A Small Molecule Promotes Cartilage Extracellular Matrix Generation and Inhibits Osteoarthritis Development
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Targeted Genes and Methodology Details for Neuromuscular Genetic Panels
Targeted Genes and Methodology Details for Neuromuscular Genetic Panels Reference transcripts based on build GRCh37 (hg19) interrogated by Neuromuscular Genetic Panels Next-generation sequencing (NGS) and/or Sanger sequencing is performed Motor Neuron Disease Panel to test for the presence of a mutation in these genes. Gene GenBank Accession Number Regions of homology, high GC-rich content, and repetitive sequences may ALS2 NM_020919 not provide accurate sequence. Therefore, all reported alterations detected ANG NM_001145 by NGS are confirmed by an independent reference method based on laboratory developed criteria. However, this does not rule out the possibility CHMP2B NM_014043 of a false-negative result in these regions. ERBB4 NM_005235 Sanger sequencing is used to confirm alterations detected by NGS when FIG4 NM_014845 appropriate.(Unpublished Mayo method) FUS NM_004960 HNRNPA1 NM_031157 OPTN NM_021980 PFN1 NM_005022 SETX NM_015046 SIGMAR1 NM_005866 SOD1 NM_000454 SQSTM1 NM_003900 TARDBP NM_007375 UBQLN2 NM_013444 VAPB NM_004738 VCP NM_007126 ©2018 Mayo Foundation for Medical Education and Research Page 1 of 14 MC4091-83rev1018 Muscular Dystrophy Panel Muscular Dystrophy Panel Gene GenBank Accession Number Gene GenBank Accession Number ACTA1 NM_001100 LMNA NM_170707 ANO5 NM_213599 LPIN1 NM_145693 B3GALNT2 NM_152490 MATR3 NM_199189 B4GAT1 NM_006876 MYH2 NM_017534 BAG3 NM_004281 MYH7 NM_000257 BIN1 NM_139343 MYOT NM_006790 BVES NM_007073 NEB NM_004543 CAPN3 NM_000070 PLEC NM_000445 CAV3 NM_033337 POMGNT1 NM_017739 CAVIN1 NM_012232 POMGNT2 -
Taurine Prevents Ibuprofen-Induced Gastric Mucosal Lesions and Influences Endogenous Antioxidant Status of Stomach in Rats
Research Article TheScientificWorldJOURNAL (2004) 4, 1046–1054 ISSN 1537-744X; DOI 10.1100/tsw.2004.207 Taurine Prevents Ibuprofen-Induced Gastric Mucosal Lesions and Influences Endogenous Antioxidant Status of Stomach in Rats T. Balasubramanian1,*, M. Somasundaram1, and A. John William Felix2 1Department of Physiology, 2Department of Community Medicine, Rajah Muthiah Medical College, Annamalai University, Annamalainagar-608 002, Tamilnadu, India E-mails: [email protected], [email protected], [email protected] Received October 6, 2004; Revised November 25, 2004; Accepted November 29, 2004; Published December 6, 2004 Recently, free radical–induced tissue damage is implicated in the nonsteroidal anti- inflammatory drugs (NSAIDs)–involved gastric mucosal lesion. Administration of taurine, an endogenous antioxidant, is reported to be beneficial in various clinical conditions. Therefore, we decided to study the protective effect of taurine in ibuprofen-induced gastropathy and the effects of administration of taurine on the endogenous antioxidant enzymes such as superoxide dismutase (SOD), catalase (CAT), and glutathione peroxidase (GPX), and reduced glutathione (GSH) of stomach. In rats, administration of taurine orally for three consecutive days (250 mg/kg body weight) protected the gastric mucosa from ibuprofen-induced, acute gastric mucosal lesion. In ibuprofen-treated rats, the lipid peroxidation measured as thiobarbituric acid reactive substances (TBARS), a marker for free radical–induced tissue damage, is also significantly decreased by taurine. Ibuprofen treatment resulted in a significant increase in the activities of total SOD, manganese SOD (Mn-SOD), and GPX and reduced GSH. Taurine administration in ibuprofen-treated rats also showed a significant increase in the activities of the antioxidant enzymes namely total SOD, Mn-SOD, GPX, CAT, and the level of reduced GSH. -
Use of Mathematical Modeling and Other Biophysical Methods For
USE OF MATHEMATICAL MODELING AND OTHER BIOPHYSICAL METHODS FOR INSIGHTS INTO IRON-RELATED PHENOMENA OF BIOLOGICAL SYSTEMS A Dissertation by JOSHUA D. WOFFORD Submitted to the Office of Graduate and Professional Studies of Texas A&M University in partial fulfillment of the requirements for the degree of DOCTOR OF PHILOSOPHY Chair of Committee, Paul A. Lindahl Committee Members, David P. Barondeau Simon W. North Vishal M. Gohil Head of Department, Simon W. North December 2018 Major Subject: Chemistry Copyright 2018 Joshua D. Wofford ABSTRACT Iron is a crucial nutrient in most living systems. It forms the active centers of many proteins that are critical for many cellular functions, either by themselves or as Fe-S clusters and hemes. However, Fe is potentially toxic to the cell in high concentrations and must be tightly regulated. There has been much work into understanding various pieces of Fe trafficking and regulation, but integrating all of this information into a coherent model has proven difficult. Past research has focused on different Fe species, including cytosolic labile Fe or mitochondrial Fe-S clusters, as being the main regulator of Fe trafficking in yeast. Our initial modeling efforts demonstrate that both cytosolic Fe and mitochondrial ISC assembly are required for proper regulation. More recent modeling efforts involved a more rigorous multi- tiered approach. Model simulations were optimized against experimental results involving respiring wild-type and Mrs3/4-deleted yeast. Simulations from both modeling studies suggest that mitochondria possess a “respiratory shield” that prevents a vicious cycle of nanoparticle formation, ISC loss, and subsequent loading of mitochondria with iron. -
Role of Oxidative Stress in the Pathogenesis of Amyotrophic Lateral Sclerosis: Antioxidant Metalloenzymes and Therapeutic Strategies
biomolecules Review Role of Oxidative Stress in the Pathogenesis of Amyotrophic Lateral Sclerosis: Antioxidant Metalloenzymes and Therapeutic Strategies Pavlína Hemerková * and Martin Vališ Department of Neurology, Charles University, Faculty of Medicine and University Hospital Hradec Kralove, 500 05 Hradec Kralove, Czech Republic; [email protected] * Correspondence: [email protected]; Tel.: +420-731-304-371 Abstract: Amyotrophic lateral sclerosis (ALS) affects motor neurons in the cerebral cortex, brainstem and spinal cord and leads to death due to respiratory failure within three to five years. Although the clinical symptoms of this disease were first described in 1869 and it is the most common motor neuron disease and the most common neurodegenerative disease in middle-aged individuals, the exact etiopathogenesis of ALS remains unclear and it remains incurable. However, free oxygen radicals (i.e., molecules containing one or more free electrons) are known to contribute to the pathogenesis of this disease as they very readily bind intracellular structures, leading to functional impairment. Antioxidant enzymes, which are often metalloenzymes, inactivate free oxygen radicals by converting them into a less harmful substance. One of the most important antioxidant enzymes is Cu2+Zn2+ superoxide dismutase (SOD1), which is mutated in 20% of cases of the familial form of ALS (fALS) and up to 7% of sporadic ALS (sALS) cases. In addition, the proper functioning of catalase and glutathione peroxidase (GPx) is essential for antioxidant protection. In this review article, we focus on the mechanisms through which these enzymes are involved in the antioxidant response to oxidative Citation: Hemerková, P.; Vališ, M. Role of Oxidative Stress in the stress and thus the pathogenesis of ALS and their potential as therapeutic targets. -
192ICM ICBIC Abstracts
Workshop Lecture Journal of Inorganic Biochemistry 96 (2003) 3 Structural Genomics Antonio Rosato, Magnetic Resonance Center, University of Florence, Italy To realize the true value of the wealth of data provided by genome sequencing data, it is necessary to relate them to the functional properties of the proteins they encode. Since the biological function of a protein is determined by its 3D structure, the systematic determination of proteins’ structures on a genome-wide scale is a crucial step in any (post-)genomic effort, which may (or may not) provide initial hints on the function. This is what is commonly referred to as ‘Structural Genomics’ (or Structural Proteomics). Because of the huge number of systems into question, all the complex steps necessary for structure determination must be optimized, streamlined and, possibly, robotized in order to shrink the time needed to solve each protein structure. This approach is dubbed ‘high-throughput’ (HTP) and is an intrinsic feature of Structural Genomics. What can be the relationship between Biological Inorganic Chemistry and Structural Genomics? A major challenge is that to reconcile the concept of HTP with the care that metalloproteins most often require because of their metal cofactors. The identifi cation of metalloproteins is even not explicitly taken into account in purely Structural Genomics projects, nor is any methodology particularly developed for them. To create true correlations between Biological Inorganic Chemistry and Structural Genomics it is necessary to develop new computational tools (e.g. to identify metalloproteins in databanks, or to correctly model their structures), as well as new methodological approaches to HTP metalloprotein expression/purifi cation and structural characterization. -
Effects of Intramuscular Diclofenac Use on Lipid
Sushma Sharma & Archana Thakur. Int. Res. J. Pharm. 2017, 8 (1) INTERNATIONAL RESEARCH JOURNAL OF PHARMACY www.irjponline.com ISSN 2230 – 8407 Research Article EFFECTS OF INTRAMUSCULAR DICLOFENAC USE ON LIPID PEROXIDATION AND SKELETAL MUSCLE HISTOLOGY IN BALB-C MICE Sushma Sharma and Archana Thakur * Department of Biosciences, Himachal Pradesh University, Summer Hill, Shimla, India *Corresponding Author Email: [email protected] Article Received on: 13/12/16 Revised on: 23/12/16 Approved for publication: 12/01/17 DOI: 10.7897/2230-8407.08014 ABSTRACT Diclofenac is a nonsteroidal anti-inflammatory drug that is widely used for the treatment of musculoskeletal complaints, osteoarthritis, rheumatoid arthritis, ankylosing spondylitis and acute muscle pain conditions. There is considerable interest in the toxicity of diclofenac because of its clinical uses. In the present study, the sub-chronic administration of diclofenac (10 mg/kg body weight; 30 days) resulted in various changes in activity of SOD enzyme (a marker of oxidative stress) and lipid peroxidation levels of mice. Changes in the activity of enzyme represent adaptive responses in muscle after diclofenac treatment. Results show that diclofenac is a strong inducer of oxidative stress. Increase in the formation of thiobarbituric acid reactive species (TBARS) and SOD activity is observed which indicates a link between oxidative stress and muscular toxicity. Maximum increase is seen in drug treated mice at 30 days’ stage of investigation. Key words: Diclofenac, SOD, lipid peroxidation INTRODUCTION Normal healthy looking mice showing no sign of morbidity were divided into following groups: Nonsteroidal anti-inflammatory drugs (NSAIDs) are among the a) Mice in the first group (Group I) comprised of age matched most commonly prescribed categories of drugs worldwide in the control mice. -
Studies of Iron Sulfur Cluster Maturation and Transport DISSERTATION Presented in Partial Fulfillment of the Requirements for Th
Studies of Iron Sulfur Cluster Maturation and Transport DISSERTATION Presented in Partial Fulfillment of the Requirements for the Degree Doctor of Philosophy in the Graduate School of The Ohio State University By Jingwei Li Graduate Program in Chemistry The Ohio State University 2015 Dissertation Committee: Professor James A. Cowan, Advisor Professor Ross E. Dalbey Professor Claudia Turro Copyright by Jingwei Li 2015 Abstract Cellular iron homeostasis is critically dependent on sensory and regulatory mechanisms that maintain a balance of intracellular iron concentrations. Divergence from a healthy iron concentration can result in common disease states such as anemia and ataxia. With the goal of understanding the molecular basis for such health problems, and advancing the knowledge based toward potential remedies, an understanding of the molecular details of cellular iron transport and the biological chemistry of iron species is an essential prerequisite. In that regard, iron-sulfur clusters are ubiquitous iron-containing centers in a variety of proteins and serve a multitude of roles that include electron transfer, catalysis of reactions, and sensors of cellular oxygen and iron levels. Recently, a substantial body of evidence has suggested an essential role for cellular glutathione (a molecule normally implicated with eliminating reactive oxygen species from cells) in the regulation, stabilization and biosynthesis of cellular iron-sulfur clusters in humans and other complex organisms. We have demonstrated that glutathione can naturally bind to iron-sulfur cluster precursors and have isolated and characterized this species and shown it to be stable under physiological conditions. More importantly, we have demonstrated that the glutathione-bound iron-sulfur cluster can be transported by a ii critical export protein from the cellular mitochondrion. -
Role of Active Oxygen, Lipid Peroxidation, and Antioxidants In
732 Gut 1993; 34: 732-737 Role of active oxygen, lipid peroxidation, and antioxidants in the pathogenesis of gastric mucosal Gut: first published as 10.1136/gut.34.6.732 on 1 June 1993. Downloaded from injury induced by indomethacin in rats T Yoshikawa, Y Naito, A Kishi, T Tomii, T Kaneko, S linuma, H Ichikawa, M Yasuda, S Takahashi, M Kondo Abstract role of reactive oxygen species in mediating the The roles of active oxygen, lipid peroxidation, microvascular disturbance that preceded gastric and the antioxidative defence mechanism in mucosal injury induced by several kinds of stress gastric mucosal injury induced by treatment and ischaemia-reperfusion." 12 Furthermore, with indomethacin in rats were investigated. lipid peroxidation mediated by oxygen free The total area of gastric erosions and concen- radicals is believed to be an important cause of tration of lipid peroxides in the gastric mucosa destruction and damage to cell membranes, increased with time after administration of because polyunsaturated fatty acids of the indomethacin (20 mg/kg, orally). The a- cellular membranes are degraded by the lipid tocopherol:total cholesterol ratio in serum was peroxidation with consequent disruption of significantly decreased and the activity of membrane integrity.'3 Membrane peroxidation glutathione peroxidase, an important enzyme can lead to changes in membrane fluidity and to scavenger of lipid peroxides, was inhibited permeability, enhanced rates ofprotein degrada- by the administration of indomethacin. Treat- tion, and ultimately, cell lysis. We have already ments with superoxide dismutase and catalase reported that lipid peroxidation plays a signifi- inhibited the increases in gastric mucosal cant part in the pathogenesis of gastric mucosal erosions and lipid peroxides in the gastric lesions induced by water immersion restraint mucosa, and the reduction of serum stress, burn shock, and ischemia-reperfusion.I'l6 a-tocopherol. -
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. -
Timing of Antioxidant Gene Therapy: Implications for Treating Dry AMD
Biochemistry and Molecular Biology Timing of Antioxidant Gene Therapy: Implications for Treating Dry AMD Manas R. Biswal,1 Pingyang Han,1 Ping Zhu,2 Zhaoyang Wang,3 Hong Li,1 Cristhian J. Ildefonso,2 and Alfred S. Lewin1 1Department of Molecular Genetics and Microbiology, University of Florida College of Medicine, Gainesville, Florida, United States 2Department of Ophthalmology, University of Florida College of Medicine, Gainesville, Florida, United States 3Department of Ophthalmology, Shanghai Ninth People’s Hospital, Shanghai Jiaotong University School of Medicine, Huangpu District, Shanghai, China Correspondence: Manas R. Biswal, PURPOSE. To investigate whether antioxidant gene therapy protects the structure and function Department of Molecular Genetics of retina in a murine model of RPE atrophy, and to determine whether antioxidant gene and Microbiology, University of Flor- therapy can prevent degeneration once it has begun. ida College of Medicine, 1200 New- ell Drive, Gainesville, FL 32610, USA; METHODS. We induced mitochondrial oxidative stress in RPE by conditional deletion of Sod2, Biswal@ufl.edu. the gene for manganese superoxide dismutase (MnSOD). These mice exhibited localized Submitted: December 9, 2016 atrophy of the RPE and overlying photoreceptors. We restored Sod2 to the RPE of one eye Accepted: January 23, 2017 using adeno-associated virus (AAV) by subretinal injection at an early (6 weeks) and a late Citation: Biswal MR, Han P, Zhu P, et stage (6 months), injecting the other eye with an AAV vector expressing green fluorescent al. Timing of antioxidant gene thera- protein (GFP). Retinal degeneration was monitored over a period of 9 months by py: implications for treating dry AMD. electroretinography (ERG) and spectral-domain optical coherence tomography (SD-OCT). -
A Label-Free Cellular Proteomics Approach to Decipher the Antifungal Action of Dimiq, a Potent Indolo[2,3- B]Quinoline Agent, Against Candida Albicans Biofilms
A Label-Free Cellular Proteomics Approach to Decipher the Antifungal Action of DiMIQ, a Potent Indolo[2,3- b]Quinoline Agent, against Candida albicans Biofilms Robert Zarnowski 1,2*, Anna Jaromin 3*, Agnieszka Zagórska 4, Eddie G. Dominguez 1,2, Katarzyna Sidoryk 5, Jerzy Gubernator 3 and David R. Andes 1,2 1 Department of Medicine, School of Medicine & Public Health, University of Wisconsin-Madison, Madison, WI 53706, USA; [email protected] (E.G.D.); [email protected] (D.R.A.) 2 Department of Medical Microbiology, School of Medicine & Public Health, University of Wisconsin-Madison, Madison, WI 53706, USA 3 Department of Lipids and Liposomes, Faculty of Biotechnology, University of Wroclaw, 50-383 Wroclaw, Poland; [email protected] 4 Department of Medicinal Chemistry, Jagiellonian University Medical College, 30-688 Cracow, Poland; [email protected] 5 Department of Pharmacy, Cosmetic Chemicals and Biotechnology, Team of Chemistry, Łukasiewicz Research Network-Industrial Chemistry Institute, 01-793 Warsaw, Poland; [email protected] * Correspondence: [email protected] (R.Z.); [email protected] (A.J.); Tel.: +1-608-265-8578 (R.Z.); +48-71-3756203 (A.J.) Label-Free Cellular Proteomics of Candida albicans biofilms treated with DiMIQ Identified Proteins Accession # Alternate ID Gene names (ORF ) WT DIMIQ Z SCORE Proteins induced by DiMIQ Arginase (EC 3.5.3.1) A0A1D8PP00 CAR1 CAALFM_C504490CA 0.000 6.648 drug induced Glucan 1,3-beta-glucosidase BGL2 (EC 3.2.1.58) (Exo-1Q5AMT2 BGL2 CAALFM_C402250CA -
Overexpression of Superoxide Dismutase 3 Gene Blocks High-Fat Diet-Induced Obesity, Fatty Liver and Insulin Resistance
Gene Therapy (2014) 21, 840–848 © 2014 Macmillan Publishers Limited All rights reserved 0969-7128/14 www.nature.com/gt ORIGINAL ARTICLE Overexpression of superoxide dismutase 3 gene blocks high-fat diet-induced obesity, fatty liver and insulin resistance RCui1,2, M Gao2,SQu1 and D Liu2 Oxidative stress has an important role in the development of obesity and obesity-associated metabolic disorders. As an endogenous antioxidant enzyme, superoxide dismutase 3 (SOD3) has the potential to affect diet-induced obesity and obesity- associated complications. In the current work, we overexpressed SOD3 in C57BL/6 mice fed a high-fat diet (HFD) to study its effect on HFD-induced obesity, fatty liver and insulin resistance. We demonstrated that the Sod3 gene transfer blocked HFD-induced obesity, fatty liver and insulin resistance. Real-time PCR analysis of adipose and liver tissues revealed that overexpression of the Sod3 gene suppressed expression of pro-inflammatory genes in adipose tissue including F4/80, Tnfα, Cd11c, Mcp1 and Il6, and increased expression of anti-inflammatory genes such as adiponectin. In the liver, high levels of SOD3 activity in animals enhanced expression of the genes responsible for energy expenditure including Cpt1α, Cpt1β, Pgc1α, Pgc1β and Ucp2. These results suggest that overexpression of the Sod3 gene through gene transfer is an effective approach in preventing diet-induced obesity and obesity-associated complications. Gene Therapy (2014) 21, 840–848; doi:10.1038/gt.2014.64; published online 17 July 2014 INTRODUCTION hydrodynamic Sod3 gene transfer blocked HFD-induced weight Obesity is a causative factor in the development of several gain, insulin resistance and alleviated fatty liver.