Recent Publications

Full list of Publications can be found on the profiles page

Gutierrez JI, Brittingham GP, Karadeniz Y, Tran KD, Dutta A, Holehouse AS, Peterson CL, Holt LJ. SWI/SNF senses carbon starvation with a pH-sensitive low-complexity sequence. Elife. 2022 02 07; 11. PMID: 35129437.

Bryll AR, Peterson CL. Functional interaction between the RNA exosome and the sirtuin deacetylase Hst3 maintains transcriptional homeostasis. Genes Dev. 2022 01 01; 36(1-2):17-22. PMID: 34916303.

Oberbeckmann E, Niebauer V, Watanabe S, Farnung L, Moldt M, Schmid A, Cramer P, Peterson CL, Eustermann S, Hopfner KP, Korber P. Ruler elements in chromatin remodelers set nucleosome array spacing and phasing. Nat Commun. 2021 05 28; 12(1):3232. PMID: 34050140.

Liu WH, Zheng J, Feldman JL, Klein MA, Kuznetsov VI, Peterson CL, Griffin PR, Denu JM. Multivalent interactions drive nucleosome binding and efficient chromatin deacetylation by SIRT6. Nat Commun. 2020 10 16; 11(1):5244. PMID: 33067423.

Topal S, Van C, Xue Y, Carey MF, Peterson CL. INO80C Remodeler Maintains Genomic Stability by Preventing Promiscuous Transcription at Replication Origins. Cell Rep. 2020 09 08; 32(10):108106. PMID: 32905765.

Topal S, Vasseur P, Radman-Livaja M, Peterson CL. Distinct transcriptional roles for Histone H3-K56 acetylation during the cell cycle in Yeast. Nat Commun. 2019 Sep 26; 10(1):4372. PMID: 31558720.

Feldman JL, Peterson CL. Yeast Sirtuin Family Members Maintain Transcription Homeostasis to Ensure Genome Stability. Cell Rep. 2019 Jun 04; 27(10):2978-2989.e5. PMID: 31167142.

Singh RK, Fan J, Gioacchini N, Watanabe S, Bilsel O, Peterson CL. Transient Kinetic Analysis of SWR1C-Catalyzed H2A.Z Deposition Unravels the Impact of Nucleosome Dynamics and the Asymmetry of Histone Exchange. Cell Rep. 2019 Apr 09; 27(2):374-386.e4. PMID: 30970243.

Swygert SG, Senapati S, Bolukbasi MF, Wolfe SA, Lindsay S, Peterson CL. SIR proteins create compact heterochromatin fibers. Proc Natl Acad Sci U S A. 2018 Nov 19. PMID: 30455303.

Gioacchini N, Peterson CL. Chromatin remodeling: a complex affair. EMBO Rep. 2017 10; 18(10):1673-1674. PMID: 28835548.

Xue Y, Pradhan SK, Sun F, Chronis C, Tran N, Su T, Van C, Vashisht A, Wohlschlegel J, Peterson CL, Timmers HTM, Kurdistani SK, Carey MF. Mot1, Ino80C, and NC2 Function Coordinately to Regulate Pervasive Transcription in Yeast and Mammals. Mol Cell. 2017 Aug 17; 67(4):594-607.e4. PMID: 28735899.

Clapier CR, Iwasa J, Cairns BR, Peterson CL. Mechanisms of action and regulation of ATP-dependent chromatin-remodelling complexes. Nat Rev Mol Cell Biol. 2017 May 17. PMID: 28512350.

Azmi IF, Watanabe S, Maloney MF, Kang S, Belsky JA, MacAlpine DM, Peterson CL, Bell SP. Nucleosomes influence multiple steps during replication initiation. Elife. 2017 Mar 21; 6. PMID: 28322723.

Adkins NL, Swygert SG, Kaur P, Niu H, Grigoryev SA, Sung P, Wang H, Peterson CL. Nucleosome-like, ssDNA-histone octamer complexes and the implication for DNA double-strand break repair. J Biol Chem. 2017 Feb 15. PMID: 28202543.

Echtenkamp FJ, Gvozdenov Z, Adkins NL, Zhang Y, Lynch-Day M, Watanabe S, Peterson CL, Freeman BC. Hsp90 and p23 Molecular Chaperones Control Chromatin Architecture by Maintaining the Functional Pool of the RSC Chromatin Remodeler. Mol Cell. 2016 Dec 01; 64(5):888-899. PMID: 27818141.

Krietenstein N, Wal M, Watanabe S, Park B, Peterson CL, Pugh BF, Korber P. Genomic Nucleosome Organization Reconstituted with Pure Proteins. Cell. 2016 Oct 20; 167(3):709-721.e12. PMID: 27768892.

Yu L, Rege M, Peterson CL, Volkert MR. RNA polymerase II depletion promotes transcription of alternative mRNA species. BMC Mol Biol. 2016 Aug 30; 17(1):20. PMID: 27578267.

Watanabe S, Peterson CL. Response to Comment on "A histone acetylation switch regulates H2A.Z deposition by the SWR-C remodeling enzyme". Science. 2016 Jul 22; 353(6297):358. PMID: 27463666.

Rege, M., Subramanian, V., Zhu, C., Hsieh, T. S., Weiner, A., Friedman, N., Clauder-Munster, S., Steinmetz, L. M., Rando, O. J., Boyer, L. A., and Peterson, C. L. (2015). Chromatin dynamics and the RNA exosome function in concert to regulate transcriptional homeostasis. Cell Reports, 8:1610-22. doi:10.1016/j.celrep.2015.10.030

Zhao, H., […], Peterson, .C.L., […], Schuck, P. (2015). A Multilaboratory Comparison of Calibration Accuracy and the Performance of External References in Analytical Ultracentrifugation. PLoS ONE, 10(5):e0126420. doi: 10.1371/journal.pone.0126420.

Jeronimo, C., Watanabe, S., Kaplan, C.D., Peterson, C.L., and Robert, F. (2015). The histone chaperones FACT and Spt6 restrict H2A.Z from intragenic locations, Molec. Cell, 58:1113-23.

Watanabe, S., Tan, D., Lakshminarasimhan, M., Washburn, M., P., Hong, E.-J., Walz, T., and Peterson, C.L. (2015). Structural Analyses of the chromatin remodeling enzymes INO80-C and SWR-C. Nature Communications, May 12;6:7108. doi: 10.1038/ncomms8108

Bennett, G., and Peterson, C.L. (2015). SWI-SNF recruitment to a double strand break by the NuA4 and Gcn5 histone acetyltransferases. DNA Repair, 30-38-45..pdf

Xue, Y., Van, C., Pradhan, S.K., Su, T., Gehrke, J., Kuryan, B.G., Kitada, T., Vashisht, A., Tran, N., Wohlschlegel, J., Peterson, C.L., Kurdistani, S.K., and Carey, M.F. (2015). The INO80 complex prevents invasion of euchromatin into silent chromatin, Genes Dev., 29:350-355.

Manning. B. J., and Peterson, C.L. (2014). Direct interactions promote eviction of the Sir3 heterochromatin protein by the SWI/SNF chromatin remodeling enzyme. Proc. Natl. Acad. Sci. USA, 111-17827-17832..pdf

Van, C., Williams, J.S., Kunkel, T.A., and Peterson, C.L. (2014). Deposition of histone H2A.Z by the SWR-C remodeling enzyme prevents genome instability, DNA Repair, 25:9-14.

Swygert, S.G., Manning, B., Senapati, S., Kaur, P., Lindsay, S., Demeler, B., and Peterson, CL. (2014). Solution-state conformation and stoichiometry of yeast Sir3 heterochromatin fibers. Nature Communications, Aug 28;5:4751. doi: 10.1038/ncomms5751.

Swygert SG, Peterson CL. Chromatin dynamics: interplay between remodeling enzymes and histone modifications. Biochim Biophys Acta. 2014 Aug; 1839(8):728-36. PMID: 24583555.

Peterson CL, Almouzni G. Nucleosome dynamics as modular systems that integrate DNA damage and repair. Cold Spring Harb Perspect Biol. 2013 Sep 01; 5(9). PMID: 24003210.

Watanabe S, Peterson CL. Chromatin dynamics: flipping the switch on a chromatin remodeling machine. Cell Cycle. 2013 Aug 1; 12(15):2337-8. PMID: 23856580.

Watanabe S., Radman-Livaja M., Rando O.J., Peterson C.L. (2013) A Histone Acetylation Switch Regulates H2A.Z Deposition by the SWR-C Remodeling Enzyme.  Science 340, 195 (2013)

Adkins N.L., Niu H., Sung P., Peterson C.L. (2013) Nucleosome dynamics regulates DNA processing.  Nature Stuctural & Molecular Biology 20, 7, 836-842.

Bennet G., Papmichos-Chronakis M, Peterson C.L (2013) DNA repair choices defines a common pathway for recruitment of chromatin regulators.   Nat. Commun. 4:2084 doi: 10.1038.

Manning, B., and Peterson, C.L. (2013) Releasing the brakes on a chromatin-remodeling enzyme. Nature Structural & Molecular Biology 20, 5-7

Papamichos-Chronakis M, Peterson C.L. (2013) Chromatin and the genome integrity network. Nature Rev Genet., 14:62-75.

Sanz AB, García R, Rodríguez-Peña JM, Díez-Muñiz S, Nombela C, Peterson CL, Arroyo J. Chromatin remodeling by the SWI/SNF complex is essential for transcription mediated by the yeast cell wall integrity MAPK pathway. Mol Biol Cell. 2012 Jul; 23(14):2805-17. PMID: 22621902.

Liu N, Peterson CL, Hayes JJ. SWI/SNF- and RSC-catalyzed nucleosome mobilization requires internal DNA loop translocation within nucleosomes. Mol Cell Biol. 2011 Oct; 31(20):4165-75. PMID: 21859889.

Peterson CL. The ins and outs of heterochromatic DNA repair. Dev Cell. 2011 Mar 15; 20(3):285-7. PMID: 21397838.

Wippo CJ, Israel L, Watanabe S, Hochheimer A, Peterson CL, Korber P. The RSC chromatin remodelling enzyme has a unique role in directing the accurate positioning of nucleosomes. EMBO J. 2011 Apr 6; 30(7):1277-88. PMID: 21343911.

Peterson CL. Chromatin: a ubiquitin crowbar opens chromatin. Nat Chem Biol. 2011 Feb; 7(2):68-9. PMID: 21245855.

Papamichos-Chronakis M, Watanabe S, Rando O.J., Peterson C.L.(2011). Global Regulation of H2A.Z Localization by the INO80 chromatin remodeling enzyme is essential for genome Integrity. Cell, 144:200-213.

Peterson CL. Transcriptional memory: mothers SET the table for daughters. Curr Biol. 2010 Mar 9; 20(5):R240-2. PMID: 20219175.

Kundu S, Peterson CL. Dominant role for signal transduction in the transcriptional memory of yeast GAL genes. Mol Cell Biol. 2010 May; 30(10):2330-40. PMID: 20212085.

Watanabe S, Resch M, Lilyestrom W, Clark N, Hansen JC, Peterson C, Luger K. Structural characterization of H3K56Q nucleosomes and nucleosomal arrays. Biochim Biophys Acta. 2010 May-Jun; 1799(5-6):480-6. PMID: 20100606.

Oza P, Peterson CL. Opening the DNA repair toolbox: localization of DNA double strand breaks to the nuclear periphery. Cell Cycle. 2010 Jan 1; 9(1):43-9. PMID: 20016273.

Sinha M, Peterson CL. Chromatin dynamics during repair of chromosomal DNA double-strand breaks. Epigenomics. 2009 Dec; 1(2):371-85. PMID: 20495614.

Sinha M, Watanabe S, Johnson A, Moazed D, Peterson CL. Recombinational repair within heterochromatin requires ATP-dependent chromatin remodeling. Cell. 2009 Sep 18; 138(6):1109-21. PMID: 19766565.

Oza P, Jaspersen SL, Miele A, Dekker J, Peterson CL. Mechanisms that regulate localization of a DNA double-strand break to the nuclear periphery. Genes Dev. 2009 Apr 15; 23(8):912-27. PMID: 19390086.

Kundu S, Peterson CL. Role of chromatin states in transcriptional memory. Biochim Biophys Acta. 2009 Jun; 1790(6):445-55. PMID: 19236904.

Fu Y, Sinha M, Peterson CL, Weng Z. The insulator binding protein CTCF positions 20 nucleosomes around its binding sites across the human genome. PLoS Genet. 2008 Jul 25; 4(7):e1000138. PMID: 18654629.

Dechassa ML, Zhang B, Horowitz-Scherer R, Persinger J, Woodcock CL, Peterson CL, Bartholomew B. Architecture of the SWI/SNF-nucleosome complex. Mol Cell Biol. 2008 Oct; 28(19):6010-21. PMID: 18644858.

Sinha M, Peterson CL. A Rad51 presynaptic filament is sufficient to capture nucleosomal homology during recombinational repair of a DNA double-strand break. Mol Cell. 2008 Jun 20; 30(6):803-10. PMID: 18570881.

Papamichos-Chronakis M, Peterson CL. The Ino80 chromatin-remodeling enzyme regulates replisome function and stability. Nat Struct Mol Biol. 2008 Apr; 15(4):338-45. PMID: 18376411.

Carruthers LM, Marton LJ, Peterson CL. Polyamine analogues: potent inducers of nucleosomal array oligomerization and inhibitors of yeast cell growth. Biochem J. 2007 Aug 1; 405(3):541-5. PMID: 17428198.

Yang X, Zaurin R, Beato M, Peterson CL. Swi3p controls SWI/SNF assembly and ATP-dependent H2A-H2B displacement. Nat Struct Mol Biol. 2007 Jun; 14(6):540-7. PMID: 17496903.

Peterson CL. Genome integrity: a HAT needs a chaperone. Curr Biol. 2007 May 1; 17(9):R324-6. PMID: 17470345.

Kundu S, Horn PJ, Peterson CL. SWI/SNF is required for transcriptional memory at the yeast GAL gene cluster. Genes Dev. 2007 Apr 15; 21(8):997-1004. PMID: 17438002.

Zhang Y, Smith CL, Saha A, Grill SW, Mihardja S, Smith SB, Cairns BR, Peterson CL, Bustamante C. DNA translocation and loop formation mechanism of chromatin remodeling by SWI/SNF and RSC. Mol Cell. 2006 Nov 17; 24(4):559-68. PMID: 17188033.

Fry CJ, Norris A, Cosgrove M, Boeke JD, Peterson CL. The LRS and SIN domains: two structurally equivalent but functionally distinct nucleosomal surfaces required for transcriptional silencing. Mol Cell Biol. 2006 Dec; 26(23):9045-59. PMID: 17015465.

Papamichos-Chronakis M, Krebs JE, Peterson CL. Interplay between Ino80 and Swr1 chromatin remodeling enzymes regulates cell cycle checkpoint adaptation in response to DNA damage. Genes Dev. 2006 Sep 1; 20(17):2437-49. PMID: 16951256.

Shogren-Knaak M, Peterson CL. Switching on chromatin: mechanistic role of histone H4-K16 acetylation. Cell Cycle. 2006 Jul; 5(13):1361-5. PMID: 16855380.

Shundrovsky A, Smith CL, Lis JT, Peterson CL, Wang MD. Probing SWI/SNF remodeling of the nucleosome by unzipping single DNA molecules. Nat Struct Mol Biol. 2006 Jun; 13(6):549-54. PMID: 16732285.

Shogren-Knaak, M., Ishii, H., J.M., Pazin, M.J., Davie, J.R., and Peterson, C.L. (2006) Histone H4-K16 Acetylation Controls Chromatin Structure and Protein Interactions, Science 311:844-847.

Horn PJ, Peterson CL. Heterochromatin assembly: a new twist on an old model. Chromosome Res. 2006; 14(1):83-94. PMID: 16506098.

Chowdhury D, Keogh MC, Ishii H, Peterson CL, Buratowski S, Lieberman J. gamma-H2AX dephosphorylation by protein phosphatase 2A facilitates DNA double-strand break repair. Mol Cell. 2005 Dec 9; 20(5):801-9. PMID: 16310392.

Hill DA, Peterson CL, Imbalzano AN. Effects of HMGN1 on chromatin structure and SWI/SNF-mediated chromatin remodeling. J Biol Chem. 2005 Dec 16; 280(50):41777-83. PMID: 16253989.

Horn PJ, Bastie JN, Peterson CL. A Rik1-associated, cullin-dependent E3 ubiquitin ligase is essential for heterochromatin formation. Genes Dev. 2005 Jul 15; 19(14):1705-14. PMID: 16024659.

Smith CL, Peterson CL. A conserved Swi2/Snf2 ATPase motif couples ATP hydrolysis to chromatin remodeling. Mol Cell Biol. 2005 Jul; 25(14):5880-92. PMID: 15988005.

Cheung WL, Turner FB, Krishnamoorthy T, Wolner B, Ahn SH, Foley M, Dorsey JA, Peterson CL, Berger SL, Allis CD. Phosphorylation of histone H4 serine 1 during DNA damage requires casein kinase II in S. cerevisiae. Curr Biol. 2005 Apr 12; 15(7):656-60. PMID: 15823538.

Wolner B, Peterson CL. ATP-dependent and ATP-independent roles for the Rad54 chromatin remodeling enzyme during recombinational repair of a DNA double strand break. J Biol Chem. 2005 Mar 18; 280(11):10855-60. PMID: 15653683.

Vicent GP, Nacht AS, Smith CL, Peterson CL, Dimitrov S, Beato M. DNA instructed displacement of histones H2A and H2B at an inducible promoter. Mol Cell. 2004 Nov 5; 16(3):439-52. PMID: 15525516.

Peterson CL, Laniel MA. Histones and histone modifications. Curr Biol. 2004 Jul 27; 14(14):R546-51. PMID: 15268870.

Peterson CL, Côté J. Cellular machineries for chromosomal DNA repair. Genes Dev. 2004 Mar 15; 18(6):602-16. PMID: 15075289.

Boyer LA, Latek RR, Peterson CL. The SANT domain: a unique histone-tail-binding module? Nat Rev Mol Cell Biol. 2004 Feb; 5(2):158-63. PMID: 15040448.

Shogren-Knaak MA, Peterson CL. Creating designer histones by native chemical ligation. Methods Enzymol. 2004; 375:62-76. PMID: 14870659.