Smad Regulation in TGF-(Beta) Signal Transduction
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Molecular Cytogenetic Analysis for TFE3 Rearrangement In
Modern Pathology (2014) 27, 113–127 & 2014 USCAP, Inc. All rights reserved 0893-3952/14 $32.00 113 Molecular cytogenetic analysis for TFE3 rearrangement in Xp11.2 renal cell carcinoma and alveolar soft part sarcoma: validation and clinical experience with 75 cases Jennelle C Hodge, Kathryn E Pearce, Xiaoke Wang, Anne E Wiktor, Andre M Oliveira and Patricia T Greipp Department of Laboratory Medicine and Pathology, Mayo Clinic, Rochester, MN, USA Renal cell carcinoma with TFE3 rearrangement at Xp11.2 is a distinct subtype manifesting an indolent clinical course in children, with recent reports suggesting a more aggressive entity in adults. This subtype is morphologically heterogeneous and can be misclassified as clear cell or papillary renal cell carcinoma. TFE3 is also rearranged in alveolar soft part sarcoma. To aid in diagnosis, a break-apart strategy fluorescence in situ hybridization (FISH) probe set specific for TFE3 rearrangement and a reflex dual-color, single-fusion strategy probe set involving the most common TFE3 partner gene, ASPSCR1, were validated on formalin-fixed, paraffin- embedded tissues from nine alveolar soft part sarcoma, two suspected Xp11.2 renal cell carcinoma, and nine tumors in the differential diagnosis. The impact of tissue cut artifact was reduced through inclusion of a chromosome X centromere control probe. Analysis of the UOK-109 renal carcinoma cell line confirmed the break-apart TFE3 probe set can distinguish the subtle TFE3/NONO fusion-associated inversion of chromosome X. Subsequent extensive clinical experience was gained through analysis of 75 cases with an indication of Xp11.2 renal cell carcinoma (n ¼ 54), alveolar soft part sarcoma (n ¼ 13), perivascular epithelioid cell neoplasms (n ¼ 2), chordoma (n ¼ 1), or unspecified (n ¼ 5). -
Nedd4 and Nedd4-2: Closely Related Ubiquitin-Protein Ligases with Distinct Physiological Functions
Cell Death and Differentiation (2010) 17, 68–77 & 2010 Macmillan Publishers Limited All rights reserved 1350-9047/10 $32.00 www.nature.com/cdd Review Nedd4 and Nedd4-2: closely related ubiquitin-protein ligases with distinct physiological functions B Yang*,1 and S Kumar*,2 The Nedd4 (neural precursor cell-expressed developmentally downregulated gene 4) family of ubiquitin ligases (E3s) is characterized by a distinct modular domain architecture, with each member consisting of a C2 domain, 2–4 WW domains, and a HECT-type ligase domain. Of the nine mammalian members of this family, Nedd4 and its close relative, Nedd4-2, represent the ancestral ligases with strong similarity to the yeast, Rsp5. In Saccharomyces cerevisiae Rsp5 has a key role in regulating the trafficking, sorting, and degradation of a large number of proteins in multiple cellular compartments. However, in mammals the Nedd4 family members, including Nedd4 and Nedd4-2, appear to have distinct functions, thereby suggesting that these E3s target specific proteins for ubiquitylation. In this article we focus on the biology and emerging functions of Nedd4 and Nedd4-2, and review recent in vivo studies on these E3s. Cell Death and Differentiation (2010) 17, 68–77; doi:10.1038/cdd.2009.84; published online 26 June 2009 Ubiquitylation controls biological signaling in many different ubiquitin-protein ligase (E3). A protein can be monoubiquity- ways.1,2 For example, the ubiquitylation of a misfolded or lated, multi-monoubiquitylated, or polyubiquitylated, and the damaged protein leads to its degradation by the 26S type of ubiquitylation determines the fate of the protein.1,2 proteasome before it can get to its subcellular site where it Ubiquitin itself contains seven lysine residues, all of which can normally functions. -
Renal Cell Carcinoma – Detection of PRCC-TFE3 and Alpha-TFEB Gene Fusions Using RT-PCR on Tissues (Odes 60153 and 60154) Notice of Assessment
Renal Cell Carcinoma – Detection of PRCC-TFE3 and Alpha-TFEB Gene Fusions Using RT-PCR on Tissues (odes 60153 and 60154) Notice of Assessment June 2013 DISCLAIMER: This document was originally drafted in French by the Institut national d'excellence en santé et en services sociaux (INESSS), and that version can be consulted at http://www.inesss.qc.ca/fileadmin/doc/INESSS/Analyse_biomedicale/Juin_2013/INESSS_Analyse_15.pdf http://www.inesss.qc.ca/fileadmin/doc/INESSS/Analyse_biomedicale/Juin_2013/INESSS_Analyse_16.pdf It was translated into English by the Canadian Agency for Drugs and Technologies in Health (CADTH) with INESSS’s permission. INESSS assumes no responsibility with regard to the quality or accuracy of the translation. While CADTH has taken care in the translation of the document to ensure it accurately represents the content of the original document, CADTH does not make any guarantee to that effect. CADTH is not responsible for any errors or omissions or injury, loss, or damage arising from or relating to the use (or misuse) of any information, statements, or conclusions contained in or implied by the information in this document, the original document, or in any of the source documentation. 1 GENERAL INFORMATION 1.1 Requestor: Centre hospitalier universitaire de Québec (CHUQ). 1.2 Application Submitted: August 1, 2012. 1.3 Notice Issued: April 12, 2013. Note: This notice is based on the scientific and commercial information (submitted by the requestor[s]) and on a complementary review of the literature according to the data available at the time that this test was assessed by INESSS. 2 TECHNOLOGY, COMPANY, AND LICENCE(S) 2.1 Name of the Technology Reverse transcription of messenger RNA and amplification (RT-PCR). -
A Novel Partner of TFE3 in the Xp11 Translocation Renal Cell Carcinoma: Clinicopathological Analyses and Detection of EWSR1-TFE3 Fusion
Virchows Archiv (2019) 474:389–393 https://doi.org/10.1007/s00428-018-2509-8 BRIEF REPORT A novel partner of TFE3 in the Xp11 translocation renal cell carcinoma: clinicopathological analyses and detection of EWSR1-TFE3 fusion Hironori Fukuda1 & Ikuma Kato2 & Mitsuko Furuya2 & Reiko Tanaka3 & Toshio Takagi1 & Tsunenori Kondo1,4 & Yoji Nagashima5 Received: 28 August 2018 /Revised: 13 November 2018 /Accepted: 10 December 2018 /Published online: 14 December 2018 # Springer-Verlag GmbH Germany, part of Springer Nature 2018 Abstract The renal cell carcinomas associated with Xp11 translocations (Xp11 translocation RCCs) harbor gene fusions involving TFE3,a member of the microphthalmia-associated transcription factor (MiTF) family. In the present study, we identified a novel partner of TFE3, Ewing sarcoma breakpoint region 1 (EWSR1), in an Xp11 translocation RCC. A 57-year-old Japanese woman without special disease history was referred to us for treatment of an RCC. The resected tumor displayed an alveolar growth pattern with high-grade nuclei. The tumor was diffusely positive for TFE3 and cathepsin K. Anchored multiplex PCR revealed a novel fusion, EWSR1-TFE3. Fluorescent in situ hybridization analysis demonstrated the rearrangements of EWSR1 and TFE3. RT-PCR analysis confirmed the chimeric transcript. No neoplasm with EWSR1-TFE3 has been reported so far, in any organ. The results will expand the genomic spectrums of Xp11 translocation RCCs and contribute to better understanding of the roles of the MiTF family in the oncogenic process. Keywords -
E3 Ubiquitin Ligases: Key Regulators of Tgfβ Signaling in Cancer Progression
International Journal of Molecular Sciences Review E3 Ubiquitin Ligases: Key Regulators of TGFβ Signaling in Cancer Progression Abhishek Sinha , Prasanna Vasudevan Iyengar and Peter ten Dijke * Department of Cell and Chemical Biology and Oncode Institute, Leiden University Medical Center, 2300 RC Leiden, The Netherlands; [email protected] (A.S.); [email protected] (P.V.I.) * Correspondence: [email protected]; Tel.: +31-71-526-9271 Abstract: Transforming growth factor β (TGFβ) is a secreted growth and differentiation factor that influences vital cellular processes like proliferation, adhesion, motility, and apoptosis. Regulation of the TGFβ signaling pathway is of key importance to maintain tissue homeostasis. Perturbation of this signaling pathway has been implicated in a plethora of diseases, including cancer. The effect of TGFβ is dependent on cellular context, and TGFβ can perform both anti- and pro-oncogenic roles. TGFβ acts by binding to specific cell surface TGFβ type I and type II transmembrane receptors that are endowed with serine/threonine kinase activity. Upon ligand-induced receptor phosphorylation, SMAD proteins and other intracellular effectors become activated and mediate biological responses. The levels, localization, and function of TGFβ signaling mediators, regulators, and effectors are highly dynamic and regulated by a myriad of post-translational modifications. One such crucial modification is ubiquitination. The ubiquitin modification is also a mechanism by which crosstalk with other signaling pathways is achieved. Crucial effector components of the ubiquitination cascade include the very diverse family of E3 ubiquitin ligases. This review summarizes the diverse roles of E3 ligases that act on TGFβ receptor and intracellular signaling components. -
Metastatic Tfe3-Overexpressing Renal Cell Carcinoma
ISSN: 2378-3419 Ribeiro et al. Int J Cancer Clin Res 2021, 8:148 DOI: 10.23937/2378-3419/1410148 Volume 8 | Issue 2 International Journal of Open Access Cancer and Clinical Research CASe RePoRt Metastatic Tfe3-Overexpressing Renal Cell Carcinoma: Case Report and Literature Review Paulo Victor Zattar Ribeiro1, Leonora Zozula Blind Pope2, Beatriz Granelli1, Milena Luisa Schulze1*, Andréa Rodrigues Cardovil Pires3 and Mateus da Costa Hummelgen1 1University of Joinville’s Region, UNIVILLE, Brazil 2Dona Helena Hospital, Blumenau Street, Brazil Check for 3Diagnostic Medicine Fonte, São Sebastião, Brazil updates *Corresponding author: Milena Luisa Schulze, Department of Medicine, University of Joinville’s Region, UNIVILLE, Paulo Malschitzki Street, 10 - Zona Industrial Norte, 89249-710 Joinville – SC, Brazil Abstract Introduction Background: Renal cell carcinoma (RCC) associated with Renal cell carcinoma (RCC) associated with Xp11.2 Xp11.2 translocation/TFE3 gene fusion (Xp11.2 RCC) is a translocation/TFE3 gene fusion (Xp11.2 RCC) is a rare rare subtype of RCC which is delineated as a distinct entity subtype of RCC which is delineated as a distinct enti- in the 2004 World Health Organization renal tumor classi- fication. ty in the 2004 World Health Organization renal tumor classification. Its morphology and clinical manifesta- Objective: To highlight a rare case, with few publications tions often overlap with those of conventional RCCs [1]. on the topic, in addition to providing scientific explanations about it. Children are more affected by this subtype than adults, accounts for 20-40% of pediatric RCC and 1-1.6% of RCC Method: This is a case report of a 58-year-old white male with the diagnosis of renal clear cell carcinoma (RCC). -
Smurf2-Mediated Stabilization of DNA Topoisomerase Iiα Controls Genomic Integrity
Published OnlineFirst June 13, 2017; DOI: 10.1158/0008-5472.CAN-16-2828 Cancer Molecular and Cellular Pathobiology Research Smurf2-Mediated Stabilization of DNA Topoisomerase IIa Controls Genomic Integrity Andrea Emanuelli1, Aurora P. Borroni1, Liat Apel-Sarid2, Pooja A. Shah1, Dhanoop Manikoth Ayyathan1, Praveen Koganti1, Gal Levy-Cohen1, and Michael Blank1 Abstract DNA topoisomerase IIa (Topo IIa) ensures genomic integ- pathological chromatin bridges formed during mitosis, a trait rity and unaltered chromosome inheritance and serves as a of Topo IIa–deficient cells and a hallmark of chromosome major target of several anticancer drugs. Topo IIa function is instability. Introducing Topo IIa into Smurf2-depleted cells well understood, but how its expression is regulated remains rescued this phenomenon. Smurf2 was a determinant of Topo unclear. Here, we identify the E3 ubiquitin ligase Smurf2 as a IIa protein levels in normal and cancer cells and tissues, and its physiologic regulator of Topo IIa levels. Smurf2 physically levels affected cell sensitivity to the Topo II–targeting drug interacted with Topo IIa and modified its ubiquitination status etoposide. Our results identified Smurf2 as an essential regu- to protect Topo IIa from the proteasomal degradation in dose- lator of Topo IIa, providing novel insights into its control and catalytically dependent manners. Smurf2-depleted cells and into the suggested tumor-suppressor functions of Smurf2. exhibited a reduced ability to resolve DNA catenanes and Cancer Res; 77(16); 1–11. Ó2017 AACR. Introduction mice knockout for Smurf2 develop a wide spectrum of tumors in different organs and tissues. These and other studies estab- DNA topoisomerase IIa (Topo IIa) is the major form of the lished Smurf2 as an important regulator of genomic integrity, Topo II enzyme in cycling vertebrate cells that acts to untangle whose inactivation results in carcinogenesis (7). -
The UBE2L3 Ubiquitin Conjugating Enzyme: Interplay with Inflammasome Signalling and Bacterial Ubiquitin Ligases
The UBE2L3 ubiquitin conjugating enzyme: interplay with inflammasome signalling and bacterial ubiquitin ligases Matthew James George Eldridge 2018 Imperial College London Department of Medicine Submitted to Imperial College London for the degree of Doctor of Philosophy 1 Abstract Inflammasome-controlled immune responses such as IL-1β release and pyroptosis play key roles in antimicrobial immunity and are heavily implicated in multiple hereditary autoimmune diseases. Despite extensive knowledge of the mechanisms regulating inflammasome activation, many downstream responses remain poorly understood or uncharacterised. The cysteine protease caspase-1 is the executor of inflammasome responses, therefore identifying and characterising its substrates is vital for better understanding of inflammasome-mediated effector mechanisms. Using unbiased proteomics, the Shenoy grouped identified the ubiquitin conjugating enzyme UBE2L3 as a target of caspase-1. In this work, I have confirmed UBE2L3 as an indirect target of caspase-1 and characterised its role in inflammasomes-mediated immune responses. I show that UBE2L3 functions in the negative regulation of cellular pro-IL-1 via the ubiquitin- proteasome system. Following inflammatory stimuli, UBE2L3 assists in the ubiquitylation and degradation of newly produced pro-IL-1. However, in response to caspase-1 activation, UBE2L3 is itself targeted for degradation by the proteasome in a caspase-1-dependent manner, thereby liberating an additional pool of IL-1 which may be processed and released. UBE2L3 therefore acts a molecular rheostat, conferring caspase-1 an additional level of control over this potent cytokine, ensuring that it is efficiently secreted only in appropriate circumstances. These findings on UBE2L3 have implications for IL-1- driven pathology in hereditary fever syndromes, and autoinflammatory conditions associated with UBE2L3 polymorphisms. -
TET2 Binding to Enhancers Facilitates Transcription Factor Recruitment in Hematopoietic Cells
Downloaded from genome.cshlp.org on October 6, 2021 - Published by Cold Spring Harbor Laboratory Press 1 2 TET2 binding to enhancers facilitates 3 transcription factor recruitment in hematopoietic cells 4 5 Kasper D. Rasmussen1,2,7,8*, Ivan Berest3,8, Sandra Keβler1,2,6, Koutarou Nishimura1,4, 6 Lucía Simón-Carrasco1,2, George S. Vassiliou5, Marianne T. Pedersen1,2, 7 Jesper Christensen1,2, Judith B. Zaugg3* and Kristian Helin1,2,4*. 8 9 1Biotech Research and Innovation Centre (BRIC), Faculty of Health and Medical Sciences, University of 10 Copenhagen, 2200 Copenhagen, Denmark. 2The Novo Nordisk Foundation Center for Stem Cell Biology 11 (Danstem), Faculty or Health and Medical Sciences, University of Copenhagen, 2200 Copenhagen, 12 Denmark. 3European Molecular Biology Institute, Structural and Computational Unit. 4Cell Biology Program, 13 Memorial Sloan Kettering Cancer Center, New York, NY, USA. 5Wellcome Trust Sanger Institute, Wellcome 14 Trust Genome Campus, Cambridge, United Kingdom and Department of Haematology, Cambridge 15 University Hospitals NHS Trust, Cambridge, United Kingdom. 6Present address: Friedrich Miescher Institute 16 for Biomedical Research (FMI), CH-4058 Basel, Switzerland. 7Present address: Centre for Gene Regulation 17 and Expression (GRE), School of Life Sciences, University of Dundee, Dundee, UK. 8These authors 18 contributed equally. 19 20 *Correspondence: [email protected], [email protected], [email protected] 21 22 Running title: TET2 and TF binding in enhancers 23 24 Keywords: Acute Myeloid Leukemia; Chromatin; DNA binding; DNA methylation; Epigenetics; 25 Hematopoiesis; TET2; Transcription Factor Downloaded from genome.cshlp.org on October 6, 2021 - Published by Cold Spring Harbor Laboratory Press Rasmussen et al. -
Dissertation
Regulation of gene silencing: From microRNA biogenesis to post-translational modifications of TNRC6 complexes DISSERTATION zur Erlangung des DOKTORGRADES DER NATURWISSENSCHAFTEN (Dr. rer. nat.) der Fakultät Biologie und Vorklinische Medizin der Universität Regensburg vorgelegt von Johannes Danner aus Eggenfelden im Jahr 2017 Das Promotionsgesuch wurde eingereicht am: 12.09.2017 Die Arbeit wurde angeleitet von: Prof. Dr. Gunter Meister Johannes Danner Summary ‘From microRNA biogenesis to post-translational modifications of TNRC6 complexes’ summarizes the two main projects, beginning with the influence of specific RNA binding proteins on miRNA biogenesis processes. The fate of the mature miRNA is determined by the incorporation into Argonaute proteins followed by a complex formation with TNRC6 proteins as core molecules of gene silencing complexes. miRNAs are transcribed as stem-loop structured primary transcripts (pri-miRNA) by Pol II. The further nuclear processing is carried out by the microprocessor complex containing the RNase III enzyme Drosha, which cleaves the pri-miRNA to precursor-miRNA (pre-miRNA). After Exportin-5 mediated transport of the pre-miRNA to the cytoplasm, the RNase III enzyme Dicer cleaves off the terminal loop resulting in a 21-24 nt long double-stranded RNA. One of the strands is incorporated in the RNA-induced silencing complex (RISC), where it directly interacts with a member of the Argonaute protein family. The miRNA guides the mature RISC complex to partially complementary target sites on mRNAs leading to gene silencing. During this process TNRC6 proteins interact with Argonaute and recruit additional factors to mediate translational repression and target mRNA destabilization through deadenylation and decapping leading to mRNA decay. -
Atlas Journal
Atlas of Genetics and Cytogenetics in Oncology and Haematology Home Genes Leukemias Solid Tumours Cancer-Prone Deep Insight Portal Teaching X Y 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 NA Atlas Journal Atlas Journal versus Atlas Database: the accumulation of the issues of the Journal constitutes the body of the Database/Text-Book. TABLE OF CONTENTS Volume 3, Number 2, Apr-Jun 1999 Previous Issue / Next Issue Genes NONO (Xq12). Jean-Loup Huret. Atlas Genet Cytogenet Oncol Haematol 1999; 3 (2): 133-136. [Full Text] [PDF] URL : http://AtlasGeneticsOncology.org/Genes/NONOID168.html PRCC (papillary renal cell carcinoma) (1q21.2). François Desangles, Jean-Loup Huret. Atlas Genet Cytogenet Oncol Haematol 1999; 3 (2): 137-140. [Full Text] [PDF] URL : http://AtlasGeneticsOncology.org/Genes/PRCCID69.html PSF (PTB-associated splicing factor) (1p34). Jean-Loup Huret. Atlas Genet Cytogenet Oncol Haematol 1999; 3 (2): 141-144. [Full Text] [PDF] URL : http://AtlasGeneticsOncology.org/Genes/PSFID167.html PTCH1 (9q22.3) - updated. Jean-Loup Huret. Atlas Genet Cytogenet Oncol Haematol 1999; 3 (2): 145-153. [Full Text] [PDF] URL : http://AtlasGeneticsOncology.org/Genes/PTCH100.html TFE3 (transcription factor E3) (Xp11.2). Jean-Loup Huret, François Desangles. Atlas Genet Cytogenet Oncol Haematol 1999; 3 (2): 154-160. [Full Text] [PDF] URL : http://AtlasGeneticsOncology.org/Genes/TFE3ID86.html HRAS (Harvey rat sarcoma viral oncogene homolog) (11p15.5). Franz Watzinger, Thomas Lion. Atlas Genet Cytogenet Oncol Haematol 1999; 3 (2): 161-172. [Full Text] [PDF] Atlas Genet Cytogenet Oncol Haematol 1999; 2 I URL : http://AtlasGeneticsOncology.org/Genes/HRASID108.html K-RAS (Kirsten rat sarcoma 2 viral oncogene homolog) (12p12). -
UBE2L3 (Ubch7) [6His-Tagged] E2 – Ubiquitin Conjugating Enzyme
UBE2L3 (UbcH7) [6His-tagged] E2 – Ubiquitin Conjugating Enzyme Alternate Names: E2-F1, EC 6.3.2.19, L-UBC, UbcH7, UbcM4, Ubiquitin conjugating enzyme E2-18 kDa UbcH7, Ubiquitin conjugating enzyme UbcH7 Cat. No. 62-0040-020 Quantity: 20 µg Lot. No. 1376 Storage: -70˚C FOR RESEARCH USE ONLY NOT FOR USE IN HUMANS CERTIFICATE OF ANALYSIS - Page 1 of 2 Background Physical Characteristics The enzymes of the ubiquitylation path- Species: human Protein Sequence: way play a pivotal role in a number of cel- MGSSHHHHHHSSGLEVLFQGPGSMAAS lular processes including regulated and Source: E. coli expression RRLMKELEEIRKCGMKNFRNIQVDEAN targeted proteosomal degradation of sub- LLTWQGLIVPDNPPYDKGAFRIEINFPAEYPFKPP strate proteins. Three classes of enzymes Quantity: 20 µg KITFKTKIYHPNIDEKGQVCLPVISAENWKPATK are involved in the process of ubiquityla- TDQVIQSLIALVNDPQPEHPLRADLAEEYSKDRK tion; activating enzymes (E1s), conjugat- Concentration: 1 mg/ml KFCKNAEEFTKKYGEKRPVD ing enzymes (E2s) and protein ligases (E3s). UBE2L3 is a member of the E2 con- Formulation: 50 mM HEPES pH 7.5, Tag (bold text): N-terminal His jugating enzyme family and cloning of the 150 mM sodium chloride, 2 mM Protease cleavage site: PreScission™ (LEVLFQtGP) human gene was first described by Moyni- dithiothreitol, 10% glycerol UBE2L3 (regular text): Start bold italics (amino acid han et al. (1996). Human UBE2L3 has residues 1-154) Accession number: AAH53368 been mapped to chromosome 22q11.2- Molecular Weight: ~20 kDa q13.1 and shares 97% homology with its mouse homologue (Moynihan et al., Purity: >85% by InstantBlue™ SDS-PAGE 1996; Moynihan et al., 1998). UBE2L3 efficiently mediates the ubiquitylation of Stability/Storage: 12 months at -70˚C; E6AP (Nuber et al., 1996). A protein com- aliquot as required plex comprising UBE2L3, the E3 ligase Parkin and alpha synuclein (alpha-Sp22) has been identified in which the substrate Quality Assurance alpha-Sp22 becomes polyubiquitylated in normal human brains and targeted Purity: Protein Identification: for degradation.