A., Cech, T.R., The TEL patch of telomere protein TPP1 mediates telomerase recruitment and processivity. Nature 492:7428 (2012), 285–289.
    • (2012) Nature , vol.492 , Issue.7428 , pp. 285-289
    • Nandakumar, J.1    Bell, C.F.2    Weidenfeld, I.3    Zaug, A.J.4    Leinwand, L.A.5    Cech, T.R.6
  • 9
    • 84906886498 scopus 로고    scopus 로고
    • Genetic and molecular identification of three human TPP1 functions in telomerase action: recruitment, activation, and homeostasis set point regulation
    • [9] Sexton, A.N., Regalado, S.G., Lai, C.S., Cost, G.J., O'Neil, C.M., Urnov, F.D., Gregory, P.D., Jaenisch, R., Collins, K., Hockemeyer, D., Genetic and molecular identification of three human TPP1 functions in telomerase action: recruitment, activation, and homeostasis set point regulation. Genes Dev. 28:17 (2014), 1885–1899.
    • (2014) Genes Dev. , vol.28 , Issue.17 , pp. 1885-1899
    • Sexton, A.N.1    Regalado, S.G.2    Lai, C.S.3    Cost, G.J.4    O'Neil, C.M.5    Urnov, F.D.6    Gregory, P.D.7    Jaenisch, R.8    Collins, K.9    Hockemeyer, D.10
  • 11
    • 40749085700 scopus 로고    scopus 로고
    • TINF2, a component of the shelterin telomere protection complex, is mutated in dyskeratosis congenita
    • [11] Savage, S.A., Giri, N., Baerlocher, G.M., Orr, N., Lansdorp, P.M., Alter, B.P., TINF2, a component of the shelterin telomere protection complex, is mutated in dyskeratosis congenita. Am. J. Hum. Genet. 82:2 (2008), 501–509.
    • (2008) Am. J. Hum. Genet. , vol.82 , Issue.2 , pp. 501-509
    • Savage, S.A.1    Giri, N.2    Baerlocher, G.M.3    Orr, N.4    Lansdorp, P.M.5    Alter, B.P.6
  • 12
    • 55749094159 scopus 로고    scopus 로고
    • TINF2 mutations result in very short telomeres: analysis of a large cohort of patients with dyskeratosis congenita and related bone marrow failure syndromes
    • [12] Walne, A.J., Vulliamy, T., Beswick, R., Kirwan, M., Dokal, I., TINF2 mutations result in very short telomeres: analysis of a large cohort of patients with dyskeratosis congenita and related bone marrow failure syndromes. Blood 112:9 (2008), 3594–3600.
    • (2008) Blood , vol.112 , Issue.9 , pp. 3594-3600
    • Walne, A.J.1    Vulliamy, T.2    Beswick, R.3    Kirwan, M.4    Dokal, I.5
  • 17
    • 70350031814 scopus 로고    scopus 로고
    • RPA-like mammalian Ctc1-Stn1-Ten1 complex binds to single-stranded DNA and protects telomeres independently of the Pot1 pathway
    • [17] Miyake, Y., Nakamura, M., Nabetani, A., Shimamura, S., Tamura, M., Yonehara, S., Saito, M., Ishikawa, F., RPA-like mammalian Ctc1-Stn1-Ten1 complex binds to single-stranded DNA and protects telomeres independently of the Pot1 pathway. Mol. Cell 36:2 (2009), 193–206.
    • (2009) Mol. Cell , vol.36 , Issue.2 , pp. 193-206
    • Miyake, Y.1    Nakamura, M.2    Nabetani, A.3    Shimamura, S.4    Tamura, M.5    Yonehara, S.6    Saito, M.7    Ishikawa, F.8
  • 19
    • 84863622662 scopus 로고    scopus 로고
    • Telomeric 3’ overhangs derive from resection by Exo1 and Apollo and Fill-In by POT1b-associated CST
    • [19] Wu, P., Takai, H., de Lange, T., Telomeric 3’ overhangs derive from resection by Exo1 and Apollo and Fill-In by POT1b-associated CST. Cell 150:1 (2012), 39–52.
    • (2012) Cell , vol.150 , Issue.1 , pp. 39-52
    • Wu, P.1    Takai, H.2    de Lange, T.3
  • 20
    • 84861198042 scopus 로고    scopus 로고
    • CTC1 deletion results in defective telomere replication, leading to catastrophic telomere loss and stem cell exhaustion
    • [20] Gu, P., Min, J.N., Wang, Y., Huang, C., Peng, T., Chai, W., Chang, S., CTC1 deletion results in defective telomere replication, leading to catastrophic telomere loss and stem cell exhaustion. EMBO J. 31:10 (2012), 2309–2321.
    • (2012) EMBO J. , vol.31 , Issue.10 , pp. 2309-2321
    • Gu, P.1    Min, J.N.2    Wang, Y.3    Huang, C.4    Peng, T.5    Chai, W.6    Chang, S.7
  • 21
    • 84866078802 scopus 로고    scopus 로고
    • Human CST promotes telomere duplex replication and general replication restart after fork stalling
    • [21] Stewart, J.A., Wang, F., Chaiken, M.F., Kasbek, C., Chastain, P.D. 2nd, Wright, W.E., Price, C.M., Human CST promotes telomere duplex replication and general replication restart after fork stalling. EMBO J. 31:17 (2012), 3537–3549.
    • (2012) EMBO J. , vol.31 , Issue.17 , pp. 3537-3549
    • Stewart, J.A.1    Wang, F.2    Chaiken, M.F.3    Kasbek, C.4    Chastain, P.D.5    Wright, W.E.6    Price, C.M.7
  • 22
    • 84865263603 scopus 로고    scopus 로고
    • The human CST complex is a terminator of telomerase activity
    • [22] Chen, L.Y., Redon, S., Lingner, J., The human CST complex is a terminator of telomerase activity. Nature 488:7412 (2012), 540–544.
    • (2012) Nature , vol.488 , Issue.7412 , pp. 540-544
    • Chen, L.Y.1    Redon, S.2    Lingner, J.3
  • 27
    • 37349043972 scopus 로고    scopus 로고
    • Telomeric repeat containing RNA and RNA surveillance factors at mammalian chromosome ends
    • [27] Azzalin, C.M., Reichenbach, P., Khoriauli, L., Giulotto, E., Lingner, J., Telomeric repeat containing RNA and RNA surveillance factors at mammalian chromosome ends. Science 318:5851 (2007), 798–801.
    • (2007) Science , vol.318 , Issue.5851 , pp. 798-801
    • Azzalin, C.M.1    Reichenbach, P.2    Khoriauli, L.3    Giulotto, E.4    Lingner, J.5
  • 28
    • 84918549784 scopus 로고    scopus 로고
    • Telomere functions grounding on TERRA firma
    • [28] Azzalin, C.M., Lingner, J., Telomere functions grounding on TERRA firma. Trends Cell Biol. 25:1 (2015), 29–36.
    • (2015) Trends Cell Biol. , vol.25 , Issue.1 , pp. 29-36
    • Azzalin, C.M.1    Lingner, J.2
  • 29
    • 38849111756 scopus 로고    scopus 로고
    • Developmentally regulated transcription of mammalian telomeres by DNA-dependent RNA polymerase II
    • [29] Schoeftner, S., Blasco, M.A., Developmentally regulated transcription of mammalian telomeres by DNA-dependent RNA polymerase II. Nat. Cell Biol. 10:2 (2008), 228–236.
    • (2008) Nat. Cell Biol. , vol.10 , Issue.2 , pp. 228-236
    • Schoeftner, S.1    Blasco, M.A.2
  • 31
    • 84896730316 scopus 로고    scopus 로고
    • TERRA-reinforced association of LSD1 with MRE11 promotes processing of uncapped telomeres
    • [31] Porro, A., Feuerhahn, S., Lingner, J., TERRA-reinforced association of LSD1 with MRE11 promotes processing of uncapped telomeres. Cell Rep. 6:4 (2014), 765–776.
    • (2014) Cell Rep. , vol.6 , Issue.4 , pp. 765-776
    • Porro, A.1    Feuerhahn, S.2    Lingner, J.3
  • 33
    • 77957243987 scopus 로고    scopus 로고
    • The non-coding RNA TERRA is a natural ligand and direct inhibitor of human telomerase
    • [33] Redon, S., Reichenbach, P., Lingner, J., The non-coding RNA TERRA is a natural ligand and direct inhibitor of human telomerase. Nucleic Acids Res. 38:17 (2010), 5797–5806.
    • (2010) Nucleic Acids Res. , vol.38 , Issue.17 , pp. 5797-5806
    • Redon, S.1    Reichenbach, P.2    Lingner, J.3
  • 34
    • 84864041566 scopus 로고    scopus 로고
    • TERRA promotes telomere shortening through exonuclease 1-mediated resection of chromosome ends
    • [34] Pfeiffer, V., Lingner, J., TERRA promotes telomere shortening through exonuclease 1-mediated resection of chromosome ends. PLoS Genet., 8(6), 2012, e1002747.
    • (2012) PLoS Genet. , vol.8 , Issue.6 , pp. e1002747
    • Pfeiffer, V.1    Lingner, J.2
  • 35
    • 50849099769 scopus 로고    scopus 로고
    • Hypomethylation of subtelomeric regions in ICF syndrome is associated with abnormally short telomeres and enhanced transcription from telomeric regions
    • [35] Yehezkel, S., Segev, Y., Viegas-Pequignot, E., Skorecki, K., Selig, S., Hypomethylation of subtelomeric regions in ICF syndrome is associated with abnormally short telomeres and enhanced transcription from telomeric regions. Hum. Mol. Genet. 17:18 (2008), 2776–2789.
    • (2008) Hum. Mol. Genet. , vol.17 , Issue.18 , pp. 2776-2789
    • Yehezkel, S.1    Segev, Y.2    Viegas-Pequignot, E.3    Skorecki, K.4    Selig, S.5
  • 36
    • 79957556530 scopus 로고    scopus 로고
    • DNA replication through G-quadruplex motifs is promoted by the Saccharomyces cerevisiae Pif1 DNA helicase
    • [36] Paeschke, K., Capra, J.A., Zakian, V.A., DNA replication through G-quadruplex motifs is promoted by the Saccharomyces cerevisiae Pif1 DNA helicase. Cell 145:5 (2011), 678–691.
    • (2011) Cell , vol.145 , Issue.5 , pp. 678-691
    • Paeschke, K.1    Capra, J.A.2    Zakian, V.A.3
  • 37
    • 84860854071 scopus 로고    scopus 로고
    • RTEL1 dismantles T loops and counteracts telomeric G4-DNA to maintain telomere integrity
    • [37] Vannier, J.B., Pavicic-Kaltenbrunner, V., Petalcorin, M.I., Ding, H., Boulton, S.J., RTEL1 dismantles T loops and counteracts telomeric G4-DNA to maintain telomere integrity. Cell 149:4 (2012), 795–806.
    • (2012) Cell , vol.149 , Issue.4 , pp. 795-806
    • Vannier, J.B.1    Pavicic-Kaltenbrunner, V.2    Petalcorin, M.I.3    Ding, H.4    Boulton, S.J.5
  • 38
    • 10344256183 scopus 로고    scopus 로고
    • Defective telomere lagging strand synthesis in cells lacking WRN helicase activity
    • [38] Crabbe, L., Verdun, R.E., Haggblom, C.I., Karlseder, J., Defective telomere lagging strand synthesis in cells lacking WRN helicase activity. Science 306:5703 (2004), 1951–1953.
    • (2004) Science , vol.306 , Issue.5703 , pp. 1951-1953
    • Crabbe, L.1    Verdun, R.E.2    Haggblom, C.I.3    Karlseder, J.4
  • 40
    • 84923938869 scopus 로고    scopus 로고
    • TRF2 recruits RTEL1 to telomeres in S phase to promote t-loop unwinding
    • [40] Sarek, G., Vannier, J.B., Panier, S., Petrini, J.H., Boulton, S.J., TRF2 recruits RTEL1 to telomeres in S phase to promote t-loop unwinding. Mol. Cell 57:4 (2015), 622–635.
    • (2015) Mol. Cell , vol.57 , Issue.4 , pp. 622-635
    • Sarek, G.1    Vannier, J.B.2    Panier, S.3    Petrini, J.H.4    Boulton, S.J.5
  • 42
    • 84889056254 scopus 로고    scopus 로고
    • A quantitative telomeric chromatin isolation protocol identifies different telomeric states
    • [42] Grolimund, L., Aeby, E., Hamelin, R., Armand, F., Chiappe, D., Moniatte, M., Lingner, J., A quantitative telomeric chromatin isolation protocol identifies different telomeric states. Nat. Commun., 4, 2013, 2848.
    • (2013) Nat. Commun. , vol.4 , pp. 2848
    • Grolimund, L.1    Aeby, E.2    Hamelin, R.3    Armand, F.4    Chiappe, D.5    Moniatte, M.6    Lingner, J.7
  • 43
    • 84887053583 scopus 로고    scopus 로고
    • The THO complex component Thp2 counteracts telomeric R-loops and telomere shortening
    • [43] Pfeiffer, V., Crittin, J., Grolimund, L., Lingner, J., The THO complex component Thp2 counteracts telomeric R-loops and telomere shortening. EMBO J. 32:21 (2013), 2861–2871.
    • (2013) EMBO J. , vol.32 , Issue.21 , pp. 2861-2871
    • Pfeiffer, V.1    Crittin, J.2    Grolimund, L.3    Lingner, J.4
  • 45
    • 0035886806 scopus 로고    scopus 로고
    • Regulation of human telomerase activity: repression by normal chromosome 3 abolishes nuclear telomerase reverse transcriptase transcripts but does not affect c-Myc activity
    • [45] Ducrest, A.L., Amacker, M., Mathieu, Y.D., Cuthbert, A.P., Trott, D.A., Newbold, R.F., Nabholz, M., Lingner, J., Regulation of human telomerase activity: repression by normal chromosome 3 abolishes nuclear telomerase reverse transcriptase transcripts but does not affect c-Myc activity. Cancer Res. 61:20 (2001), 7594–7602.
    • (2001) Cancer Res. , vol.61 , Issue.20 , pp. 7594-7602
    • Ducrest, A.L.1    Amacker, M.2    Mathieu, Y.D.3    Cuthbert, A.P.4    Trott, D.A.5    Newbold, R.F.6    Nabholz, M.7    Lingner, J.8
  • 46
    • 32544443342 scopus 로고    scopus 로고
    • Telomere length homeostasis requires that telomerase levels are limiting
    • [46] Cristofari, G., Lingner, J., Telomere length homeostasis requires that telomerase levels are limiting. EMBO J. 25:3 (2006), 565–574.
    • (2006) EMBO J. , vol.25 , Issue.3 , pp. 565-574
    • Cristofari, G.1    Lingner, J.2
  • 47
    • 0036583926 scopus 로고    scopus 로고
    • Stable isotope labeling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics
    • [47] Ong, S.E., Blagoev, B., Kratchmarova, I., Kristensen, D.B., Steen, H., Pandey, A., Mann, M., Stable isotope labeling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics. Mol. Cell Proteomics 1:5 (2002), 376–386.
    • (2002) Mol. Cell Proteomics , vol.1 , Issue.5 , pp. 376-386
    • Ong, S.E.1    Blagoev, B.2    Kratchmarova, I.3    Kristensen, D.B.4    Steen, H.5    Pandey, A.6    Mann, M.7
  • 48
    • 52649167339 scopus 로고    scopus 로고
    • Prevention of amino acid conversion in SILAC experiments with embryonic stem cells
    • [48] Bendall, S.C., Hughes, C., Stewart, M.H., Doble, B., Bhatia, M., Lajoie, G.A., Prevention of amino acid conversion in SILAC experiments with embryonic stem cells. Mol. Cell. Proteomics 7:9 (2008), 1587–1597.
    • (2008) Mol. Cell. Proteomics , vol.7 , Issue.9 , pp. 1587-1597
    • Bendall, S.C.1    Hughes, C.2    Stewart, M.H.3    Doble, B.4    Bhatia, M.5    Lajoie, G.A.6
  • 49
    • 57449099865 scopus 로고    scopus 로고
    • MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification
    • [49] Cox, J., Mann, M., MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification. Nat. Biotechnol. 26:12 (2008), 1367–1372.
    • (2008) Nat. Biotechnol. , vol.26 , Issue.12 , pp. 1367-1372
    • Cox, J.1    Mann, M.2
  • 50
    • 79953701087 scopus 로고    scopus 로고
    • Andromeda: a peptide search engine integrated into the MaxQuant environment
    • [50] Cox, J., Neuhauser, N., Michalski, A., Scheltema, R.A., Olsen, J.V., Mann, M., Andromeda: a peptide search engine integrated into the MaxQuant environment. J. Proteome Res. 10:4 (2011), 1794–1805.
    • (2011) J. Proteome Res. , vol.10 , Issue.4 , pp. 1794-1805
    • Cox, J.1    Neuhauser, N.2    Michalski, A.3    Scheltema, R.A.4    Olsen, J.V.5    Mann, M.6
  • 52
    • 0033982936 scopus 로고    scopus 로고
    • KEGG: kyoto encyclopedia of genes and genomes
    • [52] Kanehisa, M., Goto, S., KEGG: kyoto encyclopedia of genes and genomes. Nucleic Acids Res. 28:1 (2000), 27–30.
    • (2000) Nucleic Acids Res. , vol.28 , Issue.1 , pp. 27-30
    • Kanehisa, M.1    Goto, S.2
  • 53
    • 20944444686 scopus 로고    scopus 로고
    • Increased quantitative proteome coverage with (13)C/(12)C-based, acid-cleavable isotope-coded affinity tag reagent and modified data acquisition scheme
    • [53] Yi, E.C., Li, X.J., Cooke, K., Lee, H., Raught, B., Page, A., Aneliunas, V., Hieter, P., Goodlett, D.R., Aebersold, R., Increased quantitative proteome coverage with (13)C/(12)C-based, acid-cleavable isotope-coded affinity tag reagent and modified data acquisition scheme. Proteomics 5:2 (2005), 380–387.
    • (2005) Proteomics , vol.5 , Issue.2 , pp. 380-387
    • Yi, E.C.1    Li, X.J.2    Cooke, K.3    Lee, H.4    Raught, B.5    Page, A.6    Aneliunas, V.7    Hieter, P.8    Goodlett, D.R.9    Aebersold, R.10
  • 54
    • 34047198759 scopus 로고    scopus 로고
    • In vivo dual cross-linking for identification of indirect DNA-associated proteins by chromatin immunoprecipitation
    • 696, 698
    • [54] Zeng, P.Y., Vakoc, C.R., Chen, Z.C., Blobel, G.A., Berger, S.L., In vivo dual cross-linking for identification of indirect DNA-associated proteins by chromatin immunoprecipitation. BioTechniques, 41(6), 2006, 694 696, 698.
    • (2006) BioTechniques , vol.41 , Issue.6 , pp. 694
    • Zeng, P.Y.1    Vakoc, C.R.2    Chen, Z.C.3    Blobel, G.A.4    Berger, S.L.5
  • 55
    • 0041668053 scopus 로고    scopus 로고
    • In vivo protein-protein and protein-DNA crosslinking for genomewide binding microarray
    • [55] Kurdistani, S.K., Grunstein, M., In vivo protein-protein and protein-DNA crosslinking for genomewide binding microarray. Methods 31:1 (2003), 90–95.
    • (2003) Methods , vol.31 , Issue.1 , pp. 90-95
    • Kurdistani, S.K.1    Grunstein, M.2
  • 56
    • 58149085861 scopus 로고    scopus 로고
    • Purification of proteins associated with specific genomic Loci
    • [56] Dejardin, J., Kingston, R.E., Purification of proteins associated with specific genomic Loci. Cell 136:1 (2009), 175–186.
    • (2009) Cell , vol.136 , Issue.1 , pp. 175-186
    • Dejardin, J.1    Kingston, R.E.2


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