Change in Brain Plasmalogen Composition by Exposure to Prenatal Undernutrition Leads to Behavioral Impairment of Rats
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Gene Symbol Gene Description ACVR1B Activin a Receptor, Type IB
Table S1. Kinase clones included in human kinase cDNA library for yeast two-hybrid screening Gene Symbol Gene Description ACVR1B activin A receptor, type IB ADCK2 aarF domain containing kinase 2 ADCK4 aarF domain containing kinase 4 AGK multiple substrate lipid kinase;MULK AK1 adenylate kinase 1 AK3 adenylate kinase 3 like 1 AK3L1 adenylate kinase 3 ALDH18A1 aldehyde dehydrogenase 18 family, member A1;ALDH18A1 ALK anaplastic lymphoma kinase (Ki-1) ALPK1 alpha-kinase 1 ALPK2 alpha-kinase 2 AMHR2 anti-Mullerian hormone receptor, type II ARAF v-raf murine sarcoma 3611 viral oncogene homolog 1 ARSG arylsulfatase G;ARSG AURKB aurora kinase B AURKC aurora kinase C BCKDK branched chain alpha-ketoacid dehydrogenase kinase BMPR1A bone morphogenetic protein receptor, type IA BMPR2 bone morphogenetic protein receptor, type II (serine/threonine kinase) BRAF v-raf murine sarcoma viral oncogene homolog B1 BRD3 bromodomain containing 3 BRD4 bromodomain containing 4 BTK Bruton agammaglobulinemia tyrosine kinase BUB1 BUB1 budding uninhibited by benzimidazoles 1 homolog (yeast) BUB1B BUB1 budding uninhibited by benzimidazoles 1 homolog beta (yeast) C9orf98 chromosome 9 open reading frame 98;C9orf98 CABC1 chaperone, ABC1 activity of bc1 complex like (S. pombe) CALM1 calmodulin 1 (phosphorylase kinase, delta) CALM2 calmodulin 2 (phosphorylase kinase, delta) CALM3 calmodulin 3 (phosphorylase kinase, delta) CAMK1 calcium/calmodulin-dependent protein kinase I CAMK2A calcium/calmodulin-dependent protein kinase (CaM kinase) II alpha CAMK2B calcium/calmodulin-dependent -
Shorthand Notation for Lipid Structures Derived from Mass Spectrometry
special report Shorthand notation for lipid structures derived from mass spectrometry Gerhard Liebisch , 1, * Juan Antonio Vizcaíno , † Harald Köfeler , ** Martin Trötzmüller , ** William J. Griffi ths , †† Gerd Schmitz , * Friedrich Spener , § , ** and Michael J. O. Wakelam *** Institute of Clinical Chemistry and Laboratory Medicine,* University of Regensburg , Regensburg, Germany ; EMBL-European Bioinformatics Institute , † Hinxton, Cambridge, United Kingdom ; Institute of Molecular Biology and Biochemistry, § and Core Facility Mass Spectrometry,** Medical University of Graz , Graz, Austria ; Institute of Mass Spectrometry, †† College of Medicine, Swansea University , Singleton Park, Swansea, United Kingdom ; and Babraham Institute ,*** Babraham Research Campus, Cambridge, United Kingdom Abstract There is a need for a standardized, practical an- Nomenclature Committee (ILCNC) in 2005 (1 ) and up- notation for structures of lipid species derived from mass dated in 2009 (2 ). This system places lipids into eight cat- spectrometric approaches; i.e., for high-throughput data egories and is available online on the LIPID MAPS website obtained from instruments operating in either high- or low- (http://www.lipidmaps.org). The LIPID MAPS nomencla- Downloaded from resolution modes. This proposal is based on common, ture precisely describes lipid structures. offi cially accepted terms and builds upon the LIPID MAPS terminology. It aims to add defi ned levels of information The key technology for lipid species analysis is mass spec- below the LIPID MAPS nomenclature, as detailed chemical trometry (MS) ( 3, 4 ). Typically, MS analysis without inter- structures, including stereochemistry, are usually not auto- mediate chemical steps does not provide the structural matically provided by mass spectrometric analysis. To this details covered by the LIPID MAPS nomenclature, which www.jlr.org end, rules for lipid species annotation were developed that led mass spectrometrists to use a variety of different nota- refl ect the structural information derived from the analysis. -
Inositol Triphosphate-Triggered Calcium Release Blocks Lipid Exchange at Endoplasmic Reticulum- Golgi Contact Sites
ARTICLE https://doi.org/10.1038/s41467-021-22882-x OPEN Inositol triphosphate-triggered calcium release blocks lipid exchange at endoplasmic reticulum- Golgi contact sites Mouhannad Malek 1, Anna M. Wawrzyniak 1, Peter Koch1, Christian Lüchtenborg2, Manuel Hessenberger1, ✉ Timo Sachsenheimer2, Wonyul Jang 1, Britta Brügger 2 & Volker Haucke 1,3 fi 1234567890():,; Vesicular traf c and membrane contact sites between organelles enable the exchange of proteins, lipids, and metabolites. Recruitment of tethers to contact sites between the endo- plasmic reticulum (ER) and the plasma membrane is often triggered by calcium. Here we reveal a function for calcium in the repression of cholesterol export at membrane contact sites between the ER and the Golgi complex. We show that calcium efflux from ER stores induced by inositol-triphosphate [IP3] accumulation upon loss of the inositol 5-phosphatase INPP5A or receptor signaling triggers depletion of cholesterol and associated Gb3 from the cell surface, resulting in a blockade of clathrin-independent endocytosis (CIE) of Shiga toxin. This phenotype is caused by the calcium-induced dissociation of oxysterol binding protein (OSBP) from the Golgi complex and from VAP-containing membrane contact sites. Our findings reveal a crucial function for INPP5A-mediated IP3 hydrolysis in the control of lipid exchange at membrane contact sites. 1 Leibniz-Forschungsinstitut für Molekulare Pharmakologie (FMP), Berlin, Germany. 2 Heidelberg University Biochemistry Center (BZH), Heidelberg ✉ University, Heidelberg, Germany. 3 Faculty of Biology, Chemistry and Pharmacy, Freie Universität Berlin, Berlin, Germany. email: [email protected] NATURE COMMUNICATIONS | (2021) 12:2673 | https://doi.org/10.1038/s41467-021-22882-x | www.nature.com/naturecommunications 1 ARTICLE NATURE COMMUNICATIONS | https://doi.org/10.1038/s41467-021-22882-x ellular membrane homeostasis and the exchange of Results material between compartments can occur by vesicular INPP5A is required for Gb3-mediated Shiga toxin cell entry. -
Functions of Plasmalogen Lipids in Health and Disease☆
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by Elsevier - Publisher Connector Biochimica et Biophysica Acta 1822 (2012) 1442–1452 Contents lists available at SciVerse ScienceDirect Biochimica et Biophysica Acta journal homepage: www.elsevier.com/locate/bbadis Review Functions of plasmalogen lipids in health and disease☆ Nancy E. Braverman a,⁎, Ann B. Moser b a Department of Human Genetics and Pediatrics, McGill University-Montreal Childrens Hospital Research Institute, 4060 Ste-Catherine West, PT-406.2, Montreal, QC, Canada H3Z 2Z3 b Department of Neurogenetics, Kennedy Krieger Institute, Johns Hopkins Hospital, Baltimore, MD, USA article info abstract Article history: Plasmalogens are a unique class of membrane glycerophospholipids containing a fatty alcohol with a vinyl- Received 30 January 2012 ether bond at the sn-1 position, and enriched in polyunsaturated fatty acids at the sn-2 position of the Received in revised form 21 April 2012 glycerol backbone. These two features provide novel properties to these compounds. Although plasmalogens Accepted 9 May 2012 represent up to 20% of the total phospholipid mass in humans their physiological roles have been challenging Available online 22 May 2012 to identify, and are likely to be particular to different tissues, metabolic processes and developmental stages. Their biosynthesis starts in peroxisomes, and defects at these steps cause the malformation syndrome, Keywords: Plasmalogen Rhizomelic Chondrodysplasia Punctata (RCDP). The RCDP phenotype predicts developmental roles for Rhizomelic Chondrodysplasia Punctata plasmalogens in bone, brain, lens, lung, kidney and heart. Recent studies have revealed secondary plasmalogen Alzheimer disease deficiencies associated with more common disorders and allow us to tease out additional pathways dependent Respiratory disease on plasmalogen functions. -
Lipid Class and Phospholipid Species Composition Associated with Life History Variation In
Lipid class and phospholipid species composition associated with life history variation in north temperate and neotropical birds DISSERTATION Presented in Partial Fulfillment of the Requirements for the Degree Doctor of Philosophy in the Graduate School of The Ohio State University By Elisabeth Ann Calhoon Graduate Program in Evolution, Ecology and Organismal Biology The Ohio State University 2016 Dissertation Committee: Professor Joseph B. Williams, Advisor Professor David L. Stetson Professor David L. Denlinger Copyright by Elisabeth Ann Calhoon 2016 Abstract Life-history traits are often linked, generating a spectrum where organisms that have long lifespans usually have low metabolic rates and low reproductive effort, whereas organisms with short lifespans usually have high metabolic rates and high reproductive effort. Physiological mechanisms likely underlie these variations in life history. As such, a recent focus in the field of physiological ecology has been connecting life-history traits to physiological attributes. An emerging study system for research on these connections is tropical and temperate bird species. Temperate bird species tend have low annual survival, high metabolic rates, and high reproductive effort, whereas tropical birds tend to have high annual survival, low metabolic rates, and low reproductive effort. Also emerging as a tool in physiological ecology, primary cell culture allows researchers to take samples from individuals in minimally invasive ways and compare cells grown under the same environmental and nutritive conditions. In this dissertation, I first ascertained what kinds of differences there are between cultured fibroblast cells and their progenitor cells extracted from individual organisms. Fibroblasts are likely to change in culture due to differences in the environment around them and because the cells switch from a mostly quiescent state to an actively proliferating state. -
Conserved Phosphoryl Transfer Mechanisms Within Kinase Families
Kenyon et al. BMC Research Notes 2012, 5:131 http://www.biomedcentral.com/1756-0500/5/131 RESEARCHARTICLE Open Access Conserved phosphoryl transfer mechanisms within kinase families and the role of the C8 proton of ATP in the activation of phosphoryl transfer Colin P Kenyon*, Robyn L Roth, Chris W van der Westhuyzen and Christopher J Parkinson Abstract Background: The kinome is made up of a large number of functionally diverse enzymes, with the classification indicating very little about the extent of the conserved kinetic mechanisms associated with phosphoryl transfer. It has been demonstrated that C8-H of ATP plays a critical role in the activity of a range of kinase and synthetase enzymes. Results: A number of conserved mechanisms within the prescribed kinase fold families have been identified directly utilizing the C8-H of ATP in the initiation of phosphoryl transfer. These mechanisms are based on structurally conserved amino acid residues that are within hydrogen bonding distance of a co-crystallized nucleotide. On the basis of these conserved mechanisms, the role of the nucleotide C8-H in initiating the formation of a pentavalent intermediate between the g-phosphate of the ATP and the substrate nucleophile is defined. All reactions can be clustered into two mechanisms by which the C8-H is induced to be labile via the coordination of a backbone carbonyl to C6-NH2 of the adenyl moiety, namely a “push” mechanism, and a “pull” mechanism, based on the protonation of N7. Associated with the “push” mechanism and “pull” mechanisms are a series of proton transfer cascades, initiated from C8-H, via the tri-phosphate backbone, culminating in the formation of the pentavalent transition state between the g-phosphate of the ATP and the substrate nucleophile. -
Choline Kinase Inhibition As a Treatment Strategy for Cancers With
Choline Kinase Inhibition as a Treatment Strategy of Cancers with Deregulated Lipid Metabolism Sebastian Trousil Imperial College London Department of Surgery and Cancer A dissertation submitted for the degree of Doctor of Philosophy 2 Declaration I declare that this dissertation is my own and original work, except where explicitly acknowledged. The copyright of this thesis rests with the author and is made available under a Creative Commons Attribution Non-Commercial No Derivatives licence. Researchers are free to copy, distribute or transmit the thesis on the condition that they attribute it, that they do not use it for commercial purposes and that they do not alter, transform or build upon it. For any reuse or redistribution, researchers must make clear to others the licence terms of this work. Abstract Aberrant choline metabolism is a characteristic shared by many human cancers. It is predominantly caused by elevated expression of choline kinase alpha, which catalyses the phosphorylation of choline to phosphocholine, an essential precursor of membrane lipids. In this thesis, a novel choline kinase inhibitor has been developed and its therapeutic potential evaluated. Furthermore the probe was used to elaborate choline kinase biology. A lead compound, ICL-CCIC-0019 (IC50 of 0.27 0.06 µM), was identified through a focused library screen. ICL-CCIC-0019 was competitive± with choline and non-competitive with ATP. In a selectivity screen of 131 human kinases, ICL-CCIC-0019 inhibited only 5 kinases more than 20% at a concentration of 10 µM(< 35% in all 131 kinases). ICL- CCIC-0019 potently inhibited cell growth in a panel of 60 cancer cell lines (NCI-60 screen) with a median GI50 of 1.12 µM (range: 0.00389–16.2 µM). -
Localization Developmental Process Response to Stimulus Signaling
male germ-line positive a regulation of type antigen processing adult somatic relaxation of stem cell regulation of beak entry into III interferon stabilization of CRD-mediated mRNA and presentation of beak development muscle skeletal muscle population systemic arterial morphogenesis diapause production membrane potential stabilization exogenous peptide monocyte activation development maintenance blood pressure flight forward locomotion antigen via MHC class Regulation of I, TAP-dependent Developmental process biological quality negative Immune system Locomotion sensory organ positive regulation of branched duct hatching secondary neural regulation of precursor cell endoplasmic reticulum oenocyte leading edge cell epithelial cell fate leading edge cell tube formation transmission of process division calcium ion concentration differentiation fate commitment determination, open differentiation nerve impulse hemocyte development regulation of toll-like tracheal system multivesicular body receptor 5 Multicellular organismal process size involved in actin inductive cell endosome transport signaling polymerization-dependent cell motility migration amnioserosa regulation of pathway presynaptic corticotropin regulation of neutrophil angiogenesis formation collateral cellular pH reduction membrane assembly hormone differentiation oenocyte tendon cell involved in proepicardium sprouting of secreting cell development differentiation coronary vascular development injured axon differentiation morphogenesis post-embryonic zygotic specification endodermal-mesodermal -
Plasma Phosphatidylethanolamine and Triacylglycerol Fatty Acid Concentrations Are Altered in Major Depressive Disorder Patients with Seasonal Pattern
Lipids DOI 10.1007/s11745-017-4254-1 ORIGINAL ARTICLE Plasma Phosphatidylethanolamine and Triacylglycerol Fatty Acid Concentrations are Altered in Major Depressive Disorder Patients with Seasonal Pattern Yurika Otoki1,2 · Marie Hennebelle1 · Anthony J. Levitt3 · Kiyotaka Nakagawa2 · Walter Swardfager3,4 · Ameer Y. Taha1 Received: 20 January 2017 / Accepted: 10 April 2017 © AOCS 2017 Abstract Disturbances in peripheral and brain lipid decreased in winter depression. Concentrations of cho- metabolism, including the omega-3 fatty acid docosahex- lesteryl ester oleic acid and several polyunsaturated fatty aenoic acid (DHA), have been reported in major depres- acids between summer/fall and winter increased in propor- sive disorder (MDD). However, these changes have yet to tion to the increase in depressive symptoms. The observed be confrmed in MDD with seasonal pattern (MDD-s), a changes in lipid metabolic pathways in winter-type MDD-s subtype of recurrent MDD. The present exploratory study offer new promise for lipid biomarker development. quantifed plasma plasmalogen and diacyl-phospholipid species, and fatty acids within total phospholipids, cho- Keywords Depression · Season · lesteryl esters, triacylglycerols and free fatty acids in non- Phosphatidylethanolamine · Plasmalogen · Phospholipids · medicated MDD-s participants (n 9) during euthymia in Omega-3 fatty acids · Seasonal affective disorder = summer or fall, and during depression in winter in order to screen for potential high sensitivity lipid biomarkers. Tria- Abbreviations cylglycerol -
Pseudo Infantile Refsum's Disease: Catalase- Deficient Peroxisomal Particles with Partial Deficiency of Plasmalogen Synthesis and Oxidation of Fatty Acids
003 I-3998/93/3403-0270$03.00/0 PEDIATRIC RESEARCH Vol. 34. No. 3. 1993 Copyright 8 1993 International Pediatric Research Foundation. Inc I'ritrrid in U S :I. Pseudo Infantile Refsum's Disease: Catalase- Deficient Peroxisomal Particles with Partial Deficiency of Plasmalogen Synthesis and Oxidation of Fatty Acids P. AUBOURG, K. KREMSER, M. 0. ROLAND. F. ROCCHICCIOLI. AND I. SlNGH ABSTRACT. Zellweger syndrome, neonatal adrenoleuko- RCDP, rhizomelic chondrodysplasia punctata dystrophy, and infantile Refsum's disease are genetic dis- IRD, infantile Refsum's disease orders characterized by the virtual absence of catalase- positive perosisomes and a general impairment of perosi- somal functions. Recent studies in these three disorders have provided morphologic evidence of perosisomal Peroxisomes are subcellular organelles that participate in the "ghosts" of density 1.10 g/cd that contain membrane @-oxidation of long-chain fatty acids and VLCFA (1-3), the proteins but lack a majority of the matrix enzyme activities. synthesis of plasmalogens (4), the oxidation of L-pipecolic acid We report here the biochemical studies in a female infant (5, 6). and bile acid synthesis (7). In addition, peroxisomes with clinical features of infantile Refsum's disease whose contain catalase that degrades the Hz02 produced by various liver and fibroblasts contained cytosolic catalase but no oxidases (8). Peroxisomes, like mitochondria. arise by growth catalase-positive peroxisomes. Oxidation of phytanic and and division of preexisting peroxisomes (9). All peroxisomal pipecolic acids was severely impaired, whereas osidation proteins studied so far are synthesized on free polyribosomes, of very-long-chain fatty acids and dihydrosyacetone phos- then translocated into preexisting peroxisomes. -
The Ether Lipid-Deficient Mouse: Tracking Down Plasmalogen Functions ⁎ Karin Gorgas A, Andre Teigler B, Dorde Komljenovic A, Wilhelm W
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by Elsevier - Publisher Connector Biochimica et Biophysica Acta 1763 (2006) 1511–1526 www.elsevier.com/locate/bbamcr Review The ether lipid-deficient mouse: Tracking down plasmalogen functions ⁎ Karin Gorgas a, Andre Teigler b, Dorde Komljenovic a, Wilhelm W. Just b, a Institut für Anatomie und Zellbiologie, Abteilung Medizinische Zellbiologie, Im Neuenheimer Feld 307, D-69120 Heidelberg, Germany b Biochemie-Zentrum der Universität Heidelberg (BZH), Im Neuenheimer Feld 328, D-69120 Heidelberg, Germany Received 29 June 2006; received in revised form 15 August 2006; accepted 23 August 2006 Available online 30 August 2006 Abstract Chemical and physico-chemical properties as well as physiological functions of major mammalian ether-linked glycerolipids, including plasmalogens were reviewed. Their chemical structures were described and their effect on membrane fluidity and membrane fusion discussed. The recent generation of mouse models with ether lipid deficiency offered the possibility to study ether lipid and particularly plasmalogen functions in vivo. Ether lipid-deficient mice revealed severe phenotypic alterations, including arrest of spermatogenesis, development of cataract and defects in central nervous system myelination. In several cell culture systems lack of plasmalogens impaired intracellular cholesterol distribution affecting plasma membrane functions and structural changes of ER and Golgi cisternae. Based on these phenotypic anomalies that were accurately described conclusions were drawn on putative functions of plasmalogens. These functions were related to cell–cell or cell–extracellular matrix interactions, formation of lipid raft microdomains and intracellular cholesterol homeostasis. There are several human disorders, such as Zellweger syndrome, rhizomelic chondrodysplasia punctata, Alzheimer’s disease, Down syndrome, and Niemann–Pick type C disease that are distinguished by altered tissue plasmalogen concentrations. -
Extrinsic Effectors Regulating Genes for Plasmalogen Biosynthetic Enzymes in Hepg2 Cells
Biomedical Research and Clinical Practice Research Article ISSN: 2397-9631 Extrinsic effectors regulating genes for plasmalogen biosynthetic enzymes in HepG2 cells Ryouta Maeba* and Shin-ichi Nakahara Department of Biochemistry, Teikyo University School of Medicine, Tokyo, Japan Abstract Plasma plasmalogens (Pls) may serve as potential biomarkers not only for rare peroxisomal diseases but also for general disorders related to oxidative stress and aging. Recent clinical observational studies demonstrated that low levels of plasma Pls are risk factors for atherosclerosis and dementia. Serum levels of Pls showed a strong positive correlation with high-density lipoprotein (HDL) cholesterol concentration, suggesting that Pls may be involved in metabolism or the function of HDL. Increasing the levels of plasma Pls may serve as a novel therapeutic strategy for preventing diseases associated with oxidative stress and aging. Therefore, we and other groups elevated plasma Pl levels in laboratory animals or humans through administration of myo-inositol, monounsaturated long-chain fatty acids, and the hypolipidemic agent, statin. However, their effects on the gene expression of Pl biosynthetic enzymes remain unknown. To gain insight into the manipulation of Pl biosynthesis and the relationship between Pl biosynthesis and HDL metabolism, we examined target gene expression by real time reverse transcription polymerase chain reaction (RT-PCR) in hepatoma HepG2 cells treated with various test substances. Monounsaturated long-chain fatty acids such as oleic acid and erucic acid, myo-inositol, and the Pl precursor alkylglycerol, all of which supply materials or coenzymes for Pl biosynthesis, unexpectedly reduced the expression of the genes for Pl biosynthetic enzymes. These results suggest the presence of strict regulation of Pl homeostasis.