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Injury by Mechanical Ventilation Gene Transcription and Promotion Of
Modulation of Lipopolysaccharide-Induced Gene Transcription and Promotion of Lung Injury by Mechanical Ventilation This information is current as William A. Altemeier, Gustavo Matute-Bello, Sina A. of September 29, 2021. Gharib, Robb W. Glenny, Thomas R. Martin and W. Conrad Liles J Immunol 2005; 175:3369-3376; ; doi: 10.4049/jimmunol.175.5.3369 http://www.jimmunol.org/content/175/5/3369 Downloaded from Supplementary http://www.jimmunol.org/content/suppl/2005/08/23/175.5.3369.DC1 Material http://www.jimmunol.org/ References This article cites 37 articles, 7 of which you can access for free at: http://www.jimmunol.org/content/175/5/3369.full#ref-list-1 Why The JI? Submit online. • Rapid Reviews! 30 days* from submission to initial decision by guest on September 29, 2021 • No Triage! Every submission reviewed by practicing scientists • Fast Publication! 4 weeks from acceptance to publication *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 Modulation of Lipopolysaccharide-Induced Gene Transcription and Promotion of Lung Injury by Mechanical Ventilation1 William A. -
Blimp1 Regulates the Transition of Neonatal to Adult Intestinal Epithelium
UCLA UCLA Previously Published Works Title Blimp1 regulates the transition of neonatal to adult intestinal epithelium. Permalink https://escholarship.org/uc/item/01x184nd Journal Nature communications, 2(1) ISSN 2041-1723 Authors Muncan, Vanesa Heijmans, Jarom Krasinski, Stephen D et al. Publication Date 2011-08-30 DOI 10.1038/ncomms1463 Peer reviewed eScholarship.org Powered by the California Digital Library University of California ARTICLE Received 11 May 2011 | Accepted 28 Jul 2011 | Published 30 Aug 2011 DOI: 10.1038/ncomms1463 Blimp1 regulates the transition of neonatal to adult intestinal epithelium Vanesa Muncan1,2,3, Jarom Heijmans1,2,3, Stephen D. Krasinski4, Nikè V. Büller1,2,3, Manon E. Wildenberg1,2,3, Sander Meisner1, Marijana Radonjic5, Kelly A. Stapleton4, Wout H. Lamers1, Izak Biemond3, Marius A. van den Bergh Weerman6, Dónal O’Carroll7, James C. Hardwick3, Daniel W. Hommes3 & Gijs R. van den Brink1,2,3 In many mammalian species, the intestinal epithelium undergoes major changes that allow a dietary transition from mother’s milk to the adult diet at the end of the suckling period. These complex developmental changes are the result of a genetic programme intrinsic to the gut tube, but its regulators have not been identified. Here we show that transcriptional repressor B lymphocyte-induced maturation protein 1 (Blimp1) is highly expressed in the developing and postnatal intestinal epithelium until the suckling to weaning transition. Intestine-specific deletion of Blimp1 results in growth retardation and excessive neonatal mortality. Mutant mice lack all of the typical epithelial features of the suckling period and are born with features of an adult-like intestine. -
Yeast Genome Gazetteer P35-65
gazetteer Metabolism 35 tRNA modification mitochondrial transport amino-acid metabolism other tRNA-transcription activities vesicular transport (Golgi network, etc.) nitrogen and sulphur metabolism mRNA synthesis peroxisomal transport nucleotide metabolism mRNA processing (splicing) vacuolar transport phosphate metabolism mRNA processing (5’-end, 3’-end processing extracellular transport carbohydrate metabolism and mRNA degradation) cellular import lipid, fatty-acid and sterol metabolism other mRNA-transcription activities other intracellular-transport activities biosynthesis of vitamins, cofactors and RNA transport prosthetic groups other transcription activities Cellular organization and biogenesis 54 ionic homeostasis organization and biogenesis of cell wall and Protein synthesis 48 plasma membrane Energy 40 ribosomal proteins organization and biogenesis of glycolysis translation (initiation,elongation and cytoskeleton gluconeogenesis termination) organization and biogenesis of endoplasmic pentose-phosphate pathway translational control reticulum and Golgi tricarboxylic-acid pathway tRNA synthetases organization and biogenesis of chromosome respiration other protein-synthesis activities structure fermentation mitochondrial organization and biogenesis metabolism of energy reserves (glycogen Protein destination 49 peroxisomal organization and biogenesis and trehalose) protein folding and stabilization endosomal organization and biogenesis other energy-generation activities protein targeting, sorting and translocation vacuolar and lysosomal -
Parallel Multi-Omics in High-Risk Subjects for the Identification Of
biomolecules Article Parallel Multi-Omics in High-Risk Subjects for the Identification of Integrated Biomarker Signatures of Type 1 Diabetes Oscar Alcazar 1,†, Luis F. Hernandez 1,†, Ernesto S. Nakayasu 2 , Carrie D. Nicora 2, Charles Ansong 2, Michael J. Muehlbauer 3, James R. Bain 3 , Ciara J. Myer 4,5, Sanjoy K. Bhattacharya 4,5, Peter Buchwald 1,6,*,† and Midhat H. Abdulreda 1,4,7,8,*,† 1 Diabetes Research Institute, University of Miami Miller School of Medicine, Miami, FL 33136, USA; [email protected] (O.A.); [email protected] (L.F.H.) 2 Biological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99354, USA; [email protected] (E.S.N.); [email protected] (C.D.N.); [email protected] (C.A.) 3 Duke Molecular Physiology Institute, Duke University Medical Center, Durham, NC 27701, USA; [email protected] (M.J.M.); [email protected] (J.R.B.) 4 Department of Ophthalmology, University of Miami Miller School of Medicine, Miami, FL 33136, USA; [email protected] (C.J.M.); [email protected] (S.K.B.) 5 Miami Integrative Metabolomics Research Center, University of Miami Miller School of Medicine, Miami, FL 33136, USA 6 Department of Molecular and Cellular Pharmacology, University of Miami Miller School of Medicine, Miami, FL 33136, USA 7 Department of Surgery, University of Miami Miller School of Medicine, Miami, FL 33136, USA 8 Department of Microbiology and Immunology, University of Miami Miller School of Medicine, Citation: Alcazar, O.; Hernandez, Miami, FL 33136, USA L.F.; Nakayasu, E.S.; Nicora, C.D.; * Correspondence: [email protected] (P.B.); [email protected] (M.H.A.) Ansong, C.; Muehlbauer, M.J.; Bain, † These authors contributed equally. -
Figure S1. HAEC ROS Production and ML090 NOX5-Inhibition
Figure S1. HAEC ROS production and ML090 NOX5-inhibition. (a) Extracellular H2O2 production in HAEC treated with ML090 at different concentrations and 24 h after being infected with GFP and NOX5-β adenoviruses (MOI 100). **p< 0.01, and ****p< 0.0001 vs control NOX5-β-infected cells (ML090, 0 nM). Results expressed as mean ± SEM. Fold increase vs GFP-infected cells with 0 nM of ML090. n= 6. (b) NOX5-β overexpression and DHE oxidation in HAEC. Representative images from three experiments are shown. Intracellular superoxide anion production of HAEC 24 h after infection with GFP and NOX5-β adenoviruses at different MOIs treated or not with ML090 (10 nM). MOI: Multiplicity of infection. Figure S2. Ontology analysis of HAEC infected with NOX5-β. Ontology analysis shows that the response to unfolded protein is the most relevant. Figure S3. UPR mRNA expression in heart of infarcted transgenic mice. n= 12-13. Results expressed as mean ± SEM. Table S1: Altered gene expression due to NOX5-β expression at 12 h (bold, highlighted in yellow). N12hvsG12h N18hvsG18h N24hvsG24h GeneName GeneDescription TranscriptID logFC p-value logFC p-value logFC p-value family with sequence similarity NM_052966 1.45 1.20E-17 2.44 3.27E-19 2.96 6.24E-21 FAM129A 129. member A DnaJ (Hsp40) homolog. NM_001130182 2.19 9.83E-20 2.94 2.90E-19 3.01 1.68E-19 DNAJA4 subfamily A. member 4 phorbol-12-myristate-13-acetate- NM_021127 0.93 1.84E-12 2.41 1.32E-17 2.69 1.43E-18 PMAIP1 induced protein 1 E2F7 E2F transcription factor 7 NM_203394 0.71 8.35E-11 2.20 2.21E-17 2.48 1.84E-18 DnaJ (Hsp40) homolog. -
The Impact of Transcription Factor Prospero Homeobox 1 on the Regulation of Thyroid Cancer Malignancy
International Journal of Molecular Sciences Review The Impact of Transcription Factor Prospero Homeobox 1 on the Regulation of Thyroid Cancer Malignancy Magdalena Rudzi ´nska 1,2 and Barbara Czarnocka 1,* 1 Department of Biochemistry and Molecular Biology, Centre of Postgraduate Medical Education, 01-813 Warsaw, Poland; [email protected] 2 Institute of Molecular Medicine, Sechenov First Moscow State Medical University, 119991 Moscow, Russia * Correspondence: [email protected]; Tel.: +48-225693812; Fax: +48-225693712 Received: 7 April 2020; Accepted: 30 April 2020; Published: 2 May 2020 Abstract: Transcription factor Prospero homeobox 1 (PROX1) is continuously expressed in the lymphatic endothelial cells, playing an essential role in their differentiation. Many reports have shown that PROX1 is implicated in cancer development and acts as an oncoprotein or suppressor in a tissue-dependent manner. Additionally, the PROX1 expression in many types of tumors has prognostic significance and is associated with patient outcomes. In our previous experimental studies, we showed that PROX1 is present in the thyroid cancer (THC) cells of different origins and has a high impact on follicular thyroid cancer (FTC) phenotypes, regulating migration, invasion, focal adhesion, cytoskeleton reorganization, and angiogenesis. Herein, we discuss the PROX1 transcript and protein structures, the expression pattern of PROX1 in THC specimens, and its epigenetic regulation. Next, we emphasize the biological processes and genes regulated by PROX1 in CGTH-W-1 cells, derived from squamous cell carcinoma of the thyroid gland. Finally, we discuss the interaction of PROX1 with other lymphatic factors. In our review, we aimed to highlight the importance of vascular molecules in cancer development and provide an update on the functionality of PROX1 in THC biology regulation. -
Alzheimer's Disease As a Chronic Maladaptive Polyamine Stress
Preprints (www.preprints.org) | NOT PEER-REVIEWED | Posted: 17 February 2021 doi:10.20944/preprints202102.0362.v1 Alzheimer’s disease as a chronic maladaptive polyamine stress response Review Baruh Polis1, David Karasik2,3, Abraham O. Samson1 1 Drug Discovery Laboratory, The Azrieli Faculty of Medicine, Bar-Ilan University, Safed, 1311502, Israel. 2 Hebrew SeniorLife, Hinda and Arthur Marcus Institute for Aging Research, Boston, MA, 02131, USA 3 Musculoskeletal Genetics Laboratory, The Azrieli Faculty of Medicine, Bar-Ilan University, Safed, 1311502, Israel. Correspondence to Baruh Polis [email protected] Keywords: polyamines; arginase; senescence; aging; neurodegeneration. 1 © 2021 by the author(s). Distributed under a Creative Commons CC BY license. Preprints (www.preprints.org) | NOT PEER-REVIEWED | Posted: 17 February 2021 doi:10.20944/preprints202102.0362.v1 Abstract Polyamines are nitrogen-rich polycationic ubiquitous bioactive molecules with diverse evolutionary-conserved functions. Their activity interferes with numerous genes' expression resulting in cell proliferation and signaling modulation. The intracellular levels of polyamines are precisely controlled by evolutionary-conserved machinery. Their transient synthesis is induced by heat stress, radiation, and other traumatic stimuli in a process termed the polyamine stress response (PSR). Notably, polyamine levels decline gradually with age; and external supplementation improves lifespan in model organisms. This corresponds to cytoprotective and reactive oxygen species scavenging properties of polyamines. Paradoxically, age-associated neurodegenerative disorders are characterized by an upsurge in polyamine levels, indicating polyamine pleiotropic, adaptive, and pathogenic roles. Specifically, arginase overactivation and arginine brain deprivation have been shown to play an important role in Alzheimer’s disease (AD) pathogenesis. Here, we assert that a universal short-term PSR associated with acute stimuli is beneficial for survival. -
Genome-Wide Investigation of Cellular Functions for Trna Nucleus
Genome-wide Investigation of Cellular Functions for tRNA Nucleus- Cytoplasm Trafficking in the Yeast Saccharomyces cerevisiae DISSERTATION Presented in Partial Fulfillment of the Requirements for the Degree Doctor of Philosophy in the Graduate School of The Ohio State University By Hui-Yi Chu Graduate Program in Molecular, Cellular and Developmental Biology The Ohio State University 2012 Dissertation Committee: Anita K. Hopper, Advisor Stephen Osmani Kurt Fredrick Jane Jackman Copyright by Hui-Yi Chu 2012 Abstract In eukaryotic cells tRNAs are transcribed in the nucleus and exported to the cytoplasm for their essential role in protein synthesis. This export event was thought to be unidirectional. Surprisingly, several lines of evidence showed that mature cytoplasmic tRNAs shuttle between nucleus and cytoplasm and their distribution is nutrient-dependent. This newly discovered tRNA retrograde process is conserved from yeast to vertebrates. Although how exactly the tRNA nuclear-cytoplasmic trafficking is regulated is still under investigation, previous studies identified several transporters involved in tRNA subcellular dynamics. At least three members of the β-importin family function in tRNA nuclear-cytoplasmic intracellular movement: (1) Los1 functions in both the tRNA primary export and re-export processes; (2) Mtr10, directly or indirectly, is responsible for the constitutive retrograde import of cytoplasmic tRNA to the nucleus; (3) Msn5 functions solely in the re-export process. In this thesis I focus on the physiological role(s) of the tRNA nuclear retrograde pathway. One possibility is that nuclear accumulation of cytoplasmic tRNA serves to modulate translation of particular transcripts. To test this hypothesis, I compared expression profiles from non-translating mRNAs and polyribosome-bound translating mRNAs collected from msn5Δ and mtr10Δ mutants and wild-type cells, in fed or acute amino acid starvation conditions. -
RT² Profiler PCR Array (96-Well Format and 384-Well [4 X 96] Format)
RT² Profiler PCR Array (96-Well Format and 384-Well [4 x 96] Format) Human Neurotoxicity Cat. no. 330231 PAHS-096ZA For pathway expression analysis Format For use with the following real-time cyclers RT² Profiler PCR Array, Applied Biosystems® models 5700, 7000, 7300, 7500, Format A 7700, 7900HT, ViiA™ 7 (96-well block); Bio-Rad® models iCycler®, iQ™5, MyiQ™, MyiQ2; Bio-Rad/MJ Research Chromo4™; Eppendorf® Mastercycler® ep realplex models 2, 2s, 4, 4s; Stratagene® models Mx3005P®, Mx3000P®; Takara TP-800 RT² Profiler PCR Array, Applied Biosystems models 7500 (Fast block), 7900HT (Fast Format C block), StepOnePlus™, ViiA 7 (Fast block) RT² Profiler PCR Array, Bio-Rad CFX96™; Bio-Rad/MJ Research models DNA Format D Engine Opticon®, DNA Engine Opticon 2; Stratagene Mx4000® RT² Profiler PCR Array, Applied Biosystems models 7900HT (384-well block), ViiA 7 Format E (384-well block); Bio-Rad CFX384™ RT² Profiler PCR Array, Roche® LightCycler® 480 (96-well block) Format F RT² Profiler PCR Array, Roche LightCycler 480 (384-well block) Format G RT² Profiler PCR Array, Fluidigm® BioMark™ Format H Sample & Assay Technologies Description The Human Neurotoxicity RT² Profiler PCR Array profiles the expression of 84 key genes involved in drug and chemical-induced neurotoxic responses. Minimizing toxicity remains one of the major barriers to bringing a drug to and keeping a drug on the market. Neurotoxicity represents a frequent and troublesome side-effect, making the central and peripheral nervous systems important targets of toxicological studies. However, the simplest measurable phenotypic response to neurotoxicants is cell death upon chronic exposure, a potentially expensive and time-consuming experiment. -
Overview and Case Reports of Three Patients, Including Two Now Receiving Gene Therapy
003 1-3998/93/3301-OS42$03.00/0 PEDIATRIC RESEARCH Vol. 33 (Suppl), No. 1, 1993 Copyright O 1992 International Pediatric Research Foundation, Inc Printed in U.S. A. Enzyme Replacement Therapy with Polyethylene Glycol-Adenosine Deaminase in Adenosine Deaminase Deficiency: Overview and Case Reports of Three Patients, Including Two Now Receiving Gene Therapy MICHAEL S. HERSHFIELD, SARA CHAFFEE, AND RICARDO U. SORENSEN Departments ofMedicine and Pediatrics, Duke University Medical Center, Durham, North Carolina 27710; and Department of Pediatrics, Division ofAllergy and Immunology, Louisiana State University Medical Center, New Orleans, Louisiana 70112 ABSTRACT. During the past 6 y, 29 adenosine deaminase Detailed study of the initial patient and another provided (ADA)-deficient patients with combined immunodeficiency information about the pharmacokinetics of PEG-ADA and sug- have been treated with polyethylene glycol (PEG)-modified gested that weekly injections could be effective in correcting bovine ADA (PEG-ADA). We have monitored plasma metabolic abnormalities and restoring a degree of immune func- ADA activity, metabolic effects of treatment, and the evo- tion (1). An international clinical trial followed in which we lution of antibody to PEG-ADA in these patients, in col- monitored the biochemical and metabolic effects of PEG-ADA laboration with immunologists and clinicians in North and the evolution of anti-ADA antibodies, in collaboration with America, Europe, and Australia, who have monitored im- the physicians and immunologists who cared for affected patients mune function and clinical response to treatment. This and evaluated their clinical status and immunologic function. article summarizes the current status of PEG-ADA ther- Results with several patients treated with PEG-ADA for periods apy and provides recommendations for its use. -
Arginase As a Potential Biomarker of Disease Progression: a Molecular Imaging Perspective
International Journal of Molecular Sciences Review Arginase as a Potential Biomarker of Disease Progression: A Molecular Imaging Perspective Gonçalo S. Clemente 1 , Aren van Waarde 1, Inês F. Antunes 1, Alexander Dömling 2 and Philip H. Elsinga 1,* 1 Department of Nuclear Medicine and Molecular Imaging, University Medical Center Groningen, University of Groningen, 9713 GZ Groningen, The Netherlands; [email protected] (G.S.C.); [email protected] (A.v.W.); [email protected] (I.F.A.) 2 Department of Drug Design, Groningen Research Institute of Pharmacy, University of Groningen, 9713 AV Groningen, The Netherlands; [email protected] * Correspondence: [email protected]; Tel.: +31-50-361-3247 Received: 2 July 2020; Accepted: 23 July 2020; Published: 25 July 2020 Abstract: Arginase is a widely known enzyme of the urea cycle that catalyzes the hydrolysis of L-arginine to L-ornithine and urea. The action of arginase goes beyond the boundaries of hepatic ureogenic function, being widespread through most tissues. Two arginase isoforms coexist, the type I (Arg1) predominantly expressed in the liver and the type II (Arg2) expressed throughout extrahepatic tissues. By producing L-ornithine while competing with nitric oxide synthase (NOS) for the same substrate (L-arginine), arginase can influence the endogenous levels of polyamines, proline, and NO•. Several pathophysiological processes may deregulate arginase/NOS balance, disturbing the homeostasis and functionality of the organism. Upregulated arginase expression is associated with several pathological processes that can range from cardiovascular, immune-mediated, and tumorigenic conditions to neurodegenerative disorders. Thus, arginase is a potential biomarker of disease progression and severity and has recently been the subject of research studies regarding the therapeutic efficacy of arginase inhibitors. -
Original Article Downregulation of ARG2 Inhibits Growth of Colorectal Cancer Cells and Increases Expression of the Cd3ζ Chain in Co-Cultured T-Cells
Int J Clin Exp Med 2019;12(6):6946-6957 www.ijcem.com /ISSN:1940-5901/IJCEM0089594 Original Article Downregulation of ARG2 inhibits growth of colorectal cancer cells and increases expression of the CD3ζ chain in co-cultured T-cells Youjun Wu1,2*, Changzheng He1*, Shidong Hu1, Zilong Hu1, Yuxuan Li1, Xiaowei Xing1, Xiaohui Du1 1Department of General Surgery, The 1st Medical Center of Chinese People’s Liberation Army General Hospital, 28 Fuxing Road, Haidian District, Beijing 100853, P.R. China; 2Department of General Surgery, The 8th Medical Center of Chinese People’s Liberation Army General Hospital, Jia 17 Heishanhu Road, Haidian District, Beijing 100091, China. *Equal contributors. Received December 9, 2018; Accepted May 7, 2019; Epub June 15, 2019; Published June 30, 2019 Abstract: Arginase (ARG) 2 is upregulated in some malignancies and has been associated with poor prognosis in patients with these malignancies. The present study aimed to explore expression and function of ARG2 in colorectal cancer (CRC). Expression of ARG2 in CRC tumor tissues was analyzed using the public database Cancer RNA-seq Nexus (CRN). Using Western blotting and RT-qPCR, HT29 cells were selected as target cells for ex vivo experiments. Small interfering RNAs (siRNAs) were then used to silence ARG2 in HT29 cells. The siRNA with the highest interfer- ing efficiency was selected. Cell Counting Kit-8, would healing assays, and Transwell assays were subsequently per- formed, aiming to elucidate the proliferation and invasion of CRC cells. The impact of ARG2 on cell cycle/apoptosis was also investigated. In addition, HT29 cells were co-cultured with Jurkat T-cells in a Transwell system to mimic the tumor microenvironment.