Role of Heat Shock Transcription Factor 1 in Ovarian Cancer

Total Page:16

File Type:pdf, Size:1020Kb

Role of Heat Shock Transcription Factor 1 in Ovarian Cancer University of South Florida Scholar Commons Graduate Theses and Dissertations Graduate School November 2017 Role of Heat Shock Transcription Factor 1 in Ovarian Cancer Epithelial-Mesenchymal Transition and Drug Sensitivity Chase David Powell University of South Florida, [email protected] Follow this and additional works at: http://scholarcommons.usf.edu/etd Part of the Cell Biology Commons, Molecular Biology Commons, and the Oncology Commons Scholar Commons Citation Powell, Chase David, "Role of Heat Shock Transcription Factor 1 in Ovarian Cancer Epithelial-Mesenchymal Transition and Drug Sensitivity" (2017). Graduate Theses and Dissertations. http://scholarcommons.usf.edu/etd/7079 This Dissertation is brought to you for free and open access by the Graduate School at Scholar Commons. It has been accepted for inclusion in Graduate Theses and Dissertations by an authorized administrator of Scholar Commons. For more information, please contact [email protected]. Role of Heat Shock Transcription Factor 1 in Ovarian Cancer Epithelial-Mesenchymal Transition and Drug Sensitivity by Chase David Powell A dissertation submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy Department of cell Biology, Microbiology, and Molecular Biology College of Arts and Sciences University of South Florida Major Professor: Sandy D. Westerheide, Ph.D. Brant R. Burkhardt, Ph.D. Younghoon Kee, Ph.D Meera Nanjundan, Ph.D Date of Approval: November 3, 2017 Keywords: Heat Shock Factor 1, Ovarian Cancer, Epithelial to Mesenchymal Transition, Transforming Growth Factor β, HSP90 Inhibitors, Spheroid Culture, Intrinsic Disorder Copyright © 2017, Chase D. Powell DEDICATION I would like to dedicate this work to my wife, Anne T Powell, for all of her support, patience, and love. To my children Elise, Madeleine, Aidan, and Ethan for the encouragement and inspiration they have provided me. To my parents Christina and Chris Simcox for their continued belief in me. And lastly, to my mentor Sandy D. Westerheide for allowing me the opportunity to learn. ACKNOWLEDGMENTS I would like to acknowledge my committee members, Brant Burkhardt, Ph.D., Younghoon Kee, Ph.D., and Meera Nanjundan Ph.D. for their guidance and understanding. I would most especially like to acknowledge my major professor, Sandy D. Westerheide, Ph.D., for her infinite patience. TABLE OF CONTENTS List of Tables…………………………………………………………………………………………… .. iv List of Figures…………………………………………………………………………………………….. v Abstract………………………………………………………………………………………………… .. vii Chapter One: Introduction………… ............................................................................................. 1 Discovery of the Heat Shock Response ........................................................................... 1 Regulation of the Heat Shock Response by HSF1 .......................................................... 2 Overview of Heat Shock Response Regulation by HSF1 ..................................... 2 Activation of the HSR ........................................................................................... 3 Repression of the HSR ........................................................................................ 5 HSF1 Regulated Response……………. .......................................................................... 7 Heat Shock Proteins………… .............................................................................. 7 HSP27 ..................................................................................................... 7 HSP40 ..................................................................................................... 8 HSP70 ..................................................................................................... 8 HSP90 ..................................................................................................... 8 HSP110 .................................................................................................... 8 Other Cytoprotective Functions……………. ......................................................... 9 Role of HSF1 in Cancer………… ................................................................................... 11 Ovarian Cancer……………. ........................................................................................... 12 Ovarian Cancer Types…………………… ........................................................... 12 Treatments….. ................................................................................................... 13 Epithelial to Mesenchymal Transition……………. .............................................. 13 Spheroid Model .................................................................................................. 15 Transforming Growth Factor β…… .................................................................... 15 Studies………………………. ......................................................................................... 16 Chapter Two: Intrinsic Disorder in the HSF Transcription Factor Family and Molecular Chaperones……………………………….. .............................................................................. 19 Abstract………………….. .............................................................................................. 19 Intrinsically Disordered Proteins: General Overview ...................................................... 20 Intrinsic Disorder and Transcription Regulation ............................................................. 22 An Overview of Intrinsic Disorder in Chaperones .......................................................... 25 The Heat Shock Response ........................................................................................... 28 HSF1- The Master Heat Shock Response Regulator ..................................................... 29 Domains of HSF1……………......................................................................................... 29 DNA Binding Domain ......................................................................................... 30 Trimerization Domain ......................................................................................... 31 Transactivation Domain ..................................................................................... 31 Regulatory Domain ............................................................................................ 32 i Conservation of HSF Across Different Species ............................................................. 32 Alternative Splicing of HSF1 .......................................................................................... 33 Post-Translational Modifications Regulate HSF1 Transcriptional Activity ....................... 33 Phosphorylation ................................................................................................. 33 Sumoylation…………….. ................................................................................... 35 Acetylation……………… .................................................................................... 35 A Correlation between Intrinsic Disorder and Post Translational Modifications .............. 36 HSF1 as an Interaction Hub .......................................................................................... 38 Other Heat Shock Transcription Family Members ......................................................... 40 HSF2………………… ......................................................................................... 40 HSF4…………………... ...................................................................................... 41 HSF3, 5, X and Y ............................................................................................... 42 Chapter Three: The Heat Shock Transcription Factor HSF1 Induces Ovarian Cancer Epithelial-Mesenchymal Transition in a 3D Spheroid Growth Model ......................... 53 Abstract…………………………….. ................................................................................ 53 Introduction……………………… .................................................................................... 54 Materials and Methods .................................................................................................. 56 HSF1 Copy Number, Expression Determination and Survival Analysis .............. 56 Cell Culture and Treatments .......................................................................... 56 Lentiviral Creation and Infection for Stable, Inducible shRNA-Mediated HSF1 Knockdown .......................................................................................... 57 Protein isolation, SDS-PAGE, and Western analysis ......................................... 57 Cell Viability Assay ............................................................................................. 58 Clonogenic Assay .............................................................................................. 58 Wound Healing Assay ........................................................................................ 59 Cell Migration ................................................................................................... 59 Spheroid Formation ........................................................................................... 59 Quantitative RT-PCR ......................................................................................... 60 Results……………………….. ........................................................................................ 60 HSF1 is Overexpressed in Ovarian Cancer ........................................................ 60 Establishment of SKOV3
Recommended publications
  • Experimental Chronic Jet Lag Promotes Growth and Lung Metastasis of Lewis Lung Carcinoma in C57BL/6 Mice
    ONCOLOGY REPORTS 27: 1417-1428, 2012 Experimental chronic jet lag promotes growth and lung metastasis of Lewis lung carcinoma in C57BL/6 mice 1,2,6 1,3 1,4 1,2 1,5 MINGWEI WU , JING ZENG , YANFENG CHEN , ZHAOLEI ZENG , JINXIN ZHANG , YUCHEN CAI1,2, YANLI YE1,2, LIWU FU1,2, LIJIAN XIAN1,2 and ZHONGPING CHEN1,6 1 2 3 4 State Key Laboratory of Oncology in South China; Departments of Research, Pathology, and Head and Neck Cancer, Cancer Center, Sun Yat-Sen University; 5Department of Medical Statistics and Epidemiology, Sun Yat-Sen University; 6Department of Neurosurgery, Cancer Center, Sun Yat-Sen University, Guangzhou, Guangdong, P.R. China Received December 8, 2011; Accepted January 17, 2012 DOI: 10.3892/or.2012.1688 Abstract. Circadian rhythm has been linked to cancer genesis are governed by a biological clock. The mammalian circadian and development, but the detailed mechanism by which circa- clock contains three components: input pathways, a central dian disruption accelerates tumor growth remains unclear. The pacemaker and output pathways. The mammalian central purpose of this study was to investigate the effect of circadian pacemaker is located in the suprachiasmatic nuclei (SCN) disruption on tumor growth and metastasis in male C57BL/6 of the anterior hypothalamus and controls the activity of the mice, using an experimental chronic jet lag model. Lewis lung peripheral clocks through the neuroendocrine and autonomic carcinoma cells were inoculated into both flanks of the mice nervous systems (1,2). Circadian rhythms govern the rhythmic following 10 days of exposure to experimental chronic jet lag changes in the behavior and/or physiology of mammals, such or control conditions.
    [Show full text]
  • A Computational Approach for Defining a Signature of Β-Cell Golgi Stress in Diabetes Mellitus
    Page 1 of 781 Diabetes A Computational Approach for Defining a Signature of β-Cell Golgi Stress in Diabetes Mellitus Robert N. Bone1,6,7, Olufunmilola Oyebamiji2, Sayali Talware2, Sharmila Selvaraj2, Preethi Krishnan3,6, Farooq Syed1,6,7, Huanmei Wu2, Carmella Evans-Molina 1,3,4,5,6,7,8* Departments of 1Pediatrics, 3Medicine, 4Anatomy, Cell Biology & Physiology, 5Biochemistry & Molecular Biology, the 6Center for Diabetes & Metabolic Diseases, and the 7Herman B. Wells Center for Pediatric Research, Indiana University School of Medicine, Indianapolis, IN 46202; 2Department of BioHealth Informatics, Indiana University-Purdue University Indianapolis, Indianapolis, IN, 46202; 8Roudebush VA Medical Center, Indianapolis, IN 46202. *Corresponding Author(s): Carmella Evans-Molina, MD, PhD ([email protected]) Indiana University School of Medicine, 635 Barnhill Drive, MS 2031A, Indianapolis, IN 46202, Telephone: (317) 274-4145, Fax (317) 274-4107 Running Title: Golgi Stress Response in Diabetes Word Count: 4358 Number of Figures: 6 Keywords: Golgi apparatus stress, Islets, β cell, Type 1 diabetes, Type 2 diabetes 1 Diabetes Publish Ahead of Print, published online August 20, 2020 Diabetes Page 2 of 781 ABSTRACT The Golgi apparatus (GA) is an important site of insulin processing and granule maturation, but whether GA organelle dysfunction and GA stress are present in the diabetic β-cell has not been tested. We utilized an informatics-based approach to develop a transcriptional signature of β-cell GA stress using existing RNA sequencing and microarray datasets generated using human islets from donors with diabetes and islets where type 1(T1D) and type 2 diabetes (T2D) had been modeled ex vivo. To narrow our results to GA-specific genes, we applied a filter set of 1,030 genes accepted as GA associated.
    [Show full text]
  • UNIVERSITY of CALIFORNIA, IRVINE Combinatorial Regulation By
    UNIVERSITY OF CALIFORNIA, IRVINE Combinatorial regulation by maternal transcription factors during activation of the endoderm gene regulatory network DISSERTATION submitted in partial satisfaction of the requirements for the degree of DOCTOR OF PHILOSOPHY in Biological Sciences by Kitt D. Paraiso Dissertation Committee: Professor Ken W.Y. Cho, Chair Associate Professor Olivier Cinquin Professor Thomas Schilling 2018 Chapter 4 © 2017 Elsevier Ltd. © 2018 Kitt D. Paraiso DEDICATION To the incredibly intelligent and talented people, who in one way or another, helped complete this thesis. ii TABLE OF CONTENTS Page LIST OF FIGURES vii LIST OF TABLES ix LIST OF ABBREVIATIONS X ACKNOWLEDGEMENTS xi CURRICULUM VITAE xii ABSTRACT OF THE DISSERTATION xiv CHAPTER 1: Maternal transcription factors during early endoderm formation in 1 Xenopus Transcription factors co-regulate in a cell type-specific manner 2 Otx1 is expressed in a variety of cell lineages 4 Maternal otx1 in the endodermal conteXt 5 Establishment of enhancers by maternal transcription factors 9 Uncovering the endodermal gene regulatory network 12 Zygotic genome activation and temporal control of gene eXpression 14 The role of maternal transcription factors in early development 18 References 19 CHAPTER 2: Assembly of maternal transcription factors initiates the emergence 26 of tissue-specific zygotic cis-regulatory regions Introduction 28 Identification of maternal vegetally-localized transcription factors 31 Vegt and OtX1 combinatorially regulate the endodermal 33 transcriptome iii
    [Show full text]
  • The Many Roles of MITF in Melanoma
    e Cell Bio gl lo n g i y S Vachtenheim, Single Cell Biol 2017, 6:2 Single-Cell Biology DOI: 10.4172/2168-9431.1000162 ISSN: 2168-9431 Mini Review Open Access The Many Roles of MITF in Melanoma Jiri Vachtenheim* Department of Transcription and Cell Signaling, Institute of Medical Biochemistry and Laboratory Diagnostics, First Faculty of Medicine, Charles University and General University Hospital Prague, Czech Republic Abstract Microphthalmia-associated transcription factor (MITF) plays pivotal role in the maintenance of the melanocyte lineage, differentiation of normal and malignant melanocytes and the survival of melanoma cells. MITF regulates expression of many genes with critical functions in cell differentiation, proliferation, and pro-survival properties. Melanoma is an extremely resilient tumor for which no effective therapy exists when the tumor progresses into metastasis. Melanoma is a heterogenous tumor in which the microheterogeneity arises already in the first stages of the tumor development. Because the dependence of the melanocyte lineage on MITF is critical, MITF is regarded as the paradigmatic lineage-addiction oncogene and its gene is amplified in a smaller subset of melanomas. The level of MITF protein greatly differs among the tumor cells. Intriguingly, low MITF level cells are slowly proliferating but constitute an invasive subpopulation of tumor cells. In this minireview, I briefly discuss the many roles and activities of MITF in melanoma cells and the future prospects for melanoma therapy. Keywords: MITF; Melanoma; Phenotype switching; Melanoma was shown to be the necessary epigenetic transcriptional coactivator of proliferation; Differentiation; Invasion; Apoptosis MITF [21] and some of MITF targets [22]. Introduction Importance of MITF for Melanoma Differentiation and Malignant melanoma is a highly aggressive skin cancer, the Proliferation incidence of which is steadily on the rise.
    [Show full text]
  • KRAS Drives Immune Evasion in a Genetic Model of Pancreatic Cancer
    ARTICLE https://doi.org/10.1038/s41467-021-21736-w OPEN KRAS drives immune evasion in a genetic model of pancreatic cancer Irene Ischenko1, Stephen D’Amico1, Manisha Rao2, Jinyu Li2, Michael J. Hayman1, Scott Powers 2, ✉ ✉ Oleksi Petrenko 1,3 & Nancy C. Reich 1,3 Immune evasion is a hallmark of KRAS-driven cancers, but the underlying causes remain unresolved. Here, we use a mouse model of pancreatic ductal adenocarcinoma to inactivate 1234567890():,; KRAS by CRISPR-mediated genome editing. We demonstrate that at an advanced tumor stage, dependence on KRAS for tumor growth is reduced and is manifested in the sup- pression of antitumor immunity. KRAS-deficient cells retain the ability to form tumors in immunodeficient mice. However, they fail to evade the host immune system in syngeneic wild-type mice, triggering strong antitumor response. We uncover changes both in tumor cells and host immune cells attributable to oncogenic KRAS expression. We identify BRAF and MYC as key mediators of KRAS-driven tumor immune suppression and show that loss of BRAF effectively blocks tumor growth in mice. Applying our results to human PDAC we show that lowering KRAS activity is likewise associated with a more vigorous immune environment. 1 Department of Molecular Genetics and Microbiology, Stony Brook University, Stony Brook, NY, USA. 2 Department of Pathology, Stony Brook University, ✉ Stony Brook, NY, USA. 3These authors jointly supervised this work: Oleksi Petrenko, Nancy C. Reich. email: [email protected]; [email protected] NATURE COMMUNICATIONS | (2021) 12:1482 | https://doi.org/10.1038/s41467-021-21736-w | www.nature.com/naturecommunications 1 ARTICLE NATURE COMMUNICATIONS | https://doi.org/10.1038/s41467-021-21736-w RAS is frequently associated with some of the deadliest and characterization of KRASG12D p53KO mouse cell lines forms of cancer.
    [Show full text]
  • The Global Gene Expression Profile of the Secondary Transition During Pancreatic Development
    ÔØ ÅÒÙ×Ö ÔØ The global gene expression profile of the secondary transition during pancre- atic development Stefanie J. Willmann, Nikola S. Mueller, Silvia Engert, Michael Sterr, Ingo Burtscher, Aurelia Raducanu, Martin Irmler, Johannes Beckers, Steffen Sass, Fabian J. Theis, Heiko Lickert PII: S0925-4773(15)30037-X DOI: doi: 10.1016/j.mod.2015.11.004 Reference: MOD 3386 To appear in: Received date: 19 June 2015 Revised date: 26 November 2015 Accepted date: 27 November 2015 Please cite this article as: Willmann, Stefanie J., Mueller, Nikola S., Engert, Sil- via, Sterr, Michael, Burtscher, Ingo, Raducanu, Aurelia, Irmler, Martin, Beckers, Johannes, Sass, Steffen, Theis, Fabian J., Lickert, Heiko, The global gene expres- sion profile of the secondary transition during pancreatic development, (2015), doi: 10.1016/j.mod.2015.11.004 This is a PDF file of an unedited manuscript that has been accepted for publication. As a service to our customers we are providing this early version of the manuscript. The manuscript will undergo copyediting, typesetting, and review of the resulting proof before it is published in its final form. Please note that during the production process errors may be discovered which could affect the content, and all legal disclaimers that apply to the journal pertain. ACCEPTED MANUSCRIPT The global gene expression profile of the secondary transition during pancreatic development Stefanie J. Willmann*1,5, Nikola S. Mueller*2, Silvia Engert1, Michael Sterr1, Ingo Burtscher1, Aurelia Raducanu1, Martin Irmler3, Johannes Beckers3,4,5,
    [Show full text]
  • The Molecular Mechanisms by Which Vitamin D Prevents Insulin Resistance and Associated Disorders
    International Journal of Molecular Sciences Review The Molecular Mechanisms by Which Vitamin D Prevents Insulin Resistance and Associated Disorders Izabela Szymczak-Pajor 1 ,Józef Drzewoski 2 and Agnieszka Sliwi´ ´nska 1,* 1 Department of Nucleic Acid Biochemistry, Medical University of Lodz, 251 Pomorska Str., 92-213 Lodz, Poland; [email protected] 2 Central Teaching Hospital of the Medical University of Lodz, 251 Pomorska Str., 92-213 Lodz, Poland; [email protected] * Correspondence: [email protected] Received: 9 August 2020; Accepted: 9 September 2020; Published: 11 September 2020 Abstract: Numerous studies have shown that vitamin D deficiency is very common in modern societies and is perceived as an important risk factor in the development of insulin resistance and related diseases such as obesity and type 2 diabetes (T2DM). While it is generally accepted that vitamin D is a regulator of bone homeostasis, its ability to counteract insulin resistance is subject to debate. The goal of this communication is to review the molecular mechanism by which vitamin D reduces insulin resistance and related complications. The university library, PUBMED, and Google Scholar were searched to find relevant studies to be summarized in this review article. Insulin resistance is accompanied by chronic hyperglycaemia and inflammation. Recent studies have shown that vitamin D exhibits indirect antioxidative properties and participates in the maintenance of normal resting ROS level. Appealingly, vitamin D reduces inflammation and regulates Ca2+ level in many cell types. Therefore, the beneficial actions of vitamin D include diminished insulin resistance which is observed as an improvement of glucose and lipid metabolism in insulin-sensitive tissues.
    [Show full text]
  • Transcriptional Regulator Zeb2 Is Essential for Bergmann Glia Development
    This Accepted Manuscript has not been copyedited and formatted. The final version may differ from this version. Research Articles: Development/Plasticity/Repair Transcriptional Regulator Zeb2 is Essential for Bergmann Glia Development Li He1, Kun Yu1, Fanghui Lu2, Jiajia Wang3, Laiman N. Wu2, Chuntao Zhao2, Qianmei Li1, Xianyao Zhou1, Hanmin Liu1, Dezhi Mu1, Mei Xin2, Mengsheng Qiu4,5 and Q. Richard Lu2 1Key Laboratory of Birth Defects and Related Diseases of Women and Children of Ministry of Education, Department of Pediatrics, West China Second University Hospital, Sichuan University, Chengdu 610041, China 2Department of Pediatrics, Division of Experimental Hematology and Cancer Biology, Cincinnati Children's Hospital Medical Center, University of Cincinnati, Cincinnati, Ohio, USA 3Institute of Pharmacology & Toxicology, Zhejiang Province Key Laboratory of Anti-Cancer Drug Research, College of Pharmaceutical Sciences, Zhejiang University, Hangzhou, China. 4Institute of Developmental and Regenerative Biology, Key Laboratory of Organ Development and Regeneration of Zhejiang Province, College of Life Sciences, Hangzhou Normal University, Hangzhou, 310029, China 5Department of Anatomical Sciences and Neurobiology, University of Louisville, Louisville, Kentucky 40292, USA DOI: 10.1523/JNEUROSCI.2674-17.2018 Received: 13 September 2017 Revised: 25 December 2017 Accepted: 5 January 2018 Published: 11 January 2018 Author contributions: L.H., D.M., M.X., and Q.R.L. designed research; L.H., K.Y., F.L., J.W., L.W., and C.Z. performed research; K.Y., J.W., L.W., Q.L., X.Z., H.L., D.M., M.Q., and Q.R.L. analyzed data; F.L., C.Z., Q.L., X.Z., H.L., and M.Q. contributed unpublished reagents/analytic tools; M.X.
    [Show full text]
  • Dependent Translational Regulation of the Epithelial
    RESEARCH ARTICLE KSR1- and ERK- dependent translational regulation of the epithelial- to- mesenchymal transition Chaitra Rao1, Danielle E Frodyma1, Siddesh Southekal2, Robert A Svoboda3, Adrian R Black1, Chittibabu Guda2, Tomohiro Mizutani4, Hans Clevers4, Keith R Johnson1,5, Kurt W Fisher3, Robert E Lewis1* 1Eppley Institute, University of Nebraska Medical Center, Omaha, United States; 2Department of Genetics, Cell Biology and Anatomy, University of Nebraska Medical Center, Omaha, United States; 3Department of Pathology and Microbiology, University of Nebraska Medical Center, Omaha, United States; 4Hubrecht Institute, Royal Netherlands Academy of Arts and Sciences (KNAW) and UMC Utrecht, Utrecht, Netherlands; 5Department of Oral Biology, University of Nebraska Medical Center, Omaha, United States Abstract: The epithelial- to- mesenchymal transition (EMT) is considered a transcriptional process that induces a switch in cells from a polarized state to a migratory phenotype. Here, we show that KSR1 and ERK promote EMT- like phenotype through the preferential translation of Epithelial- Stromal Interaction 1 (EPSTI1), which is required to induce the switch from E- to N- cadherin and coordinate migratory and invasive behavior. EPSTI1 is overexpressed in human colorectal cancer (CRC) cells. Disruption of KSR1 or EPSTI1 significantly impairs cell migration and invasion in vitro, and reverses EMT- like phenotype, in part, by decreasing the expression of N- cadherin and the transcriptional repressors of E- cadherin expression, ZEB1 and Slug. In CRC cells lacking KSR1, ectopic EPSTI1 expression restored the E- to N- cadherin switch, migration, invasion, and anchorage- independent growth. KSR1- dependent induction of EMT- like phenotype via selective translation of *For correspondence: mRNAs reveals its underappreciated role in remodeling the translational landscape of CRC cells to rlewis@ unmc.
    [Show full text]
  • Zeb2 Chip-Seq in Stem Cells Zeb2 DNA-Binding Sites in ES Cell
    bioRxiv preprint doi: https://doi.org/10.1101/2021.07.06.451350; this version posted July 6, 2021. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. Zeb2 ChIP-seq in stem cells Zeb2 DNA-binding sites in ES cell derived neuroprogenitor cells reveal autoregulation and align with neurodevelopmental knockout mouse and disease phenotypes. Judith C. Birkhoff1, Anne L. Korporaal1, Rutger W.W. Brouwer2, Claudia Milazzo1#, Lidia Mouratidou1, Mirjam C.G.N. van den Hout2, Wilfred F.J. van IJcken1,2, Danny Huylebroeck1,3*, $, Andrea Conidi1*, $ 1 Dept. Cell Biology, Erasmus University Medical Center, Rotterdam, 3015 CN, The Netherlands; 2 Center for Biomics-Genomics, Erasmus University Medical Center, Rotterdam 3015 CN, The Netherlands; 3 Dept. Development and Regeneration, KU Leuven, Leuven 3000, Belgium * shared senior authors # Present address: Dept. Clinical Genetics, Erasmus University Medical Center, Rotterdam, 3015 CN, The Netherlands $ Corresponding author: Andrea Conidi, PhD, Dept. Cell Biology, Erasmus MC, Building Ee - room Ee-1040, Wytemaweg 80, 3015 CN Rotterdam, The Netherlands; Tel: +31-10-7043169; Fax: +31-10-7044743; E-mail: [email protected] 1 bioRxiv preprint doi: https://doi.org/10.1101/2021.07.06.451350; this version posted July 6, 2021. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. Author contributions
    [Show full text]
  • Testis Antigens Defines Obligate Participation in Multiple
    ARTICLE Received 11 May 2015 | Accepted 8 Oct 2015 | Published 16 Nov 2015 DOI: 10.1038/ncomms9840 OPEN Comprehensive functional characterization of cancer–testis antigens defines obligate participation in multiple hallmarks of cancer Kimberly E. Maxfield1,*, Patrick J. Taus1,2,*, Kathleen Corcoran3, Joshua Wooten2, Jennifer Macion1, Yunyun Zhou4, Mark Borromeo5, Rahul K. Kollipara6, Jingsheng Yan1, Yang Xie1,4, Xian-Jin Xie1,4 & Angelique W. Whitehurst1 Tumours frequently activate genes whose expression is otherwise biased to the testis, collectively known as cancer–testis antigens (CTAs). The extent to which CTA expression represents epiphenomena or confers tumorigenic traits is unknown. In this study, to address this, we implemented a multidimensional functional genomics approach that incorporates 7 different phenotypic assays in 11 distinct disease settings. We identify 26 CTAs that are essential for tumor cell viability and/or are pathological drivers of HIF, WNT or TGFb signalling. In particular, we discover that Foetal and Adult Testis Expressed 1 (FATE1) is a key survival factor in multiple oncogenic backgrounds. FATE1 prevents the accumulation of the stress-sensing BH3-only protein, BCL-2-Interacting Killer (BIK), thereby permitting viability in the presence of toxic stimuli. Furthermore, ZNF165 promotes TGFb signalling by directly suppressing the expression of negative feedback regulatory pathways. This action is essential for the survival of triple negative breast cancer cells in vitro and in vivo. Thus, CTAs make significant direct contributions to tumour biology. 1 Simmons Comprehensive Cancer Center, UT-Southwestern Medical Center, Dallas, Texas 75390, USA. 2 Department of Pharmacology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina 27599, USA.
    [Show full text]
  • © 2018 Alexandria Pinto All Rights Reserved
    © 2018 ALEXANDRIA PINTO ALL RIGHTS RESERVED ROLE OF Top2b IN PHOTORECEPTOR GENE REGULATORY NETWORK BY SINGLE-CELL TRANSCRIPTOME ANALYSIS BY ALEXANDRIA PINTO A thesis submitted to the School of Graduate Studies Rutgers, The State University of New Jersey In partial fulfillment of the requirements For the degree of Master of Science Graduate Program in Biomedical Engineering Written under the direction of Li Cai And approved by ___________________________________ ___________________________________ ___________________________________ ___________________________________ New Brunswick, New Jersey May, 2018 ABSTRACT OF THE THESIS ROLE OF Top2b IN PHOTORECEPTOR GENE REGULATORY NETWORK BY SINGLE-CELL TRANSCRIPTOME ANALYSIS By ALEXANDRIA PINTO Thesis Director: Dr. Li Cai TOP2B is an enzyme that allows for access to the DNA strand for gene transcription. During development, TOP2B is found in cells which have finished mitosis and proliferation, suggesting its function in cell differentiation. Previously, bulk RNA-seq analysis of the retina revealed TOP2B controls expression of genes in the photoreceptor gene-regulatory network. However, bulk RNA-seq does not allow for direct analysis of individual cells to identify the role of TOP2B in photoreceptor cell differentiation. The central hypothesis is that grouping cells based on the photoreceptor gene regulatory network and applying bioinformatics analysis to the data can show that TOP2B plays an essential role in proper photoreceptor differentiation. In this study, we preform bioinformatics analysis on publically available single-cell RNA-seq (scRNA-seq) dataset of postnatal day 14 mouse retina (GSE63473) to determine to role of TOP2B in the photoreceptor gene regulatory network and identify novel genes which contribute to this pathway. Analysis of photoreceptor scRNA-seq data reveals that TOP2B expression is ii correlated with the expression of photoreceptor marker genes, confirming its role in photoreceptor differentiation.
    [Show full text]