The Role of Pitx2 and Pitx3 in Muscle Stem Cells Gives New Insights
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Dermo-1: a Novel Twist-Related Bhlh Protein Expressed in The
DEVELOPMENTAL BIOLOGY 172, 280±292 (1995) Dermo-1: A Novel Twist-Related bHLH Protein View metadata,Expressed citation and similar in papers the at core.ac.uk Developing Dermis brought to you by CORE provided by Elsevier - Publisher Connector Li Li, Peter Cserjesi,1 and Eric N. Olson2 Department of Biochemistry and Molecular Biology, Box 117, The University of Texas M. D. Anderson Cancer Center, 1515 Holcombe Boulevard, Houston, Texas 77030 Transcription factors belonging to the basic helix±loop±helix (bHLH) family have been shown to control differentiation of a variety of cell types. Tissue-speci®c bHLH proteins dimerize preferentially with ubiquitous bHLH proteins to form heterodimers that bind the E-box consensus sequence (CANNTG) in the control regions of target genes. Using the yeast two-hybrid system to screen for tissue-speci®c bHLH proteins, which dimerize with the ubiquitous bHLH protein E12, we cloned a novel bHLH protein, named Dermo-1. Within its bHLH region, Dermo-1 shares extensive homology with members of the twist family of bHLH proteins, which are expressed in embryonic mesoderm. During mouse embryogenesis, Dermo- 1 showed an expression pattern similar to, but distinct from, that of mouse twist. Dermo-1 was expressed at a low level in the sclerotome and dermatome of the somites, and in the limb buds at Day 10.5 post coitum (p.c.), and accumulated predominantly in the dermatome, prevertebrae, and the derivatives of the branchial arches by Day 13.5 p.c. As differentiation of prechondrial cells proceeded, Dermo-1 expression became restricted to the perichondrium. Expression of Dermo-1 increased continuously in the dermis through Day 17.5 p.c. -
The Title of the Dissertation
UNIVERSITY OF CALIFORNIA SAN DIEGO Novel network-based integrated analyses of multi-omics data reveal new insights into CD8+ T cell differentiation and mouse embryogenesis A dissertation submitted in partial satisfaction of the requirements for the degree Doctor of Philosophy in Bioinformatics and Systems Biology by Kai Zhang Committee in charge: Professor Wei Wang, Chair Professor Pavel Arkadjevich Pevzner, Co-Chair Professor Vineet Bafna Professor Cornelis Murre Professor Bing Ren 2018 Copyright Kai Zhang, 2018 All rights reserved. The dissertation of Kai Zhang is approved, and it is accept- able in quality and form for publication on microfilm and electronically: Co-Chair Chair University of California San Diego 2018 iii EPIGRAPH The only true wisdom is in knowing you know nothing. —Socrates iv TABLE OF CONTENTS Signature Page ....................................... iii Epigraph ........................................... iv Table of Contents ...................................... v List of Figures ........................................ viii List of Tables ........................................ ix Acknowledgements ..................................... x Vita ............................................. xi Abstract of the Dissertation ................................. xii Chapter 1 General introduction ............................ 1 1.1 The applications of graph theory in bioinformatics ......... 1 1.2 Leveraging graphs to conduct integrated analyses .......... 4 1.3 References .............................. 6 Chapter 2 Systematic -
Progressive Encephalopathy and Central Hypoventilation Related to Homozygosity of NDUFV1 Nuclear Gene, a Rare Mitochondrial Disease
Avens Publishing Group Inviting Innovations Open Access Case Report J Pediatr Child Care August 2019 Volume:5, Issue:1 © All rights are reserved by AL-Buali MJ, et al. AvensJournal Publishing of Group Inviting Innovations Progressive Encephalopathy Pediatrics & and Central Hypoventilation Child Care AL-Buali MJ*, Al Ramadhan S, Al Buali H, Al-Faraj J and Related to Homozygosity of Al Mohanna M Pediatric Department , Maternity Children Hospital , Saudi Arabia *Address for Correspondence: NDUFV1 Nuclear Gene, a Rare Al-buali MJ, Pediatric Consultant and Consultant of Medical Genetics, Deputy Chairman of Medical Genetic Unite, Pediatrics Department , Maternity Children Hospital, Al-hassa, Hofuf city, Mitochondrial Disease Saudi Arabia; E-mail: [email protected] Submission: 15 July 2019 Accepted: 5 August 2019 Keywords: Progressive encephalopathy; Central hypoventilation; Published: 9 August 2019 Nuclear mitochondrial disease; NDUFV1 gene Copyright: © 2019 AL-Buali MJ, et al. This is an open access article distributed under the Creative Commons Attribution License, which Abstract permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. Background: Mitochondrial diseases are a group of disorders caused by dysfunctional organelles that generate energy for our body. Mitochondria small double-membrane organelles found in of the most common groups of genetic diseases with a minimum every cell of the human body except red blood cells. Mitochondrial diseases are sometimes caused by mutations in the mitochondrial DNA prevalence of greater than 1 in 5000 in adults. Mitochondrial diseases that affect mitochondrial function. Other mitochondrial diseases are can be present at birth but can be manifested also at any age [2]. -
In Vitro Treatment of Hepg2 Cells with Saturated Fatty Acids Reproduces
© 2015. Published by The Company of Biologists Ltd | Disease Models & Mechanisms (2015) 8, 183-191 doi:10.1242/dmm.018234 RESEARCH ARTICLE In vitro treatment of HepG2 cells with saturated fatty acids reproduces mitochondrial dysfunction found in nonalcoholic steatohepatitis Inmaculada García-Ruiz1,*, Pablo Solís-Muñoz2, Daniel Fernández-Moreira3, Teresa Muñoz-Yagüe1 and José A. Solís-Herruzo1 ABSTRACT INTRODUCTION Activity of the oxidative phosphorylation system (OXPHOS) is Nonalcoholic fatty liver disease (NAFLD) represents a spectrum of decreased in humans and mice with nonalcoholic steatohepatitis. liver diseases extending from pure fatty liver through nonalcoholic Nitro-oxidative stress seems to be involved in its pathogenesis. The steatohepatitis (NASH) to cirrhosis and hepatocarcinoma that occurs aim of this study was to determine whether fatty acids are implicated in individuals who do not consume a significant amount of alcohol in the pathogenesis of this mitochondrial defect. In HepG2 cells, we (Matteoni et al., 1999). Although the pathogenesis of NAFLD analyzed the effect of saturated (palmitic and stearic acids) and remains undefined, the so-called ‘two hits’ model of pathogenesis monounsaturated (oleic acid) fatty acids on: OXPHOS activity; levels has been proposed (Day and James, 1998). Whereas the ‘first hit’ of protein expression of OXPHOS complexes and their subunits; gene involves the accumulation of fat in the liver, the ‘second hit’ expression and half-life of OXPHOS complexes; nitro-oxidative stress; includes oxidative stress resulting in inflammation, stellate cell and NADPH oxidase gene expression and activity. We also studied the activation, fibrogenesis and progression of NAFLD to NASH effects of inhibiting or silencing NADPH oxidase on the palmitic-acid- (Chitturi and Farrell, 2001). -
Cytochrome P450 Enzymes but Not NADPH Oxidases Are the Source of the MARK NADPH-Dependent Lucigenin Chemiluminescence in Membrane Assays
Free Radical Biology and Medicine 102 (2017) 57–66 Contents lists available at ScienceDirect Free Radical Biology and Medicine journal homepage: www.elsevier.com/locate/freeradbiomed Cytochrome P450 enzymes but not NADPH oxidases are the source of the MARK NADPH-dependent lucigenin chemiluminescence in membrane assays Flávia Rezendea, Kim-Kristin Priora, Oliver Löwea, Ilka Wittigb, Valentina Streckerb, Franziska Molla, Valeska Helfingera, Frank Schnütgenc, Nina Kurrlec, Frank Wempec, Maria Waltera, Sven Zukunftd, Bert Luckd, Ingrid Flemingd, Norbert Weissmanne, ⁎ ⁎ Ralf P. Brandesa, , Katrin Schrödera, a Institute for Cardiovascular Physiology, Goethe-University, Frankfurt, Germany b Functional Proteomics, SFB 815 Core Unit, Goethe-Universität, Frankfurt, Germany c Institute for Molecular Hematology, Goethe-University, Frankfurt, Germany d Institute for Vascular Signaling, Goethe-University, Frankfurt, Germany e University of Giessen, Lung Center, Giessen, Germany ARTICLE INFO ABSTRACT Keywords: Measuring NADPH oxidase (Nox)-derived reactive oxygen species (ROS) in living tissues and cells is a constant NADPH oxidase challenge. All probes available display limitations regarding sensitivity, specificity or demand highly specialized Nox detection techniques. In search for a presumably easy, versatile, sensitive and specific technique, numerous Lucigenin studies have used NADPH-stimulated assays in membrane fractions which have been suggested to reflect Nox Chemiluminescence activity. However, we previously found an unaltered activity with these assays in triple Nox knockout mouse Superoxide (Nox1-Nox2-Nox4-/-) tissue and cells compared to wild type. Moreover, the high ROS production of intact cells Reactive oxygen species Membrane assays overexpressing Nox enzymes could not be recapitulated in NADPH-stimulated membrane assays. Thus, the signal obtained in these assays has to derive from a source other than NADPH oxidases. -
Original Article Extracellular-Vesicles Derived from Human Wharton-Jelly Mesenchymal Stromal Cells Ameliorated Cyclosporin A-Induced Renal Fibrosis in Rats
Int J Clin Exp Med 2019;12(7):8943-8949 www.ijcem.com /ISSN:1940-5901/IJCEM0091514 Original Article Extracellular-vesicles derived from human Wharton-Jelly mesenchymal stromal cells ameliorated cyclosporin A-induced renal fibrosis in rats Guangyuan Zhang1, Shuyang Yu3, Si Sun1, Lei Zhang1, Guangli Zhang4, Kai Xu1, Yuxiao Zheng1,2, Qin Xue4, Ming Chen1 1Department of Urology, Zhongda Hospital, Southeast University, Nanjing 210009, China; 2Department of Urologic Surgery, Jiangsu Cancer Hospital & Jiangsu Institute of Cancer Research & Affiliated Cancer Hospital of Nanjing Medical University, Nanjing 210009, China; 3Department of Radiology, Dezhou United Hospital, Dezhou 253017, Shandong, China; 4Department of Nephrology, Shanghai Jiao Tong University Affiliated Sixth People’s Hospital, Shanghai 200233, China Received January 19, 2019; Accepted April 11, 2019; Epub July 15, 2019; Published July 30, 2019 Abstract: Objective: To observe the therapeutic effects of human Wharton-Jelly mesenchymal stromal cells derived extracellular vesicles (MSCs-EVs) for cyclosporin-A-induced renal injury in rats and further to investigate the mecha- nism. Methods: EVs from MSCs were made using the ultra-centrifugation method. The cyclosporin A-induced renal injury model in rats was set up, and MSCs-EVs were administrated at d7 and d21 intravenously. The animals were sacrificed at d28, and the serum and kidneys were obtained. Renal fibrosis was assessed using Masson’s staining and α-SMA IHC staining. Renal function was determined using serum creatinine. The SOD and malondialdehyde (MDA) in the renal tissues were also assayed. In vitro, HK2 cells were injured by CsA for 24 h as well as incubated with MSCs-EVs administration, and ROS and α-SMA expression were assessed. -
The Human Flavoproteome
CORE Metadata, citation and similar papers at core.ac.uk Provided by Elsevier - Publisher Connector Archives of Biochemistry and Biophysics 535 (2013) 150–162 Contents lists available at SciVerse ScienceDirect Archives of Biochemistry and Biophysics journal homepage: www.elsevier.com/locate/yabbi Review The human flavoproteome ⇑ Wolf-Dieter Lienhart, Venugopal Gudipati, Peter Macheroux Graz University of Technology, Institute of Biochemistry, Petersgasse 12, A-8010 Graz, Austria article info abstract Article history: Vitamin B2 (riboflavin) is an essential dietary compound used for the enzymatic biosynthesis of FMN and Received 17 December 2012 FAD. The human genome contains 90 genes encoding for flavin-dependent proteins, six for riboflavin and in revised form 21 February 2013 uptake and transformation into the active coenzymes FMN and FAD as well as two for the reduction to Available online 15 March 2013 the dihydroflavin form. Flavoproteins utilize either FMN (16%) or FAD (84%) while five human flavoen- zymes have a requirement for both FMN and FAD. The majority of flavin-dependent enzymes catalyze Keywords: oxidation–reduction processes in primary metabolic pathways such as the citric acid cycle, b-oxidation Coenzyme A and degradation of amino acids. Ten flavoproteins occur as isozymes and assume special functions in Coenzyme Q the human organism. Two thirds of flavin-dependent proteins are associated with disorders caused by Folate Heme allelic variants affecting protein function. Flavin-dependent proteins also play an important role in the Pyridoxal 50-phosphate biosynthesis of other essential cofactors and hormones such as coenzyme A, coenzyme Q, heme, pyri- Steroids doxal 50-phosphate, steroids and thyroxine. Moreover, they are important for the regulation of folate Thyroxine metabolites by using tetrahydrofolate as cosubstrate in choline degradation, reduction of N-5.10-meth- Vitamins ylenetetrahydrofolate to N-5-methyltetrahydrofolate and maintenance of the catalytically competent form of methionine synthase. -
Role of the Nuclear Receptor Rev-Erb Alpha in Circadian Food Anticipation and Metabolism Julien Delezie
Role of the nuclear receptor Rev-erb alpha in circadian food anticipation and metabolism Julien Delezie To cite this version: Julien Delezie. Role of the nuclear receptor Rev-erb alpha in circadian food anticipation and metabolism. Neurobiology. Université de Strasbourg, 2012. English. NNT : 2012STRAJ018. tel- 00801656 HAL Id: tel-00801656 https://tel.archives-ouvertes.fr/tel-00801656 Submitted on 10 Apr 2013 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. UNIVERSITÉ DE STRASBOURG ÉCOLE DOCTORALE DES SCIENCES DE LA VIE ET DE LA SANTE CNRS UPR 3212 · Institut des Neurosciences Cellulaires et Intégratives THÈSE présentée par : Julien DELEZIE soutenue le : 29 juin 2012 pour obtenir le grade de : Docteur de l’université de Strasbourg Discipline/ Spécialité : Neurosciences Rôle du récepteur nucléaire Rev-erbα dans les mécanismes d’anticipation des repas et le métabolisme THÈSE dirigée par : M CHALLET Etienne Directeur de recherche, université de Strasbourg RAPPORTEURS : M PFRIEGER Frank Directeur de recherche, université de Strasbourg M KALSBEEK Andries -
Lncmyod Promotes Skeletal Myogenesis and Regulates Skeletal Muscle Fiber-Type Composition by Sponging Mir-370-3P
G C A T T A C G G C A T genes Article LncMyoD Promotes Skeletal Myogenesis and Regulates Skeletal Muscle Fiber-Type Composition by Sponging miR-370-3p Peiwen Zhang 1,2,† , Jingjing Du 1,2,†, Xinyu Guo 1,2, Shuang Wu 1,2, Jin He 1,2 , Xinrong Li 1,2, Linyuan Shen 1,2 , Lei Chen 1,2, Bohong Li 1, Jingjun Zhang 1, Yuhao Xie 1, Lili Niu 1,2, Dongmei Jiang 1,2, Xuewei Li 1,2, Shunhua Zhang 1,2 and Li Zhu 1,2,* 1 College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, China; [email protected] (P.Z.); [email protected] (J.D.); [email protected] (X.G.); [email protected] (S.W.); [email protected] (J.H.); [email protected] (X.L.); [email protected] (L.S.); [email protected] (L.C.); [email protected] (B.L.); [email protected] (J.Z.); [email protected] (Y.X.); [email protected] (L.N.); [email protected] (D.J.); [email protected] (X.L.); [email protected] (S.Z.) 2 Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu 611130, China * Correspondence: [email protected] † These authors contributed equally to this work. Abstract: The development of skeletal muscle is a highly ordered and complex biological process. Increasing evidence has shown that noncoding RNAs, especially long-noncoding RNAs (lncRNAs) and microRNAs, play a vital role in the development of myogenic processes. -
Biophysics News
NEWSLETTER VOLUME 5, ISSUE 1 | WINTER 2020 BIOPHYSICS NEWS SCIENCE FEATURE SEMINAR SERIES Sean McGarry, biophysics graduate student in the LaViolette lab, discusses his Our Spring 2020 Graduate Seminar Se- research interests. ries takes place most Fridays through- My research interests lie in translating My research has evolved to focus on out the semester, from 9:30–10:30 am. machine learning techniques into clini- quantifying the effects of these sources Please join us! cal practice in a manner that improves of variability on the generalizability of Jan 17 | Rodney Willoughby, MD inter-user reliability. The LaViolette lab machine learning algorithms. The LaVi- (MCW), Gaseous microintoxication by works in a subfield called rad-path (ra- olette lab acquired a dataset of whole invasive bacteria diology-pathology) correlation. We align mount prostate slides annotated by five Jan 24 | Sarah Erickson-Bhatt, PhD post-surgical tissue samples with in vivo pathologists, and we used this dataset to (Marquette), Bioimaging of cancer clinical imaging and write pattern detec- demonstrate that inter-observer vari- tion algorithms that predict histological ability can have a substantial effect on Jan 31 | Sean McGarry (MCW), Prostate characteristics noninvasively. the predictive power of a downstream cancer detection with multi-parametric MRI Many sources of variability outside of the machine learning algorithm. We com- parameters of interest can influence the piled a dataset of diffusion fits from 13 Feb 14 | Jon M. Fukuto, PhD (Sonoma output of a machine learning algorithm, institutions and examined the effects of State), The chemical biology of hydrop- particularly in magnetic resonance imag- post-processing decisions on the per- ersulfides: Possible cellular protecting ing. -
Differential Spatio-Temporal Regulation of T-Box Gene Expression by Micrornas During Cardiac Development
Journal of Cardiovascular Development and Disease Article Differential Spatio-Temporal Regulation of T-Box Gene Expression by microRNAs during Cardiac Development Mohamad Alzein, Estefanía Lozano-Velasco , Francisco Hernández-Torres , Carlos García-Padilla , Jorge N. Domínguez , Amelia Aránega and Diego Franco * Cardiovascular Development Group, Department of Experimental Biology, University of Jaen, 23071 Jaen, Spain; [email protected] (M.A.); [email protected] (E.L.-V.); [email protected] (F.H.-T.); [email protected] (C.G.-P.); [email protected] (J.N.D.); [email protected] (A.A.) * Correspondence: [email protected] Abstract: Cardiovascular development is a complex process that starts with the formation of symmet- rically located precardiac mesodermal precursors soon after gastrulation and is completed with the formation of a four-chambered heart with distinct inlet and outlet connections. Multiple transcrip- tional inputs are required to provide adequate regional identity to the forming atrial and ventricular chambers as well as their flanking regions; i.e., inflow tract, atrioventricular canal, and outflow tract. In this context, regional chamber identity is widely governed by regional activation of distinct T-box family members. Over the last decade, novel layers of gene regulatory mechanisms have been discovered with the identification of non-coding RNAs. microRNAs represent the most well-studied subcategory among short non-coding RNAs. In this study, we sought to investigate the functional role of distinct microRNAs that are predicted to target T-box family members. Our data demonstrated a highly dynamic expression of distinct microRNAs and T-box family members during cardiogenesis, revealing a relatively large subset of complementary and similar microRNA–mRNA expression pro- Citation: Alzein, M.; Lozano-Velasco, files. -
Selective Repression of Myod Transcription by V-Myc Prevents
Oncogene (2002) 21, 4838 – 4842 ª 2002 Nature Publishing Group All rights reserved 0950 – 9232/02 $25.00 www.nature.com/onc SHORT REPORTS Selective repression of myoD transcription by v-Myc prevents terminal differentiation of quail embryo myoblasts transformed by the MC29 strain of avian myelocytomatosis virus Severina A La Rocca1,3,5, Serena Vannucchi1,4,5, Monica Pompili1, Deborah F Pinney2, Charles P Emerson Jr2, Milena Grossi*,1 and Franco Tato` 1,6 1Istituto Pasteur-Fondazione Cenci-Bolognetti, Dipartimento di Biologia Cellulare e dello Sviluppo, Sezione di Scienze Microbiologiche, Universita’ di Roma ‘La Sapienza’, 00185-Roma, Italy; 2Department of Cell and Developmental Biology, University of Pennsylvania School of Medicine, Philadelphia, Pennsylvania, PA 19104-6058, USA We have investigated the mechanism by which expression In vitro, after an initial proliferative phase, myogenic of the v-myc oncogene interferes with the competence of cells withdraw from the cell cycle, enter the post- primary quail myoblasts to undergo terminal differentia- mitotic stage and activate the transcription of a battery tion. Previous studies have established that quail of muscle-specific genes. Terminal differentiation of myoblasts transformed by myc oncogenes are severely skeletal myogenic cells is activated and maintained by impaired in the accumulation of mRNAs encoding the the concerted action of ubiquitous transcription myogenic transcription factors Myf-5, MyoD and factors, transcriptional coactivators (Puri and Sartor- Myogenin. However, the mechanism responsible for such elli, 2000) and muscle-specific transcription factors a repression remains largely unknown. Here we present belonging to two major groups: the Muscle Regulatory evidence that v-Myc selectively interferes with quail Factors (MRFs) of the MyoD family (Myf-5, MyoD, myoD expression at the transcriptional level.