Probing Lymphocyte Response to Bz-423 Modulation of F0F1-Atpase
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Supplementary Figure S1. Results of flow cytometry analysis, performed to estimate CD34 positivity, after immunomagnetic separation in two different experiments. As monoclonal antibody for labeling the sample, the fluorescein isothiocyanate (FITC)- conjugated mouse anti-human CD34 MoAb (Mylteni) was used. Briefly, cell samples were incubated in the presence of the indicated MoAbs, at the proper dilution, in PBS containing 5% FCS and 1% Fc receptor (FcR) blocking reagent (Miltenyi) for 30 min at 4 C. Cells were then washed twice, resuspended with PBS and analyzed by a Coulter Epics XL (Coulter Electronics Inc., Hialeah, FL, USA) flow cytometer. only use Non-commercial 1 Supplementary Table S1. Complete list of the datasets used in this study and their sources. GEO Total samples Geo selected GEO accession of used Platform Reference series in series samples samples GSM142565 GSM142566 GSM142567 GSM142568 GSE6146 HG-U133A 14 8 - GSM142569 GSM142571 GSM142572 GSM142574 GSM51391 GSM51392 GSE2666 HG-U133A 36 4 1 GSM51393 GSM51394 only GSM321583 GSE12803 HG-U133A 20 3 GSM321584 2 GSM321585 use Promyelocytes_1 Promyelocytes_2 Promyelocytes_3 Promyelocytes_4 HG-U133A 8 8 3 GSE64282 Promyelocytes_5 Promyelocytes_6 Promyelocytes_7 Promyelocytes_8 Non-commercial 2 Supplementary Table S2. Chromosomal regions up-regulated in CD34+ samples as identified by the LAP procedure with the two-class statistics coded in the PREDA R package and an FDR threshold of 0.5. Functional enrichment analysis has been performed using DAVID (http://david.abcc.ncifcrf.gov/) -
The Role of the Rho Gtpases in Neuronal Development
Downloaded from genesdev.cshlp.org on September 24, 2021 - Published by Cold Spring Harbor Laboratory Press REVIEW The role of the Rho GTPases in neuronal development Eve-Ellen Govek,1,2, Sarah E. Newey,1 and Linda Van Aelst1,2,3 1Cold Spring Harbor Laboratory, Cold Spring Harbor, New York, 11724, USA; 2Molecular and Cellular Biology Program, State University of New York at Stony Brook, Stony Brook, New York, 11794, USA Our brain serves as a center for cognitive function and and an inactive GDP-bound state. Their activity is de- neurons within the brain relay and store information termined by the ratio of GTP to GDP in the cell and can about our surroundings and experiences. Modulation of be influenced by a number of different regulatory mol- this complex neuronal circuitry allows us to process that ecules. Guanine nucleotide exchange factors (GEFs) ac- information and respond appropriately. Proper develop- tivate GTPases by enhancing the exchange of bound ment of neurons is therefore vital to the mental health of GDP for GTP (Schmidt and Hall 2002); GTPase activat- an individual, and perturbations in their signaling or ing proteins (GAPs) act as negative regulators of GTPases morphology are likely to result in cognitive impairment. by enhancing the intrinsic rate of GTP hydrolysis of a The development of a neuron requires a series of steps GTPase (Bernards 2003; Bernards and Settleman 2004); that begins with migration from its birth place and ini- and guanine nucleotide dissociation inhibitors (GDIs) tiation of process outgrowth, and ultimately leads to dif- prevent exchange of GDP for GTP and also inhibit the ferentiation and the formation of connections that allow intrinsic GTPase activity of GTP-bound GTPases (Zalc- it to communicate with appropriate targets. -
Roles of Rho Gtpases in Intracellular Transport and Cellular Transformation
Int. J. Mol. Sci. 2013, 14, 7089-7108; doi:10.3390/ijms14047089 OPEN ACCESS International Journal of Molecular Sciences ISSN 1422-0067 www.mdpi.com/journal/ijms Review Roles of Rho GTPases in Intracellular Transport and Cellular Transformation Xiaojuan Chi 1, Song Wang 2, Yifan Huang 1, Mark Stamnes 3 and Ji-Long Chen 1,2,* 1 College of Animal Science, Fujian Agriculture and Forestry University, Fuzhou 350002, China; E-Mails: [email protected] (X.C.); [email protected] (Y.H.) 2 CAS Key Laboratory of Pathogenic Microbiology and Immunology, Institute of Microbiology, Chinese Academy of Sciences (CAS), Beijing 100101, China; E-Mail: [email protected] 3 Department of Molecular Physiology and Biophysics, Roy J. and Lucille A. Carver College of Medicine, The University of Iowa, Iowa City, IA 52242, USA; E-Mail: [email protected] * Author to whom correspondence should be addressed; E-Mail: [email protected]; Tel.: +86-10-6480-7300; Fax: +86-10-6480-7980. Received: 21 February 2013; in revised form: 4 March 2013 / Accepted: 12 March 2013 / Published: 28 March 2013 Abstract: Rho family GTPases belong to the Ras GTPase superfamily and transduce intracellular signals known to regulate a variety of cellular processes, including cell polarity, morphogenesis, migration, apoptosis, vesicle trafficking, viral transport and cellular transformation. The three best-characterized Rho family members are Cdc42, RhoA and Rac1. Cdc42 regulates endocytosis, the transport between the endoplasmic reticulum and Golgi apparatus, post-Golgi transport and exocytosis. Cdc42 influences trafficking through interaction with Wiskott-Aldrich syndrome protein (N-WASP) and the Arp2/3 complex, leading to changes in actin dynamics. -
The Development of Cisplatin Resistance in Neuroblastoma Is
Cancer Letters 364 (2015) 142–155 Contents lists available at ScienceDirect Cancer Letters journal homepage: www.elsevier.com/locate/canlet Original Articles The development of cisplatin resistance in neuroblastoma is accompanied by epithelial to mesenchymal transition in vitro Olga Piskareva a,b,*, Harry Harvey a,b, John Nolan a,b, Ross Conlon a,b, Leah Alcock a, Patrick Buckley c, Paul Dowling d,e, Michael Henry e, Finbarr O’Sullivan e, Isabella Bray a,b, Raymond L. Stallings a,b a Cancer Genetics Group, Department of Molecular and Cellular Therapeutics, Royal College of Surgeons in Ireland, Dublin 2, Ireland b Children’s Research Centre, Our Lady’s Children’s Hospital, Crumlin, Dublin 12, Ireland c Molecular Pathology Laboratory, Beaumont Hospital, Dublin 9, Ireland d Department of Biology, The National University of Ireland Maynooth, Maynooth, County Kildare, Ireland e National Institute for Cellular Biotechnology, Dublin City University, Dublin 9, Ireland ARTICLE INFO ABSTRACT Article history: Neuroblastoma is a challenging childhood malignancy, with a very high percentage of patients relaps- Received 18 February 2015 ing following acquisition of drug resistance, thereby necessitating the identification of mechanisms of Received in revised form 10 April 2015 drug resistance as well as new biological targets contributing to the aggressive pathogenicity of the disease. Accepted 4 May 2015 In order to investigate the molecular pathways that are involved with drug resistance in neuroblas- toma, we have developed and characterised cisplatin resistant sublines SK-N-ASCis24, KellyCis83 and CHP- Keywords: 212Cis100, integrating data of cell behaviour, cytotoxicity, genomic alterations and modulation of protein Neuroblastoma expression. All three cisplatin resistant cell lines demonstrated cross resistance to temozolomide, etoposide Proteomics Cisplatin and irinotecan, all of which are drugs in re-initiation therapy. -
Mitochondrial Protection by the Mixed Muscarinic/O1 Ligand ANAVEX2-73
Mitochondrial protection by the mixed muscarinic/o1 ligand ANAVEX2-73, a tetrahydrofuran derivative, in Aβ25-35 peptide-injected mice, a nontransgenic Alzheimer’s disease model Valentine Lahmy, Romain Long, Didier Morin, Vanessa Villard, Tangui Maurice To cite this version: Valentine Lahmy, Romain Long, Didier Morin, Vanessa Villard, Tangui Maurice. Mitochondrial pro- tection by the mixed muscarinic/o1 ligand ANAVEX2-73, a tetrahydrofuran derivative, in Aβ25-35 peptide-injected mice, a nontransgenic Alzheimer’s disease model. Frontiers in Cellular Neuroscience, Frontiers, 2015, 8, 10.3389/fncel.2014.00463. hal-01922607 HAL Id: hal-01922607 https://hal.archives-ouvertes.fr/hal-01922607 Submitted on 27 May 2021 HAL is a multi-disciplinary open access L’archive ouverte pluridisciplinaire HAL, est archive for the deposit and dissemination of sci- destinée au dépôt et à la diffusion de documents entific research documents, whether they are pub- scientifiques de niveau recherche, publiés ou non, lished or not. The documents may come from émanant des établissements d’enseignement et de teaching and research institutions in France or recherche français ou étrangers, des laboratoires abroad, or from public or private research centers. publics ou privés. Distributed under a Creative Commons Attribution| 4.0 International License ORIGINAL RESEARCH ARTICLE published: 20 January 2015 CELLULAR NEUROSCIENCE doi: 10.3389/fncel.2014.00463 Mitochondrial protection by the mixed muscarinic/s1 ligand ANAVEX2-73, a tetrahydrofuran derivative, in Ab25–35 peptide-injected -
Biochemical and Functional Characterization of Rhosap: a Rhogap of the Postsynaptic Density
Institut für Anatomie and Zellbiologie Direktor: Professor Dr. med. Tobias M. Böckers Biochemical and functional characterization of RhoSAP: A RhoGAP of the postsynaptic density Dissertation zur Erlangung des Doktorgrades Dr. biol. hum. der Medizinischen Fakultät der Universität Ulm Eingereicht von: Janine Dahl aus Ludwigslust 2008 Dekan: Prof. Dr. med. Klaus-Michael Debatin Erster Gutachter: Prof. Dr. med. Tobias M. Böckers Zweiter Gutachter: Prof. Dr. rer. nat. Dietmar Fischer Tag der Promotion: Abstract Biochemical and functional characterization of RhoSAP: A Rho GAP of the postsynaptic density By Janine Dahl Ulm University Glutamatergic synapses in the central nervous system are characterized by an electron dense network of proteins underneath the postsynaptic membrane including cell adhesion molecules, cytoskeletal proteins, scaffolding and adaptor proteins, membrane bound receptors and channels, G-proteins and a wide range of different signalling modulators and effectors. This so called postsynaptic density (PSD) resembles a highly complex signaling machinery. We performed a yeast two-hybrid (YTH) screen with the PDZ domain of the PSD scaffolding molecule ProSAP2/Shank3 as bait and identified a novel interacting protein. This molecule was named after its Rho GAP domain: RhoSAP (Rho GTPase Synapse Associated Protein), which was shown to be active for Cdc42 and Rac1 by a GAP activity assay. Besides its Rho GAP domain, RhoSAP contains an N-terminal BAR domain that might facilitate membrane curvature in endocytic processes. At the C-terminus RhoSAP codes for several proline rich motifs that could possibly act as SH3 binding regions. Therefore, a second YTH screen was carried out with RhoSAP’s proline rich C- terminus as bait to discover putative interacting proteins. -
Chp, a Homologue of the Gtpase Cdc42hs, Activates the JNK Pathway and Is Implicated in Reorganizing the Actin Cytoskeleton Ami Aronheim*, Yehoshua C
CORE Metadata, citation and similar papers at core.ac.uk Provided by Elsevier - Publisher Connector Brief Communication 1125 Chp, a homologue of the GTPase Cdc42Hs, activates the JNK pathway and is implicated in reorganizing the actin cytoskeleton Ami Aronheim*, Yehoshua C. Broder*, Aviva Cohen*, Alexandra Fritsch†, Barbara Belisle† and Arie Abo† The p21-activated protein kinases (PAKs) are Results and discussion activated through direct interaction with the GTPases Isolation of a Cdc42Hs homologue that interacts Rac and Cdc42Hs, which are implicated in the control specifically with Pak65 of the mitogen-activated protein kinase (MAP kinase) To identify proteins that interact with Pak65, we used a c-Jun N-terminal kinase (JNK) and the reorganization modified form of the Sos recruitment system (SRS) [4,5]. of the actin cytoskeleton [1–3]. The exact role of the The Pak2 regulatory domain (PakR) was fused to the car- PAK proteins in these signaling pathways is not boxyl terminus of RasL61 devoid of its membrane attach- entirely clear. To elucidate the biological function of ment signals (Ras(L61)∆F–PakR) and used to cotransform Pak2 and to identify its molecular targets, we used a cdc25-2 cells with a pituitary cDNA library containing the novel two-hybrid system, the Ras recruitment system v-Src myristoylation sequence as previously described [5]. (RRS), that aims to detect protein–protein Five galactose-dependent clones were isolated and the interactions at the inner surface of the plasma specificity of the interaction examined. Clones #1, #2, #5 membrane (described in the accompanying paper by and #6 were able to grow at 36°C when cotransformed Broder et al. -
Disruption of Nucleocytoplasmic Trafficking As a Cellular Senescence
www.nature.com/emm ARTICLE OPEN Disruption of nucleocytoplasmic trafficking as a cellular senescence driver Ji-Hwan Park1,14, Sung Jin Ryu2,13,14, Byung Ju Kim3,13,14, Hyun-Ji Cho3, Chi Hyun Park4, Hyo Jei Claudia Choi2, Eun-Jin Jang3, Eun Jae Yang5, Jeong-A Hwang5, Seung-Hwa Woo5, Jun Hyung Lee5, Ji Hwan Park5, Kyung-Mi Choi6, Young-Yon Kwon6, 6 7 3 3 8 9 10 5 ✉ Cheol-Koo Lee , Joon✉ Tae Park , Sung✉ Chun Cho , Yun-Il Lee , Sung✉ Bae Lee , Jeong A. Han , Kyung A. Cho , Min-Sik Kim , Daehee Hwang11 , Young-Sam Lee3,5 and Sang Chul Park3,12 © The Author(s) 2021 Senescent cells exhibit a reduced response to intrinsic and extrinsic stimuli. This diminished reaction may be explained by the disrupted transmission of nuclear signals. However, this hypothesis requires more evidence before it can be accepted as a mechanism of cellular senescence. A proteomic analysis of the cytoplasmic and nuclear fractions obtained from young and senescent cells revealed disruption of nucleocytoplasmic trafficking (NCT) as an essential feature of replicative senescence (RS) at the global level. Blocking NCT either chemically or genetically induced the acquisition of an RS-like senescence phenotype, named nuclear barrier-induced senescence (NBIS). A transcriptome analysis revealed that, among various types of cellular senescence, NBIS exhibited a gene expression pattern most similar to that of RS. Core proteomic and transcriptomic patterns common to both RS and NBIS included upregulation of the endocytosis-lysosome network and downregulation of NCT in senescent cells, patterns also observed in an aging yeast model. -
Presentation in Dendritic Cells Small Rho Gtpases Regulate Antigen
Small Rho GTPases Regulate Antigen Presentation in Dendritic Cells Galina V. Shurin, Irina L. Tourkova, Gurkamal S. Chatta, Gudula Schmidt, Sheng Wei, Julie Y. Djeu and Michael R. This information is current as Shurin of September 26, 2021. J Immunol 2005; 174:3394-3400; ; doi: 10.4049/jimmunol.174.6.3394 http://www.jimmunol.org/content/174/6/3394 Downloaded from References This article cites 40 articles, 18 of which you can access for free at: http://www.jimmunol.org/content/174/6/3394.full#ref-list-1 http://www.jimmunol.org/ Why The JI? Submit online. • Rapid Reviews! 30 days* from submission to initial decision • No Triage! Every submission reviewed by practicing scientists • Fast Publication! 4 weeks from acceptance to publication by guest on September 26, 2021 *average Subscription Information about subscribing to The Journal of Immunology is online at: http://jimmunol.org/subscription Permissions Submit copyright permission requests at: http://www.aai.org/About/Publications/JI/copyright.html Email Alerts Receive free email-alerts when new articles cite this article. Sign up at: http://jimmunol.org/alerts The Journal of Immunology is published twice each month by The American Association of Immunologists, Inc., 1451 Rockville Pike, Suite 650, Rockville, MD 20852 Copyright © 2005 by The American Association of Immunologists All rights reserved. Print ISSN: 0022-1767 Online ISSN: 1550-6606. The Journal of Immunology Small Rho GTPases Regulate Antigen Presentation in Dendritic Cells1 Galina V. Shurin,* Irina L. Tourkova,* Gurkamal S. Chatta,‡ Gudula Schmidt,§ Sheng Wei,¶ Julie Y. Djeu,¶ and Michael R. Shurin2*† Dendritic cells (DC) are involved in the regulation of innate and adaptive immunity. -
Antibodies for Cell Biology: Cell Death
ptglab.com 1 ANTIBODIES FOR CELL BIOLOGY CELL DEATH www.ptglab.com 2 Antibodies For Cell Biology: Cell Death Front Cover: Immunohistochemical of paraffin-embedded human ovary using DHCR24 antibody (10471-1-AP) at a dilution of 1:100 (10x objective). ptglab.com 3 WELCOME Foreword Billions of cells undergo apoptosis in our bodies each day. Although this process ends in the death of a cell it is a process essential to life. The inhibition of apoptosis can result in a number of cancers, autoimmune complications and inflammatory diseases. We have included a range of antibodies related to both extrinsic and intrinsic apoptotic pathways in this catalog. As well as apoptosis, cell death can occur in Another destructive process essential several other ways such as necrosis and nerve for health is autophagy. Though initially excitotoxicity. These processes differ in nature considered to be a form of non-apoptotic from apoptosis and autophagy in that they cell death, a consensus has emerged that are uncontrolled and lead to the lysis of cells, autophagy, in reality, functions primarily to inflammatory responses and potentially, to uphold cellular and organismal health and serious health problems. As another important not end exclusively in cell death. You can find aspect of cell death, we have also included more about autophagy – one of cell biology’s some of our antibodies relating to lytic death most intriguing phenomena – in the focus and proteolysis in this comprehensive selection articles in this catalog, including how it plays of our cell death-related antibodies. a role in cardiac health and how it may play a role in balance sensing in mammals. -
Multiple Sequence Elements Facilitate Chp Rho Gtpase Subcellular Location, Membrane Association, and Transforming Activity Emily J
Molecular Biology of the Cell Vol. 17, 3108–3121, July 2006 Multiple Sequence Elements Facilitate Chp Rho GTPase Subcellular Location, Membrane Association, and Transforming Activity Emily J. Chenette,*† Natalia Y. Mitin,†‡ and Channing J. Der*†‡ *Curriculum in Genetics and Molecular Biology, ‡Department of Pharmacology, and †Lineberger Comprehensive Cancer Center, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599-7295 Submitted September 27, 2005; Revised April 18, 2006; Accepted April 19, 2006 Monitoring Editor: J. Silvio Gutkind Cdc42 homologous protein (Chp) is a member of the Rho family of small GTPases and shares significant sequence and functional similarity with Cdc42. However, unlike classical Rho GTPases, we recently found that Chp depends on palmitoylation, rather than prenylation, for association with cellular membranes. Because palmitoylation alone is typically not sufficient to promote membrane association, we evaluated the possibility that other carboxy-terminal residues facilitate Chp subcellular association with membranes. We found that Chp membrane association and trans- forming activity was dependent on the integrity of a stretch of basic amino acids in the carboxy terminus of Chp and that the basic amino acids were not simply part of a palmitoyl acyltransferase recognition motif. We also determined that the 11 carboxy-terminal residues alone were sufficient to promote Chp plasma and endomembrane association. Interestingly, stimulation with tumor necrosis factor-␣ activated only endomembrane-associated Chp. Finally, we found that Chp membrane association was not disrupted by Rho guanine nucleotide dissociation inhibitory proteins, which are negative regulators of Cdc42 membrane association and biological activity. In summary, the unique carboxy-terminal sequence elements that promote Chp subcellular location and function expand the complexity of mechanisms by which the cellular functions of Rho GTPases are regulated. -
STAT3 Targets Suggest Mechanisms of Aggressive Tumorigenesis in Diffuse Large B Cell Lymphoma
STAT3 Targets Suggest Mechanisms of Aggressive Tumorigenesis in Diffuse Large B Cell Lymphoma Jennifer Hardee*,§, Zhengqing Ouyang*,1,2,3, Yuping Zhang*,4 , Anshul Kundaje*,†, Philippe Lacroute*, Michael Snyder*,5 *Department of Genetics, Stanford University School of Medicine, Stanford, CA 94305; §Department of Molecular, Cellular, and Developmental Biology, Yale University, New Haven, CT 06520; and †Department of Computer Science, Stanford University School of Engineering, Stanford, CA 94305 1The Jackson Laboratory for Genomic Medicine, Farmington, CT 06030 2Department of Biomedical Engineering, University of Connecticut, Storrs, CT 06269 3Department of Genetics and Developmental Biology, University of Connecticut Health Center, Farmington, CT 06030 4Department of Biostatistics, Yale School of Public Health, Yale University, New Haven, CT 06520 5Corresponding author: Department of Genetics, Stanford University School of Medicine, Stanford, CA 94305. Email: [email protected] DOI: 10.1534/g3.113.007674 Figure S1 STAT3 immunoblotting and immunoprecipitation with sc-482. Western blot and IPs show a band consistent with expected size (88 kDa) of STAT3. (A) Western blot using antibody sc-482 versus nuclear lysates. Lanes contain (from left to right) lysate from K562 cells, GM12878 cells, HeLa S3 cells, and HepG2 cells. (B) IP of STAT3 using sc-482 in HeLa S3 cells. Lane 1: input nuclear lysate; lane 2: unbound material from IP with sc-482; lane 3: material IP’d with sc-482; lane 4: material IP’d using control rabbit IgG. Arrow indicates the band of interest. (C) IP of STAT3 using sc-482 in K562 cells. Lane 1: input nuclear lysate; lane 2: material IP’d using control rabbit IgG; lane 3: material IP’d with sc-482.