Arnold Berk, M.D.

A Short Biography:

Arnie Berk is a virologist and cell biologist in the Molecular Biology Institute and Department of Microbiology, Immunology and Molecular Genetics at UCLA. As a postdoctoral fellow, his analysis of adenovirus mRNA synthesis led to the initial discovery of RNA processing of spliced mRNAs from pre-mRNA precursors containing introns, and his analysis of early SV40 mRNA lead to the initial discovery of alternatively spliced mRNA isoforms encoding distinct, but related proteins. At UCLA his research has focused on the mechanisms of transcriptional activation and control of the cell cycle by the adenovirus E1A and E1B proteins. Work from his laboratory demonstrated that the tumor suppressor activity of p53 depends on its activity as a transcriptional activator. His laboratory discovered that activation of transcription by the adenovirus large E1A protein results from its interaction with the human mediator of transcription complex, and that this promotes assembly of pre-initiation complexes on promoter DNA and stimulation of elongation by promoter proximal paused RNA polymerase II. The small E1A protein was shown to regulate host cell transcription and cell cycle progression through modifications of chromatin structure. He is a Fellow of the American Academy of Arts and Sciences and holds the UCLA Presidential Chair in Molecular Cell Biology.

Work Titles and Affiliation
UCLA Professor, Microbiology, Immunology & Molecular Genetics
Education:
Degrees:
M.D.

Contact Information:

Work Email Address:

berk@mbi.ucla.edu


Lab Number:

(310) 825-9370

Office Phone Number:

(310) 206-6298

Laboratory Address:

Laboratory
UCLA/MBI
611 Young Dr E
Los Angeles, CA 90095

Work Address:

Office
Boyer 359
CAMPUS - 157005
CA

Detailed Biography:

Arnie Berk is a virologist and cell biologist in the Molecular Biology Institute and Department of Microbiology, Immunology and Molecular Genetics at UCLA. As a postdoctoral fellow, his analysis of adenovirus mRNA synthesis led to the initial discovery of RNA processing of spliced mRNAs from pre-mRNA precursors containing introns, and his analysis of early SV40 mRNA lead to the initial discovery of alternatively spliced mRNA isoforms encoding distinct, but related proteins. At UCLA his research has focused on the mechanisms of transcriptional activation and control of the cell cycle by the adenovirus E1A and E1B proteins. Work from his laboratory demonstrated that the tumor suppressor activity of p53 depends on its activity as a transcriptional activator. His laboratory discovered that activation of transcription by the adenovirus large E1A protein results from its interaction with the human mediator of transcription complex, and that this promotes assembly of pre-initiation complexes on promoter DNA and stimulation of elongation by promoter proximal paused RNA polymerase II. The small E1A protein was shown to regulate host cell transcription and cell cycle progression through modifications of chromatin structure. He is a Fellow of the American Academy of Arts and Sciences and holds the UCLA Presidential Chair in Molecular Cell Biology.

Publications:

Ferrari Roberto, Gou Dawei, Jawdekar Gauri, Johnson Sarah A, Nava Miguel, Su Trent, Yousef Ahmed F, Zemke Nathan R, Pellegrini Matteo, Kurdistani Siavash K, Berk Arnold J   Adenovirus small E1A employs the lysine acetylases p300/CBP and tumor suppressor Rb to repress select host genes and promote productive virus infection Cell host & microbe, 2014; 16(5): 663-76.
Gallaher Sean D, Berk Arnold J   A rapid Q-PCR titration protocol for adenovirus and helper-dependent adenovirus vectors that produces biologically relevant results Journal of virological methods, 2013; 192(1-2): 28-38.
Berk Arnold J   Yin and yang of mediator function revealed by human mutants Proceedings of the National Academy of Sciences of the United States of America, 2012; 109(48): 19519-20.
Ferrari Roberto, Su Trent, Li Bing, Bonora Giancarlo, Oberai Amit, Chan Yvonne, Sasidharan Rajkumar, Berk Arnold J, Pellegrini Matteo, Kurdistani Siavash K   Reorganization of the host epigenome by a viral oncogene Genome research, 2012; 22(7): 1212-21.
Kawamata N, Pennella M A, Woo J L, Berk A J, Koeffler H P   Dominant-negative mechanism of leukemogenic PAX5 fusions Oncogene, 2012; 31(8): 966-77.
Pennella Mario A, Liu Yue, Woo Jennifer L, Kim Chongwoo A, Berk Arnold J   Adenovirus E1B 55-kilodalton protein is a p53-SUMO1 E3 ligase that represses p53 and stimulates its nuclear export through interactions with promyelocytic leukemia nuclear bodies Journal of virology, 2010; 84(23): 12210-25.
Balamotis Michael A, Pennella Mario A, Stevens Jennitte L, Wasylyk Bohdan, Belmont Andrew S, Berk Arnold J   Complexity in transcription control at the activation domain-mediator interface Science signaling, 2009; 2(69): ra20.
Ferrari Roberto, Berk Arnold J, Kurdistani Siavash K   Viral manipulation of the host epigenome for oncogenic transformation Nature reviews. Genetics, 2009; 10(5): 290-4.
Horwitz Gregory A, Zhang Kangling, McBrian Matthew A, Grunstein Michael, Kurdistani Siavash K, Berk Arnold J   Adenovirus small e1a alters global patterns of histone modification Science (New York, N.Y.), 2008; 321(5892): 1084-5.
Ferrari Roberto, Pellegrini Matteo, Horwitz Gregory A, Xie Wei, Berk Arnold J, Kurdistani Siavash K   Epigenetic reprogramming by adenovirus e1a Science (New York, N.Y.), 2008; 321(5892): 1086-8.
Woo Jennifer L, Berk Arnold J   Adenovirus ubiquitin-protein ligase stimulates viral late mRNA nuclear export Journal of virology, 2007; 81(2): 575-87.
Liu Yue, Shevchenko Anna, Shevchenko Andrej, Berk Arnold J   Adenovirus exploits the cellular aggresome response to accelerate inactivation of the MRN complex Journal of virology, 2005; 79(22): 14004-16.
Wang Gang, Balamotis Michael A, Stevens Jennitte L, Yamaguchi Yuki, Handa Hiroshi, Berk Arnold J   Mediator requirement for both recruitment and postrecruitment steps in transcription initiation Molecular cell, 2005; 17(5): 683-94.
Bourbon Henri-Marc, Aguilera Andres, Ansari Aseem Z, Asturias Francisco J, Berk Arnold J, Bjorklund Stefan, Blackwell T Keith, Borggrefe Tilman, Carey Michael, Carlson Marian, Conaway Joan W, Conaway Ronald C, Emmons Scott W, Fondell Joseph D, Freedman Leonard P, Fukasawa Toshio, Gustafsson Claes M, Han Min, He Xi, Herman Paul K, Hinnebusch Alan G, Holmberg Steen, Holstege Frank C, Jaehning Judith A, Kim Young-Joon, Kuras Laurent, Leutz Achim, Lis John T, Meisterernest Michael, Naar Anders M, Nasmyth Kim, Parvin Jeffrey D, Ptashne Mark, Reinberg Danny, Ronne Hans, Sadowski Ivan, Sakurai Hiroshi, Sipiczki Matthias, Sternberg Paul W, Stillman David J, Strich Randy, Struhl Kevin, Svejstrup Jasper Q, Tuck Simon, Winston Fred, Roeder Robert G, Kornberg Roger D   A unified nomenclature for protein subunits of mediator complexes linking transcriptional regulators to RNA polymerase II Molecular cell, 2004; 14(5): 553-7.
Cantin Greg T, Stevens Jennitte L, Berk Arnold J   Activation domain-mediator interactions promote transcription preinitiation complex assembly on promoter DNA Proceedings of the National Academy of Sciences of the United States of America, 2003; 100(21): 12003-8.
Harada Josephine N, Shevchenko Anna, Shevchenko Andrej, Pallas David C, Berk Arnold J   Analysis of the adenovirus E1B-55K-anchored proteome reveals its link to ubiquitination machinery Journal of virology, 2002; 76(18): 9194-206.
Martel Lisa S, Brown Helen J, Berk Arnold J   Evidence that TAF-TATA box-binding protein interactions are required for activated transcription in mammalian cells Molecular and cellular biology, 2002; 22(8): 2788-98.
Stevens Jennitte L, Cantin Greg T, Wang Gang, Shevchenko Andrej, Shevchenko Anna, Berk Arnold J   Transcription control by E1A and MAP kinase pathway via Sur2 mediator subunit Science (New York, N.Y.), 2002; 296(5568): 755-8.
Berk A J   TBP-like factors come into focus Cell, 2000; 103(1): 5-8.
Boyer T G, Martin M E, Lees E, Ricciardi R P, Berk A J   Mammalian Srb/Mediator complex is targeted by adenovirus E1A protein Nature, 1999; 399(6733): 276-9.
Kobayashi N, Horn P J, Sullivan S M, Triezenberg S J, Boyer T G, Berk A J   DA-complex assembly activity required for VP16C transcriptional activation Molecular and cellular biology, 1998; 18(7): 4023-31.
Shen Y, Kassavetis G A, Bryant G O, Berk A J   Polymerase (Pol) III TATA box-binding protein (TBP)-associated factor Brf binds to a surface on TBP also required for activated Pol II transcription Molecular and cellular biology, 1998; 18(3): 1692-700.
Bryant G O, Martel L S, Burley S K, Berk A J   Radical mutations reveal TATA-box binding protein surfaces required for activated transcription in vivo Genes & development, 1996; 10(19): 2491-504.
Juo Z S, Chiu T K, Leiberman P M, Baikalov I, Berk A J, Dickerson R E   How proteins recognize the TATA box Journal of molecular biology, 1996; 261(2): 239-54.
Berk A J   Biochemistry meets genetics in the holoenzyme Proceedings of the National Academy of Sciences of the United States of America, 1995; 92(26): 11952-4.
Martinez E, Zhou Q, L'Etoile N D, Oelgeschl√ɬ§ger T, Berk A J, Roeder R G   Core promoter-specific function of a mutant transcription factor TFIID defective in TATA-box binding Proceedings of the National Academy of Sciences of the United States of America, 1995; 92(25): 11864-8.
Kobayashi N, Boyer T G, Berk A J   A class of activation domains interacts directly with TFIIA and stimulates TFIIA-TFIID-promoter complex assembly Molecular and cellular biology, 1995; 15(11): 6465-73.
L'Etoile N D, Fahnestock M L, Shen Y, Aebersold R, Berk A J   Human transcription factor IIIC box B binding subunit Proceedings of the National Academy of Sciences of the United States of America, 1994; 91(5): 1652-6.
Zhou Q, Lieberman P M, Boyer T G, Berk A J   Holo-TFIID supports transcriptional stimulation by diverse activators and from a TATA-less promoter Genes & development, 1992; 6(10): 1964-74.
Kao C C, Lieberman P M, Schmidt M C, Zhou Q, Pei R, Berk A J   Cloning of a transcriptionally active human TATA binding factor Science (New York, N.Y.), 1990; 248(4963): 1646-50.
Schmidt M C, Kao C C, Pei R, Berk A J   Yeast TATA-box transcription factor gene Proceedings of the National Academy of Sciences of the United States of America, 1989; 86(20): 7785-9.
Berk AJ, Sharp PA.   Spliced early messenger RNAs of simian virus 40, Proc. Natl. Acad. Sci. USA, 1978; 75: 1274-1278.
Berget SM, Berk AJ, Harrison T, Sharp PA   Spliced segments at the 5' termini of adenovirus 2 late mRNA: a role for heterogeneous nuclear RNA in mammalian cells, Cold Spring Harbor Symposium on Quantitative Biology, 1978; 42: 523-529.
Berk AJ, Sharp PA   Sizing and mapping of early adenovirus mRNAs by gel electrophoresis of Sl endonuclease-digested hybrids, Cell, 1977; 12: 721-732.

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Information from U.S. National Library of Medicine.

ARNTL Transcription Factors Acetylation Activating Transcription Factor 1 Activating Transcription Factor 2 Activating Transcription Factor 3 Activating Transcription Factor 4 Activating Transcription Factor 6 Activating Transcription Factors Active Transport, Cell Nucleus Adenoviridae Adenovirus E1A Proteins Adenovirus E1B Proteins Adenovirus E4 Proteins Adenoviruses, Human Amino Acid Sequence Animals Antiviral Agents AraC Transcription Factor Autoradiography Base Sequence Basic Helix-Loop-Helix Leucine Zipper Transcription Factors Basic Helix-Loop-Helix Transcription Factors Basic-Leucine Zipper Transcription Factors Binding Sites Biological Assay COS Cells COUP Transcription Factor I COUP Transcription Factor II COUP Transcription Factors Caenorhabditis elegans Cell Line Cell Line, Tumor Cell Nucleus Cell Proliferation Cell Transformation, Neoplastic Cell Transformation, Viral Cells Cells, Cultured Chromatin Chromatin Immunoprecipitation Cloning, Molecular Cytoplasm DNA DNA Damage DNA Footprinting DNA Polymerase II DNA Primers DNA, Viral DNA-Binding Proteins Defense Mechanisms Deltaretrovirus Antigens Denaturing Gradient Gel Electrophoresis E2F Transcription Factors E2F1 Transcription Factor E2F2 Transcription Factor E2F3 Transcription Factor E2F4 Transcription Factor E2F5 Transcription Factor E2F6 Transcription Factor E2F7 Transcription Factor Early Growth Response Protein 1 Early Growth Response Transcription Factors Escherichia coli Fibroblasts Fluorescence Polarization Forkhead Transcription Factors Fungal Proteins Fushi Tarazu Transcription Factors GA-Binding Protein Transcription Factor GATA Transcription Factors GATA1 Transcription Factor GATA2 Transcription Factor GATA3 Transcription Factor GATA4 Transcription Factor GATA5 Transcription Factor GATA6 Transcription Factor Gene Expression Genes Genes, Reporter Genes, p53 Genome Genomics Goals HeLa Cells Herpes Simplex Virus Protein Vmw65 Histones Human Immunodeficiency Virus Proteins Human Papillomavirus DNA Tests Humans Ikaros Transcription Factor Immunoprecipitation Infection Knowledge Kruppel-Like Transcription Factors Laboratories Lead Life Lysine MAP Kinase Signaling System MSX1 Transcription Factor Macromolecular Substances Maf Transcription Factors Maf Transcription Factors, Large Maf Transcription Factors, Small MafB Transcription Factor MafF Transcription Factor MafG Transcription Factor MafK Transcription Factor Mediator Complex Methods Methylation Mice Mice, Knockout Mice, Mutant Strains Mice, Neurologic Mutants Mice, Nude Microphthalmia-Associated Transcription Factor Models, Biological Models, Genetic Models, Molecular Molecular Sequence Data Multiprotein Complexes Mutagenesis Mutagenesis, Site-Directed Mutant Chimeric Proteins Mutant Proteins Mutation NF-E2 Transcription Factor NF-E2 Transcription Factor, p45 Subunit NFATC Transcription Factors NFI Transcription Factors Native Polyacrylamide Gel Electrophoresis Nuclear Proteins Nucleic Acid Hybridization Nucleosomes Octamer Transcription Factor-1 Octamer Transcription Factor-2 Octamer Transcription Factor-3 Octamer Transcription Factor-6 Octamer Transcription Factors Oncogenes Oncogenic Viruses Onecut Transcription Factors Otx Transcription Factors PAX2 Transcription Factor PAX7 Transcription Factor PAX9 Transcription Factor Paired Box Transcription Factors Pathologic Processes Patients Phosphoproteins Plasmids Precipitin Tests Promoter Regions, Genetic Proteasome Endopeptidase Complex Protein Binding Protein Conformation Protein Structure, Tertiary Proteins Proteolysis Proto-Oncogene Proteins Publications Publishing RNA Polymerase II RNA Polymerase III RNA, Messenger Rats, Mutant Strains Recombinant Fusion Proteins Recombinant Proteins Research Ribonucleoproteins S Phase SOX Transcription Factors SOX9 Transcription Factor SOXB1 Transcription Factors SOXB2 Transcription Factors SOXC Transcription Factors SOXD Transcription Factors SOXE Transcription Factors SOXF Transcription Factors STAT Transcription Factors STAT1 Transcription Factor STAT2 Transcription Factor STAT3 Transcription Factor STAT4 Transcription Factor STAT5 Transcription Factor STAT6 Transcription Factor Saccharomyces cerevisiae Saccharomyces cerevisiae Proteins Sequence Homology, Amino Acid Small Ubiquitin-Related Modifier Proteins Sp Transcription Factors Sp1 Transcription Factor Sp2 Transcription Factor Sp3 Transcription Factor Sp4 Transcription Factor T Cell Transcription Factor 1 TATA Box TATA-Box Binding Protein TCF Transcription Factors Trans-Activators Transcription Factor 3 Transcription Factor 7-Like 1 Protein Transcription Factor 7-Like 2 Protein Transcription Factor AP-1 Transcription Factor AP-2 Transcription Factor Brn-3 Transcription Factor Brn-3A Transcription Factor Brn-3B Transcription Factor Brn-3C Transcription Factor CHOP Transcription Factor DP1 Transcription Factor Pit-1 Transcription Factor RelA Transcription Factor RelB Transcription Factor TFIIA Transcription Factor TFIIB Transcription Factor TFIID Transcription Factor TFIIH Transcription Factor TFIIIA Transcription Factor TFIIIB Transcription Factors Transcription Factors, General Transcription Factors, TFII Transcription Factors, TFIII Transcription, Genetic Transcriptional Activation Transfection Translations Tumor Suppressor Protein p53 Tumor Suppressor Proteins Twist Transcription Factor Two-Dimensional Difference Gel Electrophoresis Ubiquitin-Protein Ligase Complexes Ubiquitin-Protein Ligases Ubiquitination Up-Regulation Viral Proteins Virion Virus Diseases Virus Replication Winged-Helix Transcription Factors Work YY1 Transcription Factor ets-Domain Protein Elk-1 p300-CBP Transcription Factors

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