Cancer cell histone density links global histone acetylation, mitochondrial proteome and histone acetylase inhibitor sensitivity

被引:6
作者
Bruhn, Christopher [1 ,3 ]
Bastianello, Giulia [1 ,2 ]
Foiani, Marco [1 ,2 ]
机构
[1] FIRC Inst Mol Oncol IFOM, Milan, Italy
[2] Univ Milan, Milan, Italy
[3] Evotec Int GmbH, Gottingen, Germany
关键词
COMPREHENSIVE GENOMIC CHARACTERIZATION; LANDSCAPE; DEGRADATION; PLASTICITY; DYNAMICS; HEAD;
D O I
10.1038/s42003-022-03846-3
中图分类号
Q [生物科学];
学科分类号
07 ; 0710 ; 09 ;
摘要
Chromatin metabolism is frequently altered in cancer cells and facilitates cancer development. While cancer cells produce large amounts of histones, the protein component of chromatin packaging, during replication, the potential impact of histone density on cancer biology has not been studied systematically. Here, we show that altered histone density affects global histone acetylation, histone deactylase inhibitor sensitivity and altered mitochondrial proteome composition. We present estimates of nuclear histone densities in 373 cancer cell lines, based on Cancer Cell Line Encyclopedia data, and we show that a known histone regulator, HMGB1, is linked to histone density aberrations in many cancer cell lines. We further identify an E3 ubiquitin ligase interactor, DCAF6, and a mitochondrial respiratory chain assembly factor, CHCHD4, as histone modulators. As systematic characterization of histone density aberrations in cancer cell lines, this study provides approaches and resources to investigate the impact of histone density on cancer biology. Elevated histone density is associated with global histone acetylation, histone deacetylase inhibitor sensitivity and altered mitochondrial proteome composition, with histone regulator HMGB1 linked to histone density aberrations in many cancer cell lines.
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页数:15
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共 67 条
  • [1] Antibodies against the mono-methylated arginine-glycine repeat (MMA-RG) of the Epstein-Barr virus nuclear antigen 2 (EBNA2) identify potential cellular proteins targeted in viral transformation
    Ayoubian, Hiresh
    Froehlich, Thomas
    Pogodski, Dagmar
    Flatley, Andrew
    Kremmer, Elisabeth
    Schepers, Aloys
    Feederle, Regina
    Arnold, Georg J.
    Graesser, Friedrich A.
    [J]. JOURNAL OF GENERAL VIROLOGY, 2017, 98 (08) : 2128 - 2142
  • [2] The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug sensitivity
    Barretina, Jordi
    Caponigro, Giordano
    Stransky, Nicolas
    Venkatesan, Kavitha
    Margolin, Adam A.
    Kim, Sungjoon
    Wilson, Christopher J.
    Lehar, Joseph
    Kryukov, Gregory V.
    Sonkin, Dmitriy
    Reddy, Anupama
    Liu, Manway
    Murray, Lauren
    Berger, Michael F.
    Monahan, John E.
    Morais, Paula
    Meltzer, Jodi
    Korejwa, Adam
    Jane-Valbuena, Judit
    Mapa, Felipa A.
    Thibault, Joseph
    Bric-Furlong, Eva
    Raman, Pichai
    Shipway, Aaron
    Engels, Ingo H.
    Cheng, Jill
    Yu, Guoying K.
    Yu, Jianjun
    Aspesi, Peter, Jr.
    de Silva, Melanie
    Jagtap, Kalpana
    Jones, Michael D.
    Wang, Li
    Hatton, Charles
    Palescandolo, Emanuele
    Gupta, Supriya
    Mahan, Scott
    Sougnez, Carrie
    Onofrio, Robert C.
    Liefeld, Ted
    MacConaill, Laura
    Winckler, Wendy
    Reich, Michael
    Li, Nanxin
    Mesirov, Jill P.
    Gabriel, Stacey B.
    Getz, Gad
    Ardlie, Kristin
    Chan, Vivien
    Myer, Vic E.
    [J]. NATURE, 2012, 483 (7391) : 603 - 607
  • [3] Nucleosome Remodeling and Epigenetics
    Becker, Peter B.
    Workman, Jerry L.
    [J]. COLD SPRING HARBOR PERSPECTIVES IN BIOLOGY, 2013, 5 (09):
  • [4] Integrated genomic analyses of ovarian carcinoma
    Bell, D.
    Berchuck, A.
    Birrer, M.
    Chien, J.
    Cramer, D. W.
    Dao, F.
    Dhir, R.
    DiSaia, P.
    Gabra, H.
    Glenn, P.
    Godwin, A. K.
    Gross, J.
    Hartmann, L.
    Huang, M.
    Huntsman, D. G.
    Iacocca, M.
    Imielinski, M.
    Kalloger, S.
    Karlan, B. Y.
    Levine, D. A.
    Mills, G. B.
    Morrison, C.
    Mutch, D.
    Olvera, N.
    Orsulic, S.
    Park, K.
    Petrelli, N.
    Rabeno, B.
    Rader, J. S.
    Sikic, B. I.
    Smith-McCune, K.
    Sood, A. K.
    Bowtell, D.
    Penny, R.
    Testa, J. R.
    Chang, K.
    Dinh, H. H.
    Drummond, J. A.
    Fowler, G.
    Gunaratne, P.
    Hawes, A. C.
    Kovar, C. L.
    Lewis, L. R.
    Morgan, M. B.
    Newsham, I. F.
    Santibanez, J.
    Reid, J. G.
    Trevino, L. R.
    Wu, Y. -Q.
    Wang, M.
    [J]. NATURE, 2011, 474 (7353) : 609 - 615
  • [5] Replication stress inhibits synthesis of histone mRNAs in yeast by removing Spt10p and Spt21p from the histone promoters
    Bhagwat, Madhura
    Nagar, Shreya
    Kaur, Pritpal
    Mehta, Riddhi
    Vancurova, Ivana
    Vancura, Ales
    [J]. JOURNAL OF BIOLOGICAL CHEMISTRY, 2021, 297 (05)
  • [6] Metabolic determinants of cancer cell sensitivity to glucose limitation and biguanides
    Birsoy, Kivanc
    Possemato, Richard
    Lorbeer, Franziska K.
    Bayraktar, Erol C.
    Thiru, Prathapan
    Yucel, Burcu
    Wang, Tim
    Chen, Walter W.
    Clish, Clary B.
    Sabatini, David M.
    [J]. NATURE, 2014, 508 (7494) : 108 - +
  • [7] Nucleosomes effectively shield DNA from radiation damage in living cells
    Brambilla, Francesca
    Garcia-Manteiga, Jose Manuel
    Monteleone, Emanuele
    Hoelzen, Lena
    Zocchi, Angelica
    Agresti, Alessandra
    Bianchi, Marco E.
    [J]. NUCLEIC ACIDS RESEARCH, 2020, 48 (16) : 8993 - 9006
  • [8] The Somatic Genomic Landscape of Glioblastoma
    Brennan, Cameron W.
    Verhaak, Roel G. W.
    McKenna, Aaron
    Campos, Benito
    Noushmehr, Houtan
    Salama, Sofie R.
    Zheng, Siyuan
    Chakravarty, Debyani
    Sanborn, J. Zachary
    Berman, Samuel H.
    Beroukhim, Rameen
    Bernard, Brady
    Wu, Chang-Jiun
    Genovese, Giannicola
    Shmulevich, Ilya
    Barnholtz-Sloan, Jill
    Zou, Lihua
    Vegesna, Rahulsimham
    Shukla, Sachet A.
    Ciriello, Giovanni
    Yung, W. K.
    Zhang, Wei
    Sougnez, Carrie
    Mikkelsen, Tom
    Aldape, Kenneth
    Bigner, Darell D.
    Van Meir, Erwin G.
    Prados, Michael
    Sloan, Andrew
    Black, Keith L.
    Eschbacher, Jennifer
    Finocchiaro, Gaetano
    Friedman, William
    Andrews, David W.
    Guha, Abhijit
    Iacocca, Mary
    O'Neill, Brian P.
    Foltz, Greg
    Myers, Jerome
    Weisenberger, Daniel J.
    Penny, Robert
    Kucherlapati, Raju
    Perou, Charles M.
    Hayes, D. Neil
    Gibbs, Richard
    Marra, Marco
    Mills, Gordon B.
    Lander, Eric
    Spellman, Paul
    Wilson, Richard
    [J]. CELL, 2013, 155 (02) : 462 - 477
  • [9] Bruhn C., 2022, HIGH CONTENT IMAGING, DOI [10.6084/m9.figshare.20412639.v1, DOI 10.6084/M9.FIGSHARE.20412639.V1]
  • [10] Bruhn C., 2022, HISTONE DENSITY ANAL, DOI [10.17632/68pd82kgpg.1, DOI 10.17632/68PD82KGPG.1]