Repressor to Activator Switch by Mutations in the First Zn Finger of The
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The Activator Protein-1 Transcription Factor in Respiratory Epithelium Carcinogenesis
Subject Review The Activator Protein-1 Transcription Factor in Respiratory Epithelium Carcinogenesis Michalis V. Karamouzis,1 Panagiotis A. Konstantinopoulos,1,2 and Athanasios G. Papavassiliou1 1Department of Biological Chemistry, Medical School, University of Athens, Athens, Greece and 2Division of Hematology-Oncology, Beth Israel Deaconess Medical Center, Harvard Medical School, Boston, Massachusetts Abstract Much of the current anticancer research effort is focused on Respiratory epithelium cancers are the leading cause cell-surface receptors and their cognate upstream molecules of cancer-related death worldwide. The multistep natural because they provide the easiest route for drugs to affect history of carcinogenesis can be considered as a cellular behavior, whereas agents acting at the level of gradual accumulation of genetic and epigenetic transcription need to invade the nucleus. However, the aberrations, resulting in the deregulation of cellular therapeutic effect of surface receptor manipulation might be homeostasis. Growing evidence suggests that cross- considered less than specific because their actions are talk between membrane and nuclear receptor signaling modulated by complex interacting downstream signal trans- pathways along with the activator protein-1 (AP-1) duction pathways. A pivotal transcription factor during cascade and its cofactor network represent a pivotal respiratory epithelium carcinogenesis is activator protein-1 molecular circuitry participating directly or indirectly in (AP-1). AP-1–regulated genes include important modulators of respiratory epithelium carcinogenesis. The crucial role invasion and metastasis, proliferation, differentiation, and of AP-1 transcription factor renders it an appealing survival as well as genes associated with hypoxia and target of future nuclear-directed anticancer therapeutic angiogenesis (7). Nuclear-directed therapeutic strategies might and chemoprevention approaches. -
CHD7 Represses the Retinoic Acid Synthesis Enzyme ALDH1A3 During Inner Ear Development
CHD7 represses the retinoic acid synthesis enzyme ALDH1A3 during inner ear development Hui Yao, … , Shigeki Iwase, Donna M. Martin JCI Insight. 2018;3(4):e97440. https://doi.org/10.1172/jci.insight.97440. Research Article Development Neuroscience CHD7, an ATP-dependent chromatin remodeler, is disrupted in CHARGE syndrome, an autosomal dominant disorder characterized by variably penetrant abnormalities in craniofacial, cardiac, and nervous system tissues. The inner ear is uniquely sensitive to CHD7 levels and is the most commonly affected organ in individuals with CHARGE. Interestingly, upregulation or downregulation of retinoic acid (RA) signaling during embryogenesis also leads to developmental defects similar to those in CHARGE syndrome, suggesting that CHD7 and RA may have common target genes or signaling pathways. Here, we tested three separate potential mechanisms for CHD7 and RA interaction: (a) direct binding of CHD7 with RA receptors, (b) regulation of CHD7 levels by RA, and (c) CHD7 binding and regulation of RA-related genes. We show that CHD7 directly regulates expression of Aldh1a3, the gene encoding the RA synthetic enzyme ALDH1A3 and that loss of Aldh1a3 partially rescues Chd7 mutant mouse inner ear defects. Together, these studies indicate that ALDH1A3 acts with CHD7 in a common genetic pathway to regulate inner ear development, providing insights into how CHD7 and RA regulate gene expression and morphogenesis in the developing embryo. Find the latest version: https://jci.me/97440/pdf RESEARCH ARTICLE CHD7 represses the retinoic acid synthesis enzyme ALDH1A3 during inner ear development Hui Yao,1 Sophie F. Hill,2 Jennifer M. Skidmore,1 Ethan D. Sperry,3,4 Donald L. -
Oncjuly3 6..6
Oncogene (1999) 18, 4137 ± 4143 ã 1999 Stockton Press All rights reserved 0950 ± 9232/99 $12.00 http://www.stockton-press.co.uk/onc Tax protein of HTLV-1 inhibits CBP/p300-mediated transcription by interfering with recruitment of CBP/p300 onto DNA element of E-box or p53 binding site Takeshi Suzuki1, Masami Uchida-Toita1 and Mitsuaki Yoshida*,1 1Department of Cellular and Molecular Biology, Institute of Medical Science, The University of Tokyo, 4-6-1 Shirokanedai, Minato-ku, Tokyo 108-8639, Japan Tax protein of human T-cell leukemia virus type 1 Tax was originally identi®ed as a transcriptional (HTLV-1) is a potent transcriptional regulator which can activator for viral gene expression and then was shown activate or repress speci®c cellular genes and has been to activate a wide variety of cellular genes (Yoshida et proposed to contribute to leukemogenic processes in al., 1995). Tax was also demonstrated to inhibit adult T-cell leukemia. The molecular mechanism of Tax- expression of several genes. In addition to the mediated trans-activation has been well investigated. transcriptional deregulation, we found that Tax binds However, trans-repression by Tax remains to be studied to p16ink4a protein, a cyclin-dependent kinase (CDK) in detail, although it is known to require a speci®c DNA inhibitor, and suppresses its inhibitory activity pre- element such as E-box or p53 binding site. Examining venting the cell from undergoing growth arrest (Suzuki possible mechanisms of trans-repression, we found that et al., 1996). These pleiotropic functions of Tax aect co-expression of E47 and p300 activated E-box multiple regulatory processes of cells and are believed dependent transcription and this activation was eciently to play roles at least in the initial stage of repressed by Tax. -
Transcrip\Onal and Epigene\C Changes During Heart Disease
786/110 Transcrip)onal and Epigene)c Changes during Heart Disease Danish Sayed Unique Features of Heart • Involuntary, rhythmic, cyclic contractions • Terminally differentiated, postnatal myocytes increase in size not numbers for growth • Number of non myocytes (e.g. fibroblasts) is more (60-70%) compared to number of myocytes (~30%). Neonate Heart Postnatal Growth “Physiological” Adult Heart - Exercise - Hypertension - Pregnancy - Aortic Stenosis - Sarcomeric Gene mutation - Myocardial Infarction - Dilated Cardiomyopathy Physiological Pathological Hypertrophy Hypertrophy Dilatation and Failure Compensatory Decompensation Overload • Increase in cardiomyocyte size • Chamber dilatation and mass, resulting in enlarged heart • Decreased Ventricular Wall • Increase in generalized gene Thickness and Increased expression, superimposed with wall tension significant increase in specialized genes, fetal gene • Altered Ca+2 handling program • Increased wall thickness • Increased myocardial • Switch to glucose metabolism apoptosis for energy Compromised Maintained Cardiac Cardiac function and Function and Output Output Modulators of Cardiac Hypertrophy L-Type Ca+2 Ang II, ET-1 Channel α-Adrenergic β-Adrenergic Mechanical Ca+2 Insulin-like Growth Stretch + Factor Na Gq Gs P Ca+2 PKA PLC Adenylyl Integrin Cyclase Ca+2 RAS-GTP Na+ PI3K IP3 DAG cAMP Calcineurine FAK AKT Ca+2 Rho PKC PKA Ras mTOR Rac GSK3β 4EBP1 Rock MLCK NFAT MAPK eIF2B p70S6K eIF4E ME ME ME ME GATA4 GATA4 MEF2 Sarcomere SRF Translation AC AC Transcription HDAC Histone Acetylation HAT Modificatn. Methylation HMT Chromatin Demethylases Remodeling Phosphorylation DNA Methylation Transcriptional Modificatn. General Factors Transcription factors TFIIA, TFIIB, TFIID… Promoter Specific Factors GATA family, NFATc family Activity Recruitment Gene Regulation RNA Polymerase II Dynamics Initiation Elongation Translation factors e.g. -
MINIREVIEW Catabolite Gene Activator Protein Activation of Lac Transcription WILLIAM S
JOURNAL OF BACTERIOLOGY, Feb. 1992, p. 655-658 Vol. 174, No. 3 0021-9193/92/030655-04$02.00/0 Copyright © 1992, American Society for Microbiology MINIREVIEW Catabolite Gene Activator Protein Activation of lac Transcription WILLIAM S. REZNIKOFF Department of Biochemistry, College ofAgricultural and Life Sciences, University of Wisconsin-Madison, 420 Henry Mall, Madison, Wisconsin 53706 CAP ACTIVATION OF lac TRANSCRIPTION upon binding, and this could lead to contact of upstream DNA with RNA polymerase (21, 25). What is the mechanism by which genes are positively Finally, CAP acts as a repressor in some systems (18, 26). regulated? How can several unlinked genes encoding related Since the lac promoter region (and other regulatory regions functions be regulated by a common signal? These are two of such as gal) contains several promoterlike elements which the questions which can be addressed by studying the overlap the promoter (Fig. 1), it was thought that CAP could catabolite gene activator protein (CAP). CAP responds to activate transcription by limiting the access of nonproduc- differences in the availability and nature of carbon sources, tive competitive promoterlike elements to RNA polymerase via variations in the intracellular concentration of cyclic (16). AMP (cAMP). CAP, when complexed with cAMP, is a sequence-specific DNA-binding protein which activates sev- WHY DIRECT CAP-RNA POLYMERASE CONTACTS eral gene systems and represses others. It has been most ARE PROBABLY IMPORTANT FOR lac ACTIVATION extensively studied for Escherichia coli, although closely related proteins exist in other gram-negative bacteria. Several lines of evidence indicate that direct CAP-RNA CAP is an important paradigm for understanding the polymerase contacts play an important role in lac activation. -
Molecular Biology and Applied Genetics
MOLECULAR BIOLOGY AND APPLIED GENETICS FOR Medical Laboratory Technology Students Upgraded Lecture Note Series Mohammed Awole Adem Jimma University MOLECULAR BIOLOGY AND APPLIED GENETICS For Medical Laboratory Technician Students Lecture Note Series Mohammed Awole Adem Upgraded - 2006 In collaboration with The Carter Center (EPHTI) and The Federal Democratic Republic of Ethiopia Ministry of Education and Ministry of Health Jimma University PREFACE The problem faced today in the learning and teaching of Applied Genetics and Molecular Biology for laboratory technologists in universities, colleges andhealth institutions primarily from the unavailability of textbooks that focus on the needs of Ethiopian students. This lecture note has been prepared with the primary aim of alleviating the problems encountered in the teaching of Medical Applied Genetics and Molecular Biology course and in minimizing discrepancies prevailing among the different teaching and training health institutions. It can also be used in teaching any introductory course on medical Applied Genetics and Molecular Biology and as a reference material. This lecture note is specifically designed for medical laboratory technologists, and includes only those areas of molecular cell biology and Applied Genetics relevant to degree-level understanding of modern laboratory technology. Since genetics is prerequisite course to molecular biology, the lecture note starts with Genetics i followed by Molecular Biology. It provides students with molecular background to enable them to understand and critically analyze recent advances in laboratory sciences. Finally, it contains a glossary, which summarizes important terminologies used in the text. Each chapter begins by specific learning objectives and at the end of each chapter review questions are also included. -
Solutions for Practice Problems for Molecular Biology, Session 5
Solutions to Practice Problems for Molecular Biology, Session 5: Gene Regulation and the Lac Operon Question 1 a) How does lactose (allolactose) promote transcription of LacZ? 1) Lactose binds to the polymerase and increases efficiency. 2) Lactose binds to a repressor protein, and alters its conformation to prevent it from binding to the DNA and interfering with the binding of RNA polymerase. 3) Lactose binds to an activator protein, which can then help the RNA polymerase bind to the promoter and begin transcription. 4) Lactose prevents premature termination of transcription by directly binding to and bending the DNA. Solution: 2) Lactose binds to a repressor protein, and alters its conformation to prevent it from binding to the DNA and interfering with the binding of RNA polymerase. b) What molecule is used to signal low glucose levels to the Lac operon regulatory system? 1) Cyclic AMP 2) Calcium 3) Lactose 4) Pyruvate Solution: 1) Cyclic AMP. Question 2 You design a summer class where you recreate experiments studying the lac operon in E. coli (see schematic below). In your experiments, the activity of the enzyme b-galactosidase (β -gal) is measured by including X-gal and IPTG in the growth media. X-gal is a lactose analog that turns blue when metabolisize by b-gal, but it does not induce the lac operon. IPTG is an inducer of the lac operon but is not metabolized by b-gal. I O lacZ Plac Binding site for CAP Pi Gene encoding β-gal Promoter for activator protein Repressor (I) a) Which of the following would you expect to bind to β-galactosidase? Circle all that apply. -
Identification of a Family of Camp Response Element-Binding Protein Coactivators by Genome-Scale Functional Analysis in Mammalian Cells
Identification of a family of cAMP response element-binding protein coactivators by genome-scale functional analysis in mammalian cells Vadim Iourgenko*†, Wenjun Zhang*†, Craig Mickanin*, Ira Daly*, Can Jiang*, Jonathan M. Hexham*, Anthony P. Orth‡, Loren Miraglia‡, Jodi Meltzer*, Dan Garza*, Gung-Wei Chirn*, Elizabeth McWhinnie*, Dalia Cohen*, Joanne Skelton*, Robert Terry*, Yang Yu*, Dale Bodian*, Frank P. Buxton*, Jian Zhu*, Chuanzheng Song*, and Mark A. Labow*§ *Department of Functional Genomics, Novartis Institute for Biomedical Research, 100 Technology Square, Cambridge, MA 02139; and ‡Genomics Institute, Novartis Research Foundation, 10675 John Jay Hopkins Drive, Suite F117, San Diego, CA 92121 Edited by Peter K. Vogt, The Scripps Research Institute, La Jolla, CA, and approved July 30, 2003 (received for review May 8, 2003) This report describes an unbiased method for systematically de- of screening data and further experiments demonstrated that the termining gene function in mammalian cells. A total of 20,704 IL-8 promoter contained an unrecognized cAMP response predicted human full-length cDNAs were tested for induction of element (CRE)-like element that was activated by a protein, the IL-8 promoter. A number of genes, including those for cyto- termed transducer of regulated cAMP response element-binding kines, receptors, adapters, kinases, and transcription factors, were protein (CREB) TORC1, which is the founding member of a identified that induced the IL-8 promoter through known regula- conserved family of CREB coactivators. Thus, screening of tory sites. Proteins that acted through a cooperative interaction arrayed cDNAs represents an unbiased approach for identifica- between an AP-1 and an unrecognized cAMP response element tion of gene function and elucidation of pathways that regulate (CRE)-like site were also identified. -
Tuning an Activator-Repressor Clock Employing Retroactivity
Tuning an Activator-Repressor Clock Employing Retroactivity Alexander Rosenberg∗, Shridhar Jayanthiy and Domitilla Del Vecchioz ∗Electrical Engineering Dept., University of Washington, Seattle WA 98195 yElectrical Engineering and Computer Science Dept., University of Michigan, Ann Arbor MI 48109 zDept. of Mechanical Engineering, Massachusetts Institute of Technology, Cambridge MA 02139 Abstract— Activator-repressor systems have been shown to (a) Activator-Repressor Motif be capable of oscillations and are therefore an important clock motif in the field of Synthetic and Systems Biology. In this paper, we propose a method to regulate oscillatory behavior in such systems by the addition of DNA binding sites for the proteins involved in the clock network. We show that the retroactivity (b) Activator-Repressor with Activator Binding Sites effect caused by this addition can effectively change the relative timescales among the protein dynamics and impact the behavior of the clock. We also employ root locus analysis to obtain a graphical interpretation of the results. I. INTRODUCTION (c) Activator-Repressor with Repressor Binding Sites The design and analysis of oscillating modules is im- portant in the fields of Systems and Synthetic Biology as it enables the understanding of oscillator mechanisms that regulate essential natural processes, such as the cell cycle [1] or circadian clocks [2]. Oscillators are also a useful module in Synthetic Biology as they allow for synchroniza- Fig. 1. Diagram (a) illustrates the activator-repressor motif. Diagram (b) tion of different modules leading to more complex design and (c) illustrate the systems after the addition of DNA binding sites with affinity to the activator and the repressor respectively. -
How Do Eukaryotie Activator Proteins Stimulate the Rate of Transcription by RNA Polymerase II?
Volunle 307, number 1, 81-86 FEBS 11244 July 1992 0 1992 Federation of European Biochemical Societies 00145793/92/~5.00 Minireview How do eukaryotie activator proteins stimulate the rate of transcription by RNA polymerase II? Jonathan Ham, Gertrud Steger and Moshe Yaniv Uniti des Wrus Otrcog~nes, DGpurtemetrtdes Biotecbtologies, Institut Pusteur, _35 rue du Dr. Ram, 75724 Park Cedex 15, France Received 18 May t992 A large number of activator proteins have now been identified in higher and lower eukaryotes, which bind to the regulatory rcpjons of protein. encoding genes and increase the rate at which tbcy are transcribed by RNA polymerasc II. The mechanism by which activators function is being intensively studied and some of the targets of transcriptional activation domains have now been identified. These studies have also revealed novel classes of regulatory factors, which were not anticipated by extrapolating from the principles obtaira!! with prokaryotic promoters. Activator: RNA polymerasc 11; Mechauism of activation; General transcription faclor; Coactivalor 1. INTRODUCTION 2. THE TRANSCRlPTION INITIATION COM- PLEX A major goal in the field of eukaryotic gene regula- tion is to understand how the activator proteins that The region of a promoter in which the RNA polym- bind to the upstream promoter elements and enhancers erase 11 transcription initiation complex is assembled of RNA polymerase II-dependent genes stimulate the Aridwhere transcription initiates is known as the core rate at which these genes are transcribed. RNA polym- or minimal promoter (Fig. 1). Usually this contains a erase II is unable to recognize promoters on its own and TATA box sequence [3], which specifies the direction of is assisted by a number of accessory proteins, referred transcription and the site of initiaiion, and which will to as the general transcription factors. -
A STAT Protein Domain That Determines DNA Sequence Recognition Suggests a Novel DNA-Binding Domain
Downloaded from genesdev.cshlp.org on September 25, 2021 - Published by Cold Spring Harbor Laboratory Press A STAT protein domain that determines DNA sequence recognition suggests a novel DNA-binding domain Curt M. Horvath, Zilong Wen, and James E. Darnell Jr. Laboratory of Molecular Cell Biology, The Rockefeller University, New York, New York 10021 Statl and Stat3 are two members of the ligand-activated transcription factor family that serve the dual functions of signal transducers and activators of transcription. Whereas the two proteins select very similar (not identical) optimum binding sites from random oligonucleotides, differences in their binding affinity were readily apparent with natural STAT-binding sites. To take advantage of these different affinities, chimeric Statl:Stat3 molecules were used to locate the amino acids that could discriminate a general binding site from a specific binding site. The amino acids between residues -400 and -500 of these -750-amino-acid-long proteins determine the DNA-binding site specificity. Mutations within this region result in Stat proteins that are activated normally by tyrosine phosphorylation and that dimerize but have greatly reduced DNA-binding affinities. [Key Words: STAT proteins; DNA binding; site selection] Received January 6, 1995; revised version accepted March 2, 1995. The STAT (signal transducers and activators if transcrip- Whereas oligonucleotides representing these selected se- tion) proteins have the dual purpose of, first, signal trans- quences exhibited slight binding preferences, the con- duction from ligand-activated receptor kinase com- sensus sites overlapped sufficiently to be recognized by plexes, followed by nuclear translocation and DNA bind- both factors. However, by screening different natural ing to activate transcription (Darnell et al. -
Regulated Expression of the GAL4 Activator Gene in Yeast Provides a Sensitive Genetic Switch for Glucose Repression (Repressors/Weak Promoters/Synergism) DAVID W
Proc. Natl. Acad. Sci. USA Vol. 88, pp. 8597-8601, October 1991 Genetics Regulated expression of the GAL4 activator gene in yeast provides a sensitive genetic switch for glucose repression (repressors/weak promoters/synergism) DAVID W. GRIGGS AND MARK JOHNSTON Department of Genetics, Washington University School of Medicine, St. Louis, MO 63110 Communicated by Ronald W. Davis, June 21, 1991 ABSTRACT Glucose (catabolite) repression is mediated is presumably due to unidentified repressors that bind to this by multiple mechanisms that combine to regulate transcription region. of the GAL genes over at least a thousandfold range. We have UAS-mediated repression is characterized by the failure of determined that this is due predominantly to modest glucose GAL4 to bind the UAS in cells growing in the presence of repression (4- to 7-fold) of expression of GAL4, the gene glucose (6, 7). This could be due to glucose-induced modifi- encoding the transcriptional activator of the GAL genes. GALA cations ofGAL4 that affect DNA binding, to glucose-induced regulation is affected by mutations in several genes previously proteolysis of the GAL4 protein, or to glucose repression of implicated in the glucose repression pathway; it is not depen- GALA gene expression. We describe experiments that show dent on GAL4 or GAL80 protein function. GALA promoter that GALA expression is modestly reduced by glucose sequences that mediate glucose repression were found to lie through the action of specific negatively acting elements in downstream of positively acting elements that may be "TATA the GALA promoter. The resulting reduction in intracellular boxes." Two nearly identical sequences (10/12 base pairs) in GAL4 activator levels leads to a greatly amplified effect on this region that may be binding sites for the MIG1 protein were expression of GAL] and accounts for a substantial portion of identified as functional glucose-control elements.