Antisense Suppression of the Chloride Intracellular Channel Family Induces Apoptosis, Enhances Tumor Necrosis Factor A-Induced Apoptosis, and Inhibits Tumor Growth

Total Page:16

File Type:pdf, Size:1020Kb

Antisense Suppression of the Chloride Intracellular Channel Family Induces Apoptosis, Enhances Tumor Necrosis Factor A-Induced Apoptosis, and Inhibits Tumor Growth Research Article Antisense Suppression of the Chloride Intracellular Channel Family Induces Apoptosis, Enhances Tumor Necrosis Factor a-Induced Apoptosis, and Inhibits Tumor Growth Kwang S. Suh, Michihiro Mutoh, Michael Gerdes, John M. Crutchley, Tomoko Mutoh, Lindsay E. Edwards, Rebecca A. Dumont, Pooja Sodha, Christina Cheng, Adam Glick, and Stuart H. Yuspa Laboratory of Cellular Carcinogenesis and Tumor Promotion, National Cancer Institute, Bethesda, Maryland Abstract CLICs are also found in a soluble form in the cytoplasm (2–5). mtCLIC/CLIC4 is a p53 and tumor necrosis factor a (TNFa) Crystallographic analysis of the structure of soluble CLIC1 regulated intracellular chloride channel protein that local- indicates homology to the glutathione transferase family of izes to cytoplasm and organelles and induces apoptosis proteins. It is hypothesized that soluble CLICs may become when overexpressed in several cell types of mouse and activated as anion channels or channel regulators when ‘‘auto- humanorigin.CLIC4iselevatedduringTNFa-induced inserted’’ into intracellular membranes (6). apoptosis in human osteosarcoma cell lines. In contrast, Among the CLIC family proteins, the biological functions of inhibition of NFKB results in an increase in TNFa-mediated CLIC4 have been most thoroughly studied. CLIC4 is expressed in apoptosis with a decrease in CLIC4 protein levels. Cell lines many cell types. In skin keratinocytes, CLIC4 was first localized to expressing an inducible CLIC4-antisense construct that also mitochondria and cytoplasm and later was localized specifically reduces the expression of several other chloride intracellular to the inner mitochondrial membrane by immunogold electron channel (CLIC) family proteins were established in the microscopy (7, 8). Other reports have localized CLIC4 in the trans- human osteosarcoma lines SaOS and U2OS cells and Golgi network in pancreatic cells, endoplasmic reticulum in rat a malignant derivative of the mouse squamous papilloma hippocampal HT-4 cells, and large dense core vesicles in line SP1. Reduction of CLIC family proteins by antisense neurosecretory cells (9–11). CLIC4 has also been associated with expression caused apoptosis in these cells. Moreover, CLIC4- the actin cytoskeleton in membrane ruffles and lamellipodia. À antisense induction increased TNFa-mediated apoptosis Electrophysiologic analysis suggests that CLIC4 has Cl selective in both the SaOS and U2OS derivative cell lines without channel activity (4, 10, 12, 13). CLIC4 is highly conserved in altering TNFa-induced NFKB activity. Reducing CLIC proteins different species with nearly 95% identity in amino acid sequence in tumor grafts of SP1 cells expressing a tetracycline-regulated indicating an important functional role in cellular physiology (8). CLIC4-antisense substantially inhibited tumor growth and CLIC4 associates with dynamin I, actin, tubulin, and 14:3:3 isoforms induced tumor apoptosis. Administration of TNFa i.p. mod- in neuronal cells, suggesting it may also play a role in cell signaling estly enhanced the antitumor effect of CLIC reduction (14). This is consistent with the recently reported induction of in vivo. These results suggest that CLIC proteins could serve CLIC4 in transforming growth factor-h and serum-activated as drug targets for cancer therapy, and reduction of CLIC human breast fibroblasts, where it was associated with trans- proteins could enhance the activity of other anticancer differentiation to myofibroblasts (15). drugs. (Cancer Res 2005; 65(2): 562-71) CLIC4 is a direct response gene for p53 transactivation, and the up-regulation of CLIC4 is strongly associated with p53-mediated Introduction apoptosis (7). CLIC4 overexpression induces apoptosis character- ized by changes in the intrinsic mitochondrial apoptotic pathway Chloride intracellular channel (CLIC) family of proteins (p64, CLIC1-5, and parchorin) is frequently localized to intracellular such as loss of mitochondrial membrane potential, cytochrome c organelles in multiple cell types. The putative chloride ion gating release, and caspase activation (7). CLIC4 also translocates to the activity of some members of this family suggests that CLIC nucleus in cells induced to undergo apoptosis by a variety of proteins function to regulate organellar volume, ionic homeosta- stress inducers (16), and nuclear-targeted CLIC4 is strongly sis, and pH (1). CLIC1 to CLIC5 are similar in size and highly proapoptotic even when the mitochondrial death pathway is inhibited by genetic deletion of Apaf1 (16). Exposure to tumor homologous, whereas p64 and parchorin have distinct NH2- terminal domains but share strong sequence similarity to the necrosis factor a (TNFa) also increases CLIC4 transcripts and other family members in the COOH terminus (CLIC module; protein and causes CLIC4 to translocate to the nucleus ref. 2). Common to all members is a hydrophobic region in the independent of p53 (8, 16). CLIC module consistent with a transmembrane domain, although TNFa induces apoptosis in some cell types and is in clinical trials for the treatment of certain cancers (17). The interaction of TNFa with its receptor can activate a death pathway through caspase-8 and caspase-3 leading to a cytochrome c–independent Note: K.S. Suh and M. Mutoh contributed equally to this work. apoptotic response (18). However, TNFa can simultaneously Requests for reprints: Stuart H. Yuspa, Cell Carcinogenesis and Tumor induce an antiapoptotic response through its activation of the Promotion, Room 3B25, MSC 4255, 37 Convent Drive, Bethesda, MD 20892-4255. K Phone: 301-496-2162; Fax: 301-496-8709; E-mail: [email protected]. downstream transcription factor NF B and subsequent induction I2005 American Association for Cancer Research. of inhibitors of apoptosis and other NFKB response genes to Cancer Res 2005; 65: (2). January 15, 2005 562 www.aacrjournals.org Downloaded from cancerres.aacrjournals.org on October 1, 2021. © 2005 American Association for Cancer Research. CLIC4 Antisense Induces Apoptosis and Inhibits Tumor Growth blunt the apoptotic response (19). In experimental settings, this proapoptotic response. We considered this an important under- can be overcome by inhibiting the TNFa-mediated nuclear taking because CLIC4 could be a collateral target in biological translocation of NFKB using the mutant form of the NFKB approaches to cancer therapy with TNFa. cytoplasmic binding partner IKB (20, 21). The mutant IKB (IKBsr) cannot be phosphorylated and degraded and thus does not dissociate from NFKB to allow nuclear translocation and Materials and Methods DNA binding. Whereas this has been an effective tool to Cell Culture. Tet-On U2OS cell lines were purchased from Clontech understand the antiapoptotic activity of NFKB, this antiapoptotic (Palo Alto, CA). Both Tet-On U2OS, p53 Tet-On SaOS cell line (26), and their pathway could compromise the clinical effectiveness of TNFa as derivatives were maintained in DMEM/10% fetal bovine serum. SP1 an antitumor agent (22). keratinocytes and its derivatives were maintained as described previously The death receptor pathway together with inhibition of NFKB (7). Recombinant human and murine TNFa were obtained from is considered the major route through which TNFa induces Calbiochem (San Diego, CA). apoptosis in experimental settings, but other pathways, such as Immunoblot Analysis. Cells were lysed into 100 AL M-Per (Pierce, p53 and mitogen-activated protein kinases, have also been Rockford, IL), and 30 Ag of proteins were resolved by SDS-PAGE and implicated in TNFa-mediated apoptosis (23). These pathways transferred onto polyvinylidene difluoride membranes (Millipore, Bedford, K may contribute to cell killing by TNFa independently of NF B MA). Antibodies against the COOH terminus of CLIC4 (8) were used at a (24, 25). Because expression and nuclear translocation of 1:10,000 dilution. The following antibodies were also used: rabbit polyclonal proapoptotic CLIC4 are induced by TNFa, we embarked on a anti-NFKB, Bax, Bcl-2, and anti-IKBa antibodies were from Santa Cruz study to determine where CLIC4 might fit into the TNFa Biotechnology (Santa Cruz, CA); anti-h-actin mouse monoclonal antibody Figure 1. IKBsr or CLIC4-antisense expression does not inhibit TNFa-induced nuclear translocation of CLIC4. p53 Tet-On SaOS cells (A, B, and D) and Tet-On U2Os cells (A and C) were pretreated with (A) null adenovirus (N), (B) Tet-Off adenovirus (T) to induce antisense expression, (C) IKBsr adenovirus (I), or in (D) combination of IKBsr and Tet-Off adenoviruses (I+T) with 10 MOI for 17 hours, exposed to 25 ng/mL TNFa for 30 minutes (ÀTNF or +TNF), and fixed in 2% paraformaldehyde. NFKB, IKB, and CLIC4 were examined by immunofluorescence using confocal microscopy. Insets in A-D, confocal images correspond to the antibody designated in parenthesis. CLIC4 immunostaining for B and D: overexposed confocal image in order to detect CLIC4 staining when CLIC4 antisense is expressed. www.aacrjournals.org 563 Cancer Res 2005; 65: (2). January 15, 2005 Downloaded from cancerres.aacrjournals.org on October 1, 2021. © 2005 American Association for Cancer Research. Cancer Research Figure 2. IKBsr enhances TNFa-mediated apoptosis and reduces CLIC4 protein independent of CLIC4 promoter activity. p53 Tet-On SaOS cells (A, C, and E) and Tet-On U2OS cells (B, D, and F) were untreated or pretreated with 50 MOI of null Ad or IKBsr adenovirus for 24 hours prior to 25 ng/mL TNFa. Annexin V fluorescence-activated cell sorting analysis was done 24 hours after TNFa (A and
Recommended publications
  • Screening and Identification of Key Biomarkers in Clear Cell Renal Cell Carcinoma Based on Bioinformatics Analysis
    bioRxiv preprint doi: https://doi.org/10.1101/2020.12.21.423889; this version posted December 23, 2020. 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. Screening and identification of key biomarkers in clear cell renal cell carcinoma based on bioinformatics analysis Basavaraj Vastrad1, Chanabasayya Vastrad*2 , Iranna Kotturshetti 1. Department of Biochemistry, Basaveshwar College of Pharmacy, Gadag, Karnataka 582103, India. 2. Biostatistics and Bioinformatics, Chanabasava Nilaya, Bharthinagar, Dharwad 580001, Karanataka, India. 3. Department of Ayurveda, Rajiv Gandhi Education Society`s Ayurvedic Medical College, Ron, Karnataka 562209, India. * Chanabasayya Vastrad [email protected] Ph: +919480073398 Chanabasava Nilaya, Bharthinagar, Dharwad 580001 , Karanataka, India bioRxiv preprint doi: https://doi.org/10.1101/2020.12.21.423889; this version posted December 23, 2020. 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. Abstract Clear cell renal cell carcinoma (ccRCC) is one of the most common types of malignancy of the urinary system. The pathogenesis and effective diagnosis of ccRCC have become popular topics for research in the previous decade. In the current study, an integrated bioinformatics analysis was performed to identify core genes associated in ccRCC. An expression dataset (GSE105261) was downloaded from the Gene Expression Omnibus database, and included 26 ccRCC and 9 normal kideny samples. Assessment of the microarray dataset led to the recognition of differentially expressed genes (DEGs), which was subsequently used for pathway and gene ontology (GO) enrichment analysis.
    [Show full text]
  • Table S1 the Four Gene Sets Derived from Gene Expression Profiles of Escs and Differentiated Cells
    Table S1 The four gene sets derived from gene expression profiles of ESCs and differentiated cells Uniform High Uniform Low ES Up ES Down EntrezID GeneSymbol EntrezID GeneSymbol EntrezID GeneSymbol EntrezID GeneSymbol 269261 Rpl12 11354 Abpa 68239 Krt42 15132 Hbb-bh1 67891 Rpl4 11537 Cfd 26380 Esrrb 15126 Hba-x 55949 Eef1b2 11698 Ambn 73703 Dppa2 15111 Hand2 18148 Npm1 11730 Ang3 67374 Jam2 65255 Asb4 67427 Rps20 11731 Ang2 22702 Zfp42 17292 Mesp1 15481 Hspa8 11807 Apoa2 58865 Tdh 19737 Rgs5 100041686 LOC100041686 11814 Apoc3 26388 Ifi202b 225518 Prdm6 11983 Atpif1 11945 Atp4b 11614 Nr0b1 20378 Frzb 19241 Tmsb4x 12007 Azgp1 76815 Calcoco2 12767 Cxcr4 20116 Rps8 12044 Bcl2a1a 219132 D14Ertd668e 103889 Hoxb2 20103 Rps5 12047 Bcl2a1d 381411 Gm1967 17701 Msx1 14694 Gnb2l1 12049 Bcl2l10 20899 Stra8 23796 Aplnr 19941 Rpl26 12096 Bglap1 78625 1700061G19Rik 12627 Cfc1 12070 Ngfrap1 12097 Bglap2 21816 Tgm1 12622 Cer1 19989 Rpl7 12267 C3ar1 67405 Nts 21385 Tbx2 19896 Rpl10a 12279 C9 435337 EG435337 56720 Tdo2 20044 Rps14 12391 Cav3 545913 Zscan4d 16869 Lhx1 19175 Psmb6 12409 Cbr2 244448 Triml1 22253 Unc5c 22627 Ywhae 12477 Ctla4 69134 2200001I15Rik 14174 Fgf3 19951 Rpl32 12523 Cd84 66065 Hsd17b14 16542 Kdr 66152 1110020P15Rik 12524 Cd86 81879 Tcfcp2l1 15122 Hba-a1 66489 Rpl35 12640 Cga 17907 Mylpf 15414 Hoxb6 15519 Hsp90aa1 12642 Ch25h 26424 Nr5a2 210530 Leprel1 66483 Rpl36al 12655 Chi3l3 83560 Tex14 12338 Capn6 27370 Rps26 12796 Camp 17450 Morc1 20671 Sox17 66576 Uqcrh 12869 Cox8b 79455 Pdcl2 20613 Snai1 22154 Tubb5 12959 Cryba4 231821 Centa1 17897
    [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]
  • Emerging Roles for Multifunctional Ion Channel Auxiliary Subunits in Cancer T ⁎ Alexander S
    Cell Calcium 80 (2019) 125–140 Contents lists available at ScienceDirect Cell Calcium journal homepage: www.elsevier.com/locate/ceca Emerging roles for multifunctional ion channel auxiliary subunits in cancer T ⁎ Alexander S. Hawortha,b, William J. Brackenburya,b, a Department of Biology, University of York, Heslington, York, YO10 5DD, UK b York Biomedical Research Institute, University of York, Heslington, York, YO10 5DD, UK ARTICLE INFO ABSTRACT Keywords: Several superfamilies of plasma membrane channels which regulate transmembrane ion flux have also been Auxiliary subunit shown to regulate a multitude of cellular processes, including proliferation and migration. Ion channels are Cancer typically multimeric complexes consisting of conducting subunits and auxiliary, non-conducting subunits. Calcium channel Auxiliary subunits modulate the function of conducting subunits and have putative non-conducting roles, further Chloride channel expanding the repertoire of cellular processes governed by ion channel complexes to processes such as trans- Potassium channel cellular adhesion and gene transcription. Given this expansive influence of ion channels on cellular behaviour it Sodium channel is perhaps no surprise that aberrant ion channel expression is a common occurrence in cancer. This review will − focus on the conducting and non-conducting roles of the auxiliary subunits of various Ca2+,K+,Na+ and Cl channels and the burgeoning evidence linking such auxiliary subunits to cancer. Several subunits are upregu- lated (e.g. Cavβ,Cavγ) and downregulated (e.g. Kvβ) in cancer, while other subunits have been functionally implicated as oncogenes (e.g. Navβ1,Cavα2δ1) and tumour suppressor genes (e.g. CLCA2, KCNE2, BKγ1) based on in vivo studies. The strengthening link between ion channel auxiliary subunits and cancer has exposed these subunits as potential biomarkers and therapeutic targets.
    [Show full text]
  • Transcriptomic Analysis of Native Versus Cultured Human and Mouse Dorsal Root Ganglia Focused on Pharmacological Targets Short
    bioRxiv preprint doi: https://doi.org/10.1101/766865; this version posted September 12, 2019. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-ND 4.0 International license. Transcriptomic analysis of native versus cultured human and mouse dorsal root ganglia focused on pharmacological targets Short title: Comparative transcriptomics of acutely dissected versus cultured DRGs Andi Wangzhou1, Lisa A. McIlvried2, Candler Paige1, Paulino Barragan-Iglesias1, Carolyn A. Guzman1, Gregory Dussor1, Pradipta R. Ray1,#, Robert W. Gereau IV2, # and Theodore J. Price1, # 1The University of Texas at Dallas, School of Behavioral and Brain Sciences and Center for Advanced Pain Studies, 800 W Campbell Rd. Richardson, TX, 75080, USA 2Washington University Pain Center and Department of Anesthesiology, Washington University School of Medicine # corresponding authors [email protected], [email protected] and [email protected] Funding: NIH grants T32DA007261 (LM); NS065926 and NS102161 (TJP); NS106953 and NS042595 (RWG). The authors declare no conflicts of interest Author Contributions Conceived of the Project: PRR, RWG IV and TJP Performed Experiments: AW, LAM, CP, PB-I Supervised Experiments: GD, RWG IV, TJP Analyzed Data: AW, LAM, CP, CAG, PRR Supervised Bioinformatics Analysis: PRR Drew Figures: AW, PRR Wrote and Edited Manuscript: AW, LAM, CP, GD, PRR, RWG IV, TJP All authors approved the final version of the manuscript. 1 bioRxiv preprint doi: https://doi.org/10.1101/766865; this version posted September 12, 2019. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity.
    [Show full text]
  • Expression Profiling of Ion Channel Genes Predicts Clinical Outcome in Breast Cancer
    UCSF UC San Francisco Previously Published Works Title Expression profiling of ion channel genes predicts clinical outcome in breast cancer Permalink https://escholarship.org/uc/item/1zq9j4nw Journal Molecular Cancer, 12(1) ISSN 1476-4598 Authors Ko, Jae-Hong Ko, Eun A Gu, Wanjun et al. Publication Date 2013-09-22 DOI http://dx.doi.org/10.1186/1476-4598-12-106 Peer reviewed eScholarship.org Powered by the California Digital Library University of California Ko et al. Molecular Cancer 2013, 12:106 http://www.molecular-cancer.com/content/12/1/106 RESEARCH Open Access Expression profiling of ion channel genes predicts clinical outcome in breast cancer Jae-Hong Ko1, Eun A Ko2, Wanjun Gu3, Inja Lim1, Hyoweon Bang1* and Tong Zhou4,5* Abstract Background: Ion channels play a critical role in a wide variety of biological processes, including the development of human cancer. However, the overall impact of ion channels on tumorigenicity in breast cancer remains controversial. Methods: We conduct microarray meta-analysis on 280 ion channel genes. We identify candidate ion channels that are implicated in breast cancer based on gene expression profiling. We test the relationship between the expression of ion channel genes and p53 mutation status, ER status, and histological tumor grade in the discovery cohort. A molecular signature consisting of ion channel genes (IC30) is identified by Spearman’s rank correlation test conducted between tumor grade and gene expression. A risk scoring system is developed based on IC30. We test the prognostic power of IC30 in the discovery and seven validation cohorts by both Cox proportional hazard regression and log-rank test.
    [Show full text]
  • Transmembrane Protein with Unknown Function 16A Overexpression Promotes Glioma Formation Through the Nuclear Factor‑Κb Signaling Pathway
    1068 MOLECULAR MEDICINE REPORTS 9: 1068-1074, 2014 Transmembrane protein with unknown function 16A overexpression promotes glioma formation through the nuclear factor‑κB signaling pathway JUN LIU1, YU LIU2, YINGANG REN1, LI KANG1 and LIHUA ZHANG1 Departments of 1Geriatrics and 2Neurology, Tangdu Hospital, Fourth Military Medical University, Xi'an, Shaanxi 710038, P.R. China Received July 18, 2013; Accepted January 2, 2014 DOI: 10.3892/mmr.2014.1888 Abstract. Ion channels have been suggested to be important in Introduction the development and progression of tumors, however, chloride channels have rarely been analyzed in tumorigenesis. More In previous years, the association between ion channels and recently, transmembrane protein with unknown function 16A tumors has drawn particular attention. Increasing evidence has (TMEM16A), hypothesized to be a candidate calcium-acti- demonstrated that ion channels are involved in the regulation vated Cl- channel, has been found to be overexpressed in a of tumor progression, including potassium (1-3), calcium (4) number of tumor types. Although several studies have impli- and sodium channels (5,6). Therefore, understanding the cated the overexpression of TMEM16A in certain tumor types, underlying molecular mechanisms of ion channels in tumori- the exact role of TMEM16A in gliomas and the underlying genesis, and tumor progression and migration provides novel mechanisms in tumorigenesis, remain poorly understood. In insights into tumor pathogenesis, and also identifies potential the present study, the role of TMEM16A in gliomas and the targets for tumor prevention and treatment. potential underlying mechanisms were analyzed. TMEM16A Chloride channels are expressed ubiquitously and are was highly abundant in various grades of gliomas and important in various cellular processes, including the cell cycle cultured glioma cells.
    [Show full text]
  • Bi-Allelic Novel Variants in CLIC5 Identified in a Cameroonian
    G C A T T A C G G C A T genes Article Bi-Allelic Novel Variants in CLIC5 Identified in a Cameroonian Multiplex Family with Non-Syndromic Hearing Impairment Edmond Wonkam-Tingang 1, Isabelle Schrauwen 2 , Kevin K. Esoh 1 , Thashi Bharadwaj 2, Liz M. Nouel-Saied 2 , Anushree Acharya 2, Abdul Nasir 3 , Samuel M. Adadey 1,4 , Shaheen Mowla 5 , Suzanne M. Leal 2 and Ambroise Wonkam 1,* 1 Division of Human Genetics, Faculty of Health Sciences, University of Cape Town, Cape Town 7925, South Africa; [email protected] (E.W.-T.); [email protected] (K.K.E.); [email protected] (S.M.A.) 2 Center for Statistical Genetics, Sergievsky Center, Taub Institute for Alzheimer’s Disease and the Aging Brain, and the Department of Neurology, Columbia University Medical Centre, New York, NY 10032, USA; [email protected] (I.S.); [email protected] (T.B.); [email protected] (L.M.N.-S.); [email protected] (A.A.); [email protected] (S.M.L.) 3 Synthetic Protein Engineering Lab (SPEL), Department of Molecular Science and Technology, Ajou University, Suwon 443-749, Korea; [email protected] 4 West African Centre for Cell Biology of Infectious Pathogens (WACCBIP), University of Ghana, Accra LG 54, Ghana 5 Division of Haematology, Department of Pathology, Faculty of Health Sciences, University of Cape Town, Cape Town 7925, South Africa; [email protected] * Correspondence: [email protected]; Tel.: +27-21-4066-307 Received: 28 September 2020; Accepted: 20 October 2020; Published: 23 October 2020 Abstract: DNA samples from five members of a multiplex non-consanguineous Cameroonian family, segregating prelingual and progressive autosomal recessive non-syndromic sensorineural hearing impairment, underwent whole exome sequencing.
    [Show full text]
  • Transcriptomic and Proteomic Profiling Provides Insight Into
    BASIC RESEARCH www.jasn.org Transcriptomic and Proteomic Profiling Provides Insight into Mesangial Cell Function in IgA Nephropathy † † ‡ Peidi Liu,* Emelie Lassén,* Viji Nair, Celine C. Berthier, Miyuki Suguro, Carina Sihlbom,§ † | † Matthias Kretzler, Christer Betsholtz, ¶ Börje Haraldsson,* Wenjun Ju, Kerstin Ebefors,* and Jenny Nyström* *Department of Physiology, Institute of Neuroscience and Physiology, §Proteomics Core Facility at University of Gothenburg, University of Gothenburg, Gothenburg, Sweden; †Division of Nephrology, Department of Internal Medicine and Department of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, Michigan; ‡Division of Molecular Medicine, Aichi Cancer Center Research Institute, Nagoya, Japan; |Department of Immunology, Genetics and Pathology, Uppsala University, Uppsala, Sweden; and ¶Integrated Cardio Metabolic Centre, Karolinska Institutet Novum, Huddinge, Sweden ABSTRACT IgA nephropathy (IgAN), the most common GN worldwide, is characterized by circulating galactose-deficient IgA (gd-IgA) that forms immune complexes. The immune complexes are deposited in the glomerular mesangium, leading to inflammation and loss of renal function, but the complete pathophysiology of the disease is not understood. Using an integrated global transcriptomic and proteomic profiling approach, we investigated the role of the mesangium in the onset and progression of IgAN. Global gene expression was investigated by microarray analysis of the glomerular compartment of renal biopsy specimens from patients with IgAN (n=19) and controls (n=22). Using curated glomerular cell type–specific genes from the published literature, we found differential expression of a much higher percentage of mesangial cell–positive standard genes than podocyte-positive standard genes in IgAN. Principal coordinate analysis of expression data revealed clear separation of patient and control samples on the basis of mesangial but not podocyte cell–positive standard genes.
    [Show full text]
  • Ion Channels 3 1
    r r r Cell Signalling Biology Michael J. Berridge Module 3 Ion Channels 3 1 Module 3 Ion Channels Synopsis Ion channels have two main signalling functions: either they can generate second messengers or they can function as effectors by responding to such messengers. Their role in signal generation is mainly centred on the Ca2 + signalling pathway, which has a large number of Ca2+ entry channels and internal Ca2+ release channels, both of which contribute to the generation of Ca2 + signals. Ion channels are also important effectors in that they mediate the action of different intracellular signalling pathways. There are a large number of K+ channels and many of these function in different + aspects of cell signalling. The voltage-dependent K (KV) channels regulate membrane potential and + excitability. The inward rectifier K (Kir) channel family has a number of important groups of channels + + such as the G protein-gated inward rectifier K (GIRK) channels and the ATP-sensitive K (KATP) + + channels. The two-pore domain K (K2P) channels are responsible for the large background K current. Some of the actions of Ca2 + are carried out by Ca2+-sensitive K+ channels and Ca2+-sensitive Cl − channels. The latter are members of a large group of chloride channels and transporters with multiple functions. There is a large family of ATP-binding cassette (ABC) transporters some of which have a signalling role in that they extrude signalling components from the cell. One of the ABC transporters is the cystic − − fibrosis transmembrane conductance regulator (CFTR) that conducts anions (Cl and HCO3 )and contributes to the osmotic gradient for the parallel flow of water in various transporting epithelia.
    [Show full text]
  • Transcriptomic Uniqueness and Commonality of the Ion Channels and Transporters in the Four Heart Chambers Sanda Iacobas1, Bogdan Amuzescu2 & Dumitru A
    www.nature.com/scientificreports OPEN Transcriptomic uniqueness and commonality of the ion channels and transporters in the four heart chambers Sanda Iacobas1, Bogdan Amuzescu2 & Dumitru A. Iacobas3,4* Myocardium transcriptomes of left and right atria and ventricles from four adult male C57Bl/6j mice were profled with Agilent microarrays to identify the diferences responsible for the distinct functional roles of the four heart chambers. Female mice were not investigated owing to their transcriptome dependence on the estrous cycle phase. Out of the quantifed 16,886 unigenes, 15.76% on the left side and 16.5% on the right side exhibited diferential expression between the atrium and the ventricle, while 5.8% of genes were diferently expressed between the two atria and only 1.2% between the two ventricles. The study revealed also chamber diferences in gene expression control and coordination. We analyzed ion channels and transporters, and genes within the cardiac muscle contraction, oxidative phosphorylation, glycolysis/gluconeogenesis, calcium and adrenergic signaling pathways. Interestingly, while expression of Ank2 oscillates in phase with all 27 quantifed binding partners in the left ventricle, the percentage of in-phase oscillating partners of Ank2 is 15% and 37% in the left and right atria and 74% in the right ventricle. The analysis indicated high interventricular synchrony of the ion channels expressions and the substantially lower synchrony between the two atria and between the atrium and the ventricle from the same side. Starting with crocodilians, the heart pumps the blood through the pulmonary circulation and the systemic cir- culation by the coordinated rhythmic contractions of its upper lef and right atria (LA, RA) and lower lef and right ventricles (LV, RV).
    [Show full text]
  • Data Supporting Characterization of CLIC1, CLIC4, CLIC5 and Dmclic Antibodies and Localization of Clics in Endoplasmic Reticulum of Cardiomyocytes
    Data in Brief 7 (2016) 1038–1044 Contents lists available at ScienceDirect Data in Brief journal homepage: www.elsevier.com/locate/dib Data Article Data supporting characterization of CLIC1, CLIC4, CLIC5 and DmCLIC antibodies and localization of CLICs in endoplasmic reticulum of cardiomyocytes Devasena Ponnalagu a, Shubha Gururaja Rao a, Jason Farber a, Wenyu Xin a, Ahmed Tafsirul Hussain a, Kajol Shah a, Soichi Tanda b, Mark A. Berryman c, John C. Edwards d, Harpreet Singh a,n a Department of Pharmacology and Physiology, Drexel University College of Medicine, Philadelphia, PA 19102, United States b Department of Biological Sciences, Ohio University, Athens, OH 45701, United States c Department of Biomedical Sciences, Ohio University, Athens, OH 45701, United States d Division of Nephrology, St. Louis University, St. Louis, MO 63110, United States article info abstract Article history: Chloride intracellular channel (CLICs) proteins show 60–70% Received 22 January 2016 sequence identity to each other, and exclusively localize to the Received in revised form intracellular organelle membranes and cytosol. In support of 22 February 2016 our recent publication, “Molecular identity of cardiac mito- Accepted 16 March 2016 chondrial chloride intracellular channel proteins” (Ponnalagu Available online 26 March 2016 et al., 2016) [1], it was important to characterize the specificity Keywords: of different CLIC paralogs/ortholog (CLIC1, CLIC4, CLIC5 and Chloride intracellular channels DmCLIC) antibodies used to decipher their localization in car- Endoplasmic reticulum diac cells. In addition, localization of CLICs in the other orga- Mitochondria nelles such as endoplasmic reticulum (ER) of cardiomyocytes Cardiomyocytes was established. This article also provides data on the different primers used to show the relative abundance of CLIC paralogs in cardiac tissue and the specificity of the various CLIC antibodies used.
    [Show full text]