Basic Protein Detect Circulating Antibodies in Ataxic Horses Siobhan P Ellison Tom J Kennedy Austin Li
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Bioinformatics Approach for Pattern of Myelin-Specific Proteins And
CORE Metadata, citation and similar papers at core.ac.uk Provided by Qazvin University of Medical Sciences Repository Biotech Health Sci. 2016 November; 3(4):e38278. doi: 10.17795/bhs-38278. Published online 2016 August 16. Research Article Bioinformatics Approach for Pattern of Myelin-Specific Proteins and Related Human Disorders Samiie Pouragahi,1,2,3 Mohammad Hossein Sanati,4 Mehdi Sadeghi,2 and Marjan Nassiri-Asl3,* 1Department of Molecular Medicine, School of Medicine, Qazvin university of Medical Sciences, Qazvin, IR Iran 2Department of Bioinformatics, National Institute of Genetic Engineering and Biotechnology (NIGEB), Tehran, IR Iran 3Department of Pharmacology, Cellular and Molecular Research Center, School of Medicine, Qazvin university of Medical Sciences, Qazvin, IR Iran 4Department of Molecular Genetics, National Institute of Genetic Engineering and Biotechnology (NIGEB), Tehran, IR Iran *Corresponding author: Marjan Nassiri-Asl, School of Medicine, Qazvin University of Medical Sciences, Qazvin, IR Iran. Tel: +98-2833336001, Fax: +98-2833324971, E-mail: [email protected] Received 2016 April 06; Revised 2016 May 30; Accepted 2016 June 22. Abstract Background: Recent neuroinformatic studies, on the structure-function interaction of proteins, causative agents basis of human disease have implied that dysfunction or defect of different protein classes could be associated with several related diseases. Objectives: The aim of this study was the use of bioinformatics approaches for understanding the structure, function and relation- ship of myelin protein 2 (PMP2), a myelin-basic protein in the basis of neuronal disorders. Methods: A collection of databases for exploiting classification information systematically, including, protein structure, protein family and classification of human disease, based on a new approach was used. -
A Non-Stop S-Antigen Gene Mutation Is Associated with Late Onset Hereditary Retinal Degeneration in Dogs Orly Goldstein
University of Pennsylvania ScholarlyCommons Departmental Papers (Vet) School of Veterinary Medicine 8-2013 A Non-Stop S-Antigen Gene Mutation Is Associated With Late Onset Hereditary Retinal Degeneration in Dogs Orly Goldstein Julie Ann Jordan Gustavo D. Aguirre University of Pennsylvania, [email protected] Gregory M. Acland Follow this and additional works at: https://repository.upenn.edu/vet_papers Part of the Veterinary Medicine Commons Recommended Citation Goldstein, O., Jordan, J., Aguirre, G. D., & Acland, G. M. (2013). A Non-Stop S-Antigen Gene Mutation Is Associated With Late Onset Hereditary Retinal Degeneration in Dogs. Molecular Vision, 18 1871-1884. Retrieved from https://repository.upenn.edu/ vet_papers/77 This paper is posted at ScholarlyCommons. https://repository.upenn.edu/vet_papers/77 For more information, please contact [email protected]. A Non-Stop S-Antigen Gene Mutation Is Associated With Late Onset Hereditary Retinal Degeneration in Dogs Abstract Purpose: To identify the causative mutation of canine progressive retinal atrophy (PRA) es gregating as an adult onset autosomal recessive disorder in the Basenji breed of dog. Methods: Basenji dogs were ascertained for the PRA hep notype by clinical ophthalmoscopic examination. Blood samples from six affected cases and three nonaffected controls were collected, and DNA extraction was used for a genome-wide association study using the canine HD Illumina single nucleotide polymorphism (SNP) array and PLINK. Positional candidate genes identified within the peak association signal region were evaluated. Results: The highest -Log10(P) value of 4.65 was obtained for 12 single nucleotide polymorphisms on three chromosomes. Homozygosity and linkage disequilibrium analyses favored one chromosome, CFA25, and screening of the S-antigen (SAG) gene identified a non-stop mutation (c.1216T>C), which would result in the addition of 25 amino acids (p.*405Rext*25). -
Supplementary Table 1. Down-Regulation of Oligodendrocyte Genes in Schizophrenia
Supplementary Table 1. Down-regulation of oligodendrocyte genes in schizophrenia Schizophrenia ID Accession Symbol product fold change P value oligodendrocyte transcription factors 36018_at AJ001183 SOX10 SRY (sex determining region Y)-box 10 -1.60 0.001 40624_at U48250 OLIG2 oligodendrocyte lineage transcription factor 2 -1.30 0.019 32187_at AB028973 MYT1 myelin transcription factor 1 1.12 0.571 33539_at W28567 MYEF2 myelin expression factor 2 -1.04 0.887 oligodendrocyte-expressed genes 38558_at M29273 MAG myelin associated glycoprotein -1.76 0.004 41158_at M54927 PLP1 proteolipid protein 1 -1.50 0.011 38499_s_at D28113 MOBP myelin-associated oligodendrocyte basic protein -1.59 0.017 35903_at M63623 OMG oligodendrocyte myelin glycoprotein -1.15 0.022 38653_at D11428 PMP22 peripheral myelin protein 22 -1.28 0.058 38051_at X76220 MAL mal, T-cell differentiation protein -1.11 0.065 612_s_at M19650 CNP 2',3'-cyclic nucleotide 3' phosphodiesterase -1.17 0.072 32538_at S95936 TF transferrin -1.48 0.098 32612_at X04412 GSN gelsolin (amyloidosis, Finnish type) -1.23 0.118 39598_at X04325 GJB1 gap junction protein, beta 1, 32kDa -1.10 0.416 37867_at Z48051 MOG myelin oligodendrocyte glycoprotein 1.39 0.600 35328_at AF055023 NF1 neurofibromin 1 -1.03 0.973 35817_at M13577 MBP myelin basic protein 1.02 1 other oligodendrocyte-related genes 41346_at AJ007583 LARGE like-glycosyltransferase -1.02 0.786 32719_at L41827 NRG1 neuregulin 1 1.07 0.792 1585_at M34309 ERBB3 v-erb-b2 erythroblastic leukemia viral oncogene homolog 3 -1.10 0.294 40387_at U80811 -
SAG/ROC2/Rbx2/Hrt2, a Component of SCF E3 Ubiquitin Ligase: Genomic Structure, a Splicing Variant, and Two Family Pseudogenes
DNA AND CELL BIOLOGY Volume 20, Number 7, 2001 Mary Ann Liebert, Inc. Pp. 425–434 SAG/ROC2/Rbx2/Hrt2 , a Component of SCF E3 Ubiquitin Ligase: Genomic Structure, a Splicing Variant, and Two Family Pseudogenes MANJU SWAROOP, MARK GOSINK, 1 and YI SUN ABSTRACT We have recently cloned and characterized an evolutionarily conserved gene, S ensitive to A poptosis Gene (SAG), which encodes a redox-sensitive antioxidant protein that protects cells from apoptosis induced by re- dox agents. The SAG protein was later found to be the second family member of ROC/Rbx/Hrt, a component of the Skp1-cullin-F box protein (SCF) E3 ubiquitin ligase, being required for yeast growth and capable of promoting cell growth during serum starvation. Here, we report the genomic structure of the SAG gene that consists of four exons and three introns. We also report the characterization of a SAG splicing variant ( SAG- v), that contains an additional exon (exon 2; 264 bp) not present in wildtype SAG. The inclusion of exon 2 disrupts the SAG ORF and gives rise to a protein of 108 amino acids that contains the first 59 amino acids identical to SAG and a 49-amino acid novel sequence at the C terminus. The entire RING-finger domain of SAG was not translated because of several inframe stop codons within the exon 2. The SAG-v protein was expressed in multiple human tissues as well as cell lines, but at a much lower level than wildtype SAG. Un- like SAG, SAG-v was not able to rescue yeast cells from lethality in a ySAG knockout, nor did it bind to cullin-1 or have ligase activity, probably because of the lack of the RING-finger domain. -
Supporting Information
Supporting Information Figure S1. The functionality of the tagged Arp6 and Swr1 was confirmed by monitoring cell growth and sensitivity to hydeoxyurea (HU). Five-fold serial dilutions of each strain were plated on YPD with or without 50 mM HU and incubated at 30°C or 37°C for 3 days. Figure S2. Localization of Arp6 and Swr1 on chromosome 3. The binding of Arp6-FLAG (top), Swr1-FLAG (middle), and Arp6-FLAG in swr1 cells (bottom) are compared. The position of Tel 3L, Tel 3R, CEN3, and the RP gene are shown under the panels. Figure S3. Localization of Arp6 and Swr1 on chromosome 4. The binding of Arp6-FLAG (top), Swr1-FLAG (middle), and Arp6-FLAG in swr1 cells (bottom) in the whole chromosome region are compared. The position of Tel 4L, Tel 4R, CEN4, SWR1, and RP genes are shown under the panels. Figure S4. Localization of Arp6 and Swr1 on the region including the SWR1 gene of chromosome 4. The binding of Arp6- FLAG (top), Swr1-FLAG (middle), and Arp6-FLAG in swr1 cells (bottom) are compared. The position and orientation of the SWR1 gene is shown. Figure S5. Localization of Arp6 and Swr1 on chromosome 5. The binding of Arp6-FLAG (top), Swr1-FLAG (middle), and Arp6-FLAG in swr1 cells (bottom) are compared. The position of Tel 5L, Tel 5R, CEN5, and the RP genes are shown under the panels. Figure S6. Preferential localization of Arp6 and Swr1 in the 5′ end of genes. Vertical bars represent the binding ratio of proteins in each locus. -
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 -
Post-Translational Coordination of Chlorophyll Biosynthesis And
ARTICLE https://doi.org/10.1038/s41467-020-14992-9 OPEN Post-translational coordination of chlorophyll biosynthesis and breakdown by BCMs maintains chlorophyll homeostasis during leaf development ✉ ✉ Peng Wang 1 , Andreas S. Richter 1,3, Julius R.W. Kleeberg 2, Stefan Geimer2 & Bernhard Grimm1 Chlorophyll is indispensable for life on Earth. Dynamic control of chlorophyll level, determined by the relative rates of chlorophyll anabolism and catabolism, ensures optimal photosynthesis 1234567890():,; and plant fitness. How plants post-translationally coordinate these two antagonistic pathways during their lifespan remains enigmatic. Here, we show that two Arabidopsis paralogs of BALANCE of CHLOROPHYLL METABOLISM (BCM) act as functionally conserved scaffold proteins to regulate the trade-off between chlorophyll synthesis and breakdown. During early leaf development, BCM1 interacts with GENOMES UNCOUPLED 4 to stimulate Mg-chelatase activity, thus optimizing chlorophyll synthesis. Meanwhile, BCM1’s interaction with Mg- dechelatase promotes degradation of the latter, thereby preventing chlorophyll degradation. At the onset of leaf senescence, BCM2 is up-regulated relative to BCM1, and plays a con- served role in attenuating chlorophyll degradation. These results support a model in which post-translational regulators promote chlorophyll homeostasis by adjusting the balance between chlorophyll biosynthesis and breakdown during leaf development. 1 Institute of Biology/Plant Physiology, Humboldt-Universität zu Berlin, Philippstraße 13, 10115 Berlin, -
Cloning and Expression of SAG: a Novel Marker of Cellular Senescence
EXPERIMENTAL CELL RESEARCH 199,355-362 (19%) Cloning and Expression of SAG: A Novel Marker of Cellular Senescence CHERYLWISTROM'ANDBRYANTVILLEPONTEAU' Department of Biological Chemistry and The Institute of Gerontology, University of Michigan, Ann A&OF, Michigan 48109-2007 cence process. First, fusion experiments between sene- Unlike immortalized cell lines, normal human fibro- scent and dividing early-passage cells indicated that se- blasts in culture undergo replicative senescence in nescent cells contain a protein that is able to suppress which the number of population doublings is limited. DNA synthesis in the younger dividing nucleus [7-lo]. While fibroblasts display a variety of changes as they These studies were further supported by RNA microin- senesce in vitro, little is known about how gene expres- jection studies [ 111, which showed that poly A+ RNA sion varies as a function of population doubling level. from late-passage cells suppressed the level of DNA syn- We have used differential hybridization screening to thesis in early-passage fibroblasts. identify human genes that are preferentially expressed Second, fusion of normal human diploid cells with in senescent cells. While we found several isolates that various immortal cell lines generated cells with a limited were up-regulated in late-passage cells, all appeared to proliferative capacity [12-171, indicating that the lim- be variants of the same cDNA, which we named senes- ited-division phenotype is dominant even over immor- cence-associated gene (SAG). Our data show that SAG expression is threefold higher in senescent fibroblasts talized cells. The same conclusion was drawn from fu- and closely parallels the progressive slowdown in sion experiments between different immortal cell lines. -
Identification of Potential Key Genes and Pathway Linked with Sporadic Creutzfeldt-Jakob Disease Based on Integrated Bioinformatics Analyses
medRxiv preprint doi: https://doi.org/10.1101/2020.12.21.20248688; this version posted December 24, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted medRxiv a license to display the preprint in perpetuity. All rights reserved. No reuse allowed without permission. Identification of potential key genes and pathway linked with sporadic Creutzfeldt-Jakob disease based on integrated bioinformatics analyses 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 NOTE: This preprint reports new research that has not been certified by peer review and should not be used to guide clinical practice. medRxiv preprint doi: https://doi.org/10.1101/2020.12.21.20248688; this version posted December 24, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted medRxiv a license to display the preprint in perpetuity. All rights reserved. No reuse allowed without permission. Abstract Sporadic Creutzfeldt-Jakob disease (sCJD) is neurodegenerative disease also called prion disease linked with poor prognosis. The aim of the current study was to illuminate the underlying molecular mechanisms of sCJD. The mRNA microarray dataset GSE124571 was downloaded from the Gene Expression Omnibus database. Differentially expressed genes (DEGs) were screened. -
Pathological Relationships Involving Iron and Myelin May Constitute a Shared Mechanism Linking Various Rare and Common Brain Diseases
Rare Diseases ISSN: (Print) 2167-5511 (Online) Journal homepage: http://www.tandfonline.com/loi/krad20 Pathological relationships involving iron and myelin may constitute a shared mechanism linking various rare and common brain diseases Moones Heidari, Sam H. Gerami, Brianna Bassett, Ross M. Graham, Anita C.G. Chua, Ritambhara Aryal, Michael J. House, Joanna F. Collingwood, Conceição Bettencourt, Henry Houlden, Mina Ryten , John K. Olynyk, Debbie Trinder, Daniel M. Johnstone & Elizabeth A. Milward To cite this article: Moones Heidari, Sam H. Gerami, Brianna Bassett, Ross M. Graham, Anita C.G. Chua, Ritambhara Aryal, Michael J. House, Joanna F. Collingwood, Conceição Bettencourt, Henry Houlden, Mina Ryten , John K. Olynyk, Debbie Trinder, Daniel M. Johnstone & Elizabeth A. Milward (2016) Pathological relationships involving iron and myelin may constitute a shared mechanism linking various rare and common brain diseases, Rare Diseases, 4:1, e1198458, DOI: 10.1080/21675511.2016.1198458 To link to this article: http://dx.doi.org/10.1080/21675511.2016.1198458 © 2016 The Author(s). Published with View supplementary material license by Taylor & Francis Group, LLC© Moones Heidari, Sam H. Gerami, Brianna Bassett, Ross M. Graham, Anita C.G. Chua, Ritambhara Aryal, Michael J. House, Joanna Accepted author version posted online: 22 Submit your article to this journal JunF. Collingwood, 2016. Conceição Bettencourt, PublishedHenry Houlden, online: Mina 22 Jun Ryten, 2016. for the UK Brain Expression Consortium (UKBEC), John K. Olynyk, Debbie Trinder, Daniel M. Johnstone,Article views: and 541 Elizabeth A. Milward. View related articles View Crossmark data Citing articles: 2 View citing articles Full Terms & Conditions of access and use can be found at http://www.tandfonline.com/action/journalInformation?journalCode=krad20 Download by: [University of Newcastle, Australia] Date: 17 May 2017, At: 19:57 RARE DISEASES 2016, VOL. -
Download Special Issue
BioMed Research International Inflammation in Muscle Repair, Aging, and Myopathies Guest Editors: Marina Bouché, Pura Muñoz-Cánoves, Fabio Rossi, Neuraland Dario ColettiComputation for Rehabilitation Inflammation in Muscle Repair, Aging, and Myopathies BioMed Research International Inflammation in Muscle Repair, Aging, and Myopathies Guest Editors: Marina Bouche,´ Pura Munoz-C˜ anoves,´ Fabio Rossi, and Dario Coletti Copyright © 2014 Hindawi Publishing Corporation. All rights reserved. This is a special issue published in “BioMed Research International.” All articles are open access articles distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. Contents Inflammation in Muscle Repair, Aging, and Myopathies,MarinaBouche,´ Pura Munoz-C˜ anoves,´ Fabio Rossi, and Dario Coletti Volume 2014, Article ID 821950, 3 pages Stem Cell Transplantation for Muscular Dystrophy: The Challenge of Immune Response, Sara Martina Maffioletti, Maddalena Noviello, Karen English, and Francesco Saverio Tedesco Volume2014,ArticleID964010,12pages From Innate to Adaptive Immune Response in Muscular Dystrophies and Skeletal Muscle Regeneration: The Role of Lymphocytes, Luca Madaro and Marina Bouche´ Volume2014,ArticleID438675,12pages Cardioprotective Effects of Osteopontin-1 during Development of Murine Ischemic Cardiomyopathy, Georg D. Duerr, Bettina Mesenholl, Jan C. Heinemann, Martin Zoerlein, Peter Huebener, Prisca Schneider, Andreas -
Whole Cigarette Smoke Condensates Induce Accumulation of Amyloid Beta Precursor Protein with Oxidative Stress in Murine Astrocytes
toxics Article Whole Cigarette Smoke Condensates Induce Accumulation of Amyloid Beta Precursor Protein with Oxidative Stress in Murine Astrocytes Eun-Jung Park 1,2,3,*, Seung-Woo Jin 3, Hyun-Ji Lim 3, Hyeon-Young Kim 4, Min-Sung Kang 3,5 and Siyoung Yang 6,7 1 East–West Medical Science Research Institute, Kyung Hee Medical Science Research Institute, Kyung Hee University, Seoul 02447, Korea 2 Human Health and Environmental Toxins Research Center, Kyung Hee Medical Science Research Institute, Kyung Hee University, Seoul 02447, Korea 3 Department of Biomedical Science and Technology, Graduate School, Kyung Hee University, Seoul 02447, Korea; [email protected] (S.-W.J.); [email protected] (H.-J.L.); [email protected] (M.-S.K.) 4 Inhalation Toxicology Center for Airborne Risk Factors, Jeonbuk Branch Institute, Korea Institute of Toxicology, Jeongeup 56212, Korea; [email protected] 5 General Toxicology & Research Group, Jeonbuk Branch Institute, Korea Institute of Toxicology, Jeongeup 56212, Korea 6 Department of Pharmacology, Ajou University School of Medicine, Suwon 16499, Korea; [email protected] 7 Degenerative InterDiseases Research Center, Ajou University School of Medicine, Suwon 16499, Korea * Correspondence: [email protected]; Tel.: +82-2-958-1527 Abstract: Although cigarette smoking has been postulated to be a potential risk factor for Alzheimer’s disease (AD), the toxic mechanism is still unclear. Additionally, astrocytes have been identified as a potential target, given they play multiple roles in maintaining normal brain function. In this study, we Citation: Park, E.-J.; Jin, S.-W.; Lim, H.-J.; Kim, H.-Y.; Kang, M.-S.; Yang, S.