HIGD‑1B Inhibits Hypoxia‑Induced Mitochondrial Fragmentation by Regulating OPA1 Cleavage in Cardiomyocytes
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Higd1a Is a Positive Regulator of Cytochrome C Oxidase
Higd1a is a positive regulator of cytochrome c oxidase Takaharu Hayashia,b, Yoshihiro Asanoa,b,1, Yasunori Shintania, Hiroshi Aoyamac, Hidetaka Kiokab, Osamu Tsukamotoa, Masahide Hikitad, Kyoko Shinzawa-Itohd, Kazuaki Takafujie, Shuichiro Higoa,b, Hisakazu Katoa, Satoru Yamazakif, Ken Matsuokab, Atsushi Nakanog, Hiroshi Asanumah, Masanori Asakurag, Tetsuo Minaminob, Yu-ichi Gotoi, Takashi Ogurad, Masafumi Kitakazeg, Issei Komuroj, Yasushi Sakatab, Tomitake Tsukiharad,k, Shinya Yoshikawad, and Seiji Takashimaa,k,1 Departments of aMedical Biochemistry and bCardiovascular Medicine, eCenter for Research Education, and cGraduate School of Pharmaceutical Science, Osaka University Graduate School of Medicine, Suita, Osaka 565-0871, Japan; dDepartment of Life Science, University of Hyogo, 3-2-1 Kouto, Kamigohri, Akoh, Hyogo 678-1297, Japan; kCore Research for Evolutional Science and Technology (CREST), Japan Science and Technology Agency, Kawaguchi, Saitama 332-0012, Japan; Departments of fCell Biology and gClinical Research and Development, National Cerebral and Cardiovascular Center Research Institute, Suita, Osaka 565-8565, Japan; hDepartment of Cardiovascular Science and Technology, Kyoto Prefectural University School of Medicine, Kamigyo-ku, Kyoto 602-8566, Japan; iDepartment of Child Neurology, National Center Hospital of Neurology and Psychiatry, National Center of Neurology and Psychiatry, Kodaira, Tokyo 187-8502, Japan; and jDepartment of Cardiovascular Medicine, Graduate School of Medicine, University of Tokyo, Tokyo 113-8656, Japan Edited by Gottfried Schatz, University of Basel, Reinach, Switzerland, and approved December 16, 2014 (received for review October 15, 2014) Cytochrome c oxidase (CcO) is the only enzyme that uses oxygen as we recently revealed (8). Because CcO is the only enzyme in to produce a proton gradient for ATP production during mitochon- the body that can use oxygen for energy transduction, it has been drial oxidative phosphorylation. -
The Genetic Architecture of Hearing Impairment in Mice: Evidence for Frequency Specific 2 Genetic Determinants
G3: Genes|Genomes|Genetics Early Online, published on September 4, 2015 as doi:10.1534/g3.115.021592 1 The genetic architecture of hearing impairment in mice: evidence for frequency specific 2 genetic determinants. 3 4 Amanda L. Crow1, Jeffrey Ohmen2, Juemei Wang3, Joel Lavinsky3, Jaana Hartiala1, Qingzhong 5 Li4, Xin Li5, Pezhman Salehide 3, Eleazar Eskin6, Calvin Pan7, Aldons J. Lusis7, Hooman 6 Allayee1, Rick A. Friedman3 7 8 1Department of Preventive Medicine and Institute for Genetic Medicine, Keck School of 9 Medicine, University of Southern California, Los Angeles, CA 90033 10 2House Ear Institute, Los Angeles, CA 90057 11 3Department of Otolaryngology and Zilkha Neurogenetic Institute, Keck School of Medicine, 12 University of Southern California, Los Angeles, CA, 90033 13 4Department of Otolaryngology - Head and Neck Surgery, Eye & ENT Hospital of Fudan 14 University, Shanghai 200031, China 15 5Clinical Laboratory Department, First Affiliated Hospital of Nanchang University, Nanchang, 16 Jiangxi Province 330006, China 17 6Department of Computer Science and Inter-Departmental Program in Bioinformatics, 18 University of California, Los Angeles, Los Angeles, CA 90095 19 7Departments of Human Genetics, Medicine, and Microbiology, Immunology, and Molecular 20 Genetics, David Geffen School of Medicine at UCLA, Los Angeles, CA 90095 21 © The Author(s) 2013. Published by the Genetics Society of America. 1 Short Title 2 Genetics of Hearing in Mice 3 4 Keywords 5 Genome-wide association study (GWAS), Hybrid Mouse Diversity Panel (HMDP), genetics, 6 genomics, ABR, hearing, cochlear function 7 8 9 Corresponding Author: 10 Rick A. Friedman 11 USC Keck School of Medicine 12 Zilkha Neurogenetic Institute 13 1501 San Pablo Street (ZNI 231) 14 Los Angeles, CA 90033 15 Tel: (323) 442-4843 16 Fax: (323) 442-2059 17 Email: [email protected] 18 19 1 Abstract 2 Genome-wide association studies (GWAS) have been successfully applied in humans for 3 the study of many complex phenotypes. -
M-AAA and I-AAA Complexes Coordinate to Regulate OMA1, The
© 2018. Published by The Company of Biologists Ltd | Journal of Cell Science (2018) 131, jcs213546. doi:10.1242/jcs.213546 SHORT REPORT m-AAA and i-AAA complexes coordinate to regulate OMA1, the stress-activated supervisor of mitochondrial dynamics Francesco Consolato1,*, Francesca Maltecca1,*, Susanna Tulli1, Irene Sambri2 and Giorgio Casari1,2,‡ ABSTRACT and fission (L and S forms, respectively) (Anand et al., 2014). The The proteolytic processing of dynamin-like GTPase OPA1, mediated balance between long and short OPA1 forms is finely regulated by two by the activity of both YME1L1 [intermembrane (i)-AAA protease mitochondrial inner membrane proteases, OMA1 (Ehses et al., 2009) complex] and OMA1, is a crucial step in the regulation of mitochondrial and YME1L1, which cleave OPA1 at different sites (Song et al., 2007). dynamics. OMA1 is a zinc metallopeptidase of the inner mitochondrial The intermembrane (i)-AAA protease YME1L1 exposes its membrane that undergoes pre-activating proteolytic and auto- catalytic domain to the intermembrane space (Leonhard et al., 1996) proteolytic cleavage after mitochondrial import. Here, we identify and is responsible for generation of the S2-OPA1 form by proteolytic AFG3L2 [matrix (m)-AAA complex] as the major protease mediating cleavage, whereas OMA1 gives rise to the S1 and S3 forms (Anand this event, which acts by maturing the 60 kDa pre-pro-OMA1 to the et al., 2014; MacVicar and Langer, 2016; Quirós et al., 2012). 40 kDa pro-OMA1 form by severing the N-terminal portion without OMA1 harbours an M48 metallopeptidase domain and is the major recognizing a specific consensus sequence. Therefore, m-AAA and player in OPA1 processing under conditions of stress (Quirós et al., Δϕ i-AAA complexes coordinately regulate OMA1 processing and 2012). -
Mitochondrial Protein Quality Control Mechanisms
G C A T T A C G G C A T genes Review Mitochondrial Protein Quality Control Mechanisms Pooja Jadiya * and Dhanendra Tomar * Center for Translational Medicine, Lewis Katz School of Medicine, Temple University, Philadelphia, PA 19140, USA * Correspondence: [email protected] (P.J.); [email protected] (D.T.); Tel.: +1-215-707-9144 (D.T.) Received: 29 April 2020; Accepted: 15 May 2020; Published: 18 May 2020 Abstract: Mitochondria serve as a hub for many cellular processes, including bioenergetics, metabolism, cellular signaling, redox balance, calcium homeostasis, and cell death. The mitochondrial proteome includes over a thousand proteins, encoded by both the mitochondrial and nuclear genomes. The majority (~99%) of proteins are nuclear encoded that are synthesized in the cytosol and subsequently imported into the mitochondria. Within the mitochondria, polypeptides fold and assemble into their native functional form. Mitochondria health and integrity depend on correct protein import, folding, and regulated turnover termed as mitochondrial protein quality control (MPQC). Failure to maintain these processes can cause mitochondrial dysfunction that leads to various pathophysiological outcomes and the commencement of diseases. Here, we summarize the current knowledge about the role of different MPQC regulatory systems such as mitochondrial chaperones, proteases, the ubiquitin-proteasome system, mitochondrial unfolded protein response, mitophagy, and mitochondria-derived vesicles in the maintenance of mitochondrial proteome and health. The proper understanding of mitochondrial protein quality control mechanisms will provide relevant insights to treat multiple human diseases. Keywords: mitochondria; proteome; ubiquitin; proteasome; chaperones; protease; mitophagy; mitochondrial protein quality control; mitochondria-associated degradation; mitochondrial unfolded protein response 1. Introduction Mitochondria are double membrane, dynamic, and semiautonomous organelles which have several critical cellular functions. -
Aneuploidy: Using Genetic Instability to Preserve a Haploid Genome?
Health Science Campus FINAL APPROVAL OF DISSERTATION Doctor of Philosophy in Biomedical Science (Cancer Biology) Aneuploidy: Using genetic instability to preserve a haploid genome? Submitted by: Ramona Ramdath In partial fulfillment of the requirements for the degree of Doctor of Philosophy in Biomedical Science Examination Committee Signature/Date Major Advisor: David Allison, M.D., Ph.D. Academic James Trempe, Ph.D. Advisory Committee: David Giovanucci, Ph.D. Randall Ruch, Ph.D. Ronald Mellgren, Ph.D. Senior Associate Dean College of Graduate Studies Michael S. Bisesi, Ph.D. Date of Defense: April 10, 2009 Aneuploidy: Using genetic instability to preserve a haploid genome? Ramona Ramdath University of Toledo, Health Science Campus 2009 Dedication I dedicate this dissertation to my grandfather who died of lung cancer two years ago, but who always instilled in us the value and importance of education. And to my mom and sister, both of whom have been pillars of support and stimulating conversations. To my sister, Rehanna, especially- I hope this inspires you to achieve all that you want to in life, academically and otherwise. ii Acknowledgements As we go through these academic journeys, there are so many along the way that make an impact not only on our work, but on our lives as well, and I would like to say a heartfelt thank you to all of those people: My Committee members- Dr. James Trempe, Dr. David Giovanucchi, Dr. Ronald Mellgren and Dr. Randall Ruch for their guidance, suggestions, support and confidence in me. My major advisor- Dr. David Allison, for his constructive criticism and positive reinforcement. -
May Help Explain Expression of Multiple Genes in Alzheimer's
Journal of Systems and Integrative Neuroscience Research Article ISSN: 2059-9781 Micro RNA’s (miRNA’s) may help explain expression of multiple genes in Alzheimer’s Frontal Cortex James P Bennett* and Paula M Keeney Neurodegeneration Therapeutics, Inc., 3050A Berkmar Drive, Charlottesville, VA 22901, USA Abstract MicroRNA’s (miRNA’s) are non-coding RNA’s that can regulate gene expression. miRNA’s are small (~22 nt) and can bind by complementation to mRNA’s resulting in direct degradation and/or interference with translation. We used paired-end RNAseq and small RNAseq to examine expression of mRNA’s and miRNA’s, respectively, in total RNA’s isolated from frontal cortex of Alzheimer’s disease (AD) and control (CTL) subjects. mRNA’s were aligned to the hg38 human genome using Tophat2/Bowtie2 and relative expression levels determined by Cufflinks as FPKM (fragments per kilobase of exon per million mapped reads). miRNA’s were aligned to the hg19 human genome and quantitated as number of mature known miRNA reads with miRDeep*. Using a false-discovery rate (FDR) of 10% (FDR ≤ 0.10) applied to 11,794 genes with FPKM > 2.0, we identified 55 genes upregulated in AD and 191 genes downregulated in AD. The top 145 miRNA’s with the highest mean expression were mostly under-expressed in AD (132/145 miRNAs had AD/CTL < 1.0)). AD samples had increased coefficients of variation for miRNA and mRNA expression, implying greater heterogeneity. miRTAR analysis showed that 32 (58%) of the mRNA genes upregulated in AD could be controlled by one or more of 60 miRNA’s under-expressed >1.5-fold in AD (AD/CTL < 0.67). -
1 1 Structural Basis of Mitochondrial Dysfunction in Response to 2
1 2 Structural Basis of Mitochondrial Dysfunction in Response to 3 Cytochrome c Phosphorylation at position 48 4 5 Blas Moreno-Beltrán1,*, Alejandra Guerra-Castellano1,*, Antonio Díaz-Quintana1, 6 Rebecca Del Conte2, Sofía M. García-Mauriño1, Sofía Díaz-Moreno3, Katiuska 7 González-Arzola1, Carlos Santos-Ocaña4, Adrián Velázquez-Campoy5, Miguel A. De la 8 Rosa1, Paola Turano2 & Irene Díaz-Moreno1,# 9 10 1Instituto de Investigaciones Químicas, cicCartuja, Universidad de Sevilla – CSIC, Avda. 11 Américo Vespucio 49, 41092 Seville (Spain). 12 2Magnetic Resonance Center (CERM) – Department of Chemistry, University of 13 Florence, Via Luigi Sacconi 6, 50019 Sesto Fiorentino, Florence (Italy). 14 3Diamond Light Source Ltd., Harwell Science and Innovation Campus, Didcot, 15 Oxfordshire OX11 0DE (United Kingdom). 16 4Centro Andaluz de Biología del Desarrollo, Universidad Pablo de Olavide – CSIC, and 17 CIBERER Instituto de Salud Carlos III, Carretera de Utrera km. 1, 41013 Seville (Spain). 18 5Institute of Biocomputation and Physics of Complex Systems (BIFI), Joint Unit BIFI- 19 IQFR (CSIC), Universidad de Zaragoza, Mariano Esquillor s/n, 50018 Zaragoza (Spain). 20 21 * These authors contribute equally to this work. 22 23 # Correspondence should be addressed to I. D.-M. ([email protected]) 24 Telephone number: +34 954489513; Fax number: +34 954460065 25 1 26 ABSTRACT 27 Regulation of mitochondrial activity allows cells to adapt to changing conditions and to 28 control oxidative stress, and its dysfunction can lead to hypoxia-dependent pathologies, 29 such as ischemia and cancer. Although cytochrome c phosphorylation—in particular, at 30 tyrosine 48—is a key modulator of mitochondrial signaling, its action and molecular basis 31 remain unknown. -
HIGD2A Is Required for Assembly of the COX3 Module of Human Mitochondrial Complex IV
bioRxiv preprint doi: https://doi.org/10.1101/787721; this version posted December 19, 2019. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. HIGD2A is required for assembly of the COX3 module of human mitochondrial complex IV Daniella H. Hock1, Boris Reljic1, Ching-Seng Ang2, Hayley S. Mountford3,4,†, Alison G. Compton3,4, Michael T. Ryan5, David R. Thorburn3,4,6 and David A. Stroud*,1 1Department of Biochemistry and Molecular Biology, Bio21 Molecular Science and Biotechnology Institute, University of Melbourne, Parkville, 3052 Victoria, Australia 2Bio21 Mass Spectrometry and Proteomics Facility, The University of Melbourne, Parkville, Victoria 3010, Australia 3Brain and Mitochondrial Research, Murdoch Children's Research Institute, Royal Children's Hospital, Melbourne, Victoria, Australia 4Department of Paediatrics, University of Melbourne, Melbourne, Victoria, Australia 5Department of Biochemistry and Molecular Biology, Monash Biomedicine Discovery Institute, Monash University, 3800 Melbourne, Australia 6Mitochondrial Laboratory, Victorian Clinical Genetics Services, Royal Children's Hospital, Melbourne, Victoria, Australia †Present address: Department of Biological and Medical Sciences, Faculty of Health Sciences, Oxford Brookes University, Oxford OX3 0BP, UK *Correspondence to David A. Stroud Department of Biochemistry and Molecular Biology Bio21 Molecular Science & Biotechnology Institute and The University of Melbourne 30 Flemington Road, Parkville VIC 3052 Australia Email: [email protected] Telephone: +61 3 83447316 Running title: HIGD2A is critical in assembly of human complex IV 1 bioRxiv preprint doi: https://doi.org/10.1101/787721; this version posted December 19, 2019. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. -
Thrombocytopenia-Associated Mutations in Ser/Thr Kinase MASTL Deregulate Actin Cytoskeletal Dynamics in Platelets
Thrombocytopenia-associated mutations in Ser/Thr kinase MASTL deregulate actin cytoskeletal dynamics in platelets Begoña Hurtado, … , Pablo García de Frutos, Marcos Malumbres J Clin Invest. 2018;128(12):5351-5367. https://doi.org/10.1172/JCI121876. Research Article Cell biology Hematology Graphical abstract Find the latest version: https://jci.me/121876/pdf The Journal of Clinical Investigation RESEARCH ARTICLE Thrombocytopenia-associated mutations in Ser/Thr kinase MASTL deregulate actin cytoskeletal dynamics in platelets Begoña Hurtado,1,2 Marianna Trakala,1 Pilar Ximénez-Embún,3 Aicha El Bakkali,1 David Partida,1 Belén Sanz-Castillo,1 Mónica Álvarez-Fernández,1 María Maroto,1 Ruth Sánchez-Martínez,1 Lola Martínez4, Javier Muñoz,3 Pablo García de Frutos,2 and Marcos Malumbres1 1Cell Division and Cancer Group, Spanish National Cancer Research Centre (CNIO), Madrid, Spain. 2Department of Cell Death and Proliferation, Institut d’Investigacions Biomèdiques de Barcelona-Consejo Superior de Investigaciones Científicas- Institut d’Investigacions Biomèdiques August Pi i Sunyer- (IIBB-CSIC-IDIBAPS), Barcelona, Spain. 3ProteoRed – Instituto de Salud Carlos III (ISCIII) and Proteomics Unit, CNIO, Madrid, Spain. 4Cytometry Unit, CNIO, Madrid, Spain. MASTL, a Ser/Thr kinase that inhibits PP2A-B55 complexes during mitosis, is mutated in autosomal dominant thrombocytopenia. However, the connections between the cell-cycle machinery and this human disease remain unexplored. We report here that, whereas Mastl ablation in megakaryocytes prevented proper maturation of these cells, mice carrying the thrombocytopenia-associated mutation developed thrombocytopenia as a consequence of aberrant activation and survival of platelets. Activation of mutant platelets was characterized by hyperstabilized pseudopods mimicking the effect of PP2A inhibition and actin polymerization defects. -
Oxygen Tension Modulates the Mitochondrial Genetic Bottleneck and Influences the Segregation of a Heteroplasmic Mtdna Variant in Vitro
ARTICLE https://doi.org/10.1038/s42003-021-02069-2 OPEN Oxygen tension modulates the mitochondrial genetic bottleneck and influences the segregation of a heteroplasmic mtDNA variant in vitro Mikael G. Pezet1,2,6, Aurora Gomez-Duran1,2,7, Florian Klimm2,3,7, Juvid Aryaman1,2,3, Stephen Burr1,2, ✉ Wei Wei1,2, Mitinori Saitou4,5, Julien Prudent 2 & Patrick F. Chinnery 1,2 Most humans carry a mixed population of mitochondrial DNA (mtDNA heteroplasmy) affecting ~1–2% of molecules, but rapid percentage shifts occur over one generation leading to severe mitochondrial diseases. A decrease in the amount of mtDNA within the developing 1234567890():,; female germ line appears to play a role, but other sub-cellular mechanisms have been implicated. Establishing an in vitro model of early mammalian germ cell development from embryonic stem cells, here we show that the reduction of mtDNA content is modulated by oxygen and reaches a nadir immediately before germ cell specification. The observed genetic bottleneck was accompanied by a decrease in mtDNA replicating foci and the segregation of heteroplasmy, which were both abolished at higher oxygen levels. Thus, differences in oxygen tension occurring during early development likely modulate the amount of mtDNA, facil- itating mtDNA segregation and contributing to tissue-specific mutation loads. 1 Department of Clinical Neurosciences, School of Clinical Medicine, University of Cambridge, Cambridge Biomedical Campus, Cambridge CB2 0QQ, UK. 2 Medical Research Council Mitochondrial Biology Unit, University of Cambridge, Cambridge Biomedical Campus, Cambridge CB2 0XY, UK. 3 Department of Mathematics, Imperial College London, London SW7 2AZ, UK. 4 Department of Anatomy and Cell Biology, Graduate School of Medicine, Kyoto University, Kyoto 606-8501, Japan. -
Duodenal Mucosal Mitochondrial Gene Expression Is Associated with Delayed Gastric Emptying in Diabetic Gastroenteropathy
Duodenal mucosal mitochondrial gene expression is associated with delayed gastric emptying in diabetic gastroenteropathy Susrutha Puthanmadhom Narayanan, … , Tamas Ordog, Adil E. Bharucha JCI Insight. 2021;6(2):e143596. https://doi.org/10.1172/jci.insight.143596. Research Article Endocrinology Gastroenterology Graphical abstract Find the latest version: https://jci.me/143596/pdf RESEARCH ARTICLE Duodenal mucosal mitochondrial gene expression is associated with delayed gastric emptying in diabetic gastroenteropathy Susrutha Puthanmadhom Narayanan,1 Daniel O’Brien,2 Mayank Sharma,1 Karl Miller,3 Peter Adams,3 João F. Passos,4 Alfonso Eirin,5 Tamas Ordog,4 and Adil E. Bharucha1 1Division of Gastroenterology and Hepatology, Department of Medicine, Mayo Clinic, Rochester, Minnesota, USA. 2Department of Biomedical Statistics and Informatics, Mayo Clinic, Rochester, Minnesota, USA. 3Sanford Burnham Prebys Medical Discovery Institute, San Diego, California, USA. 4Department of Physiology and Biomedical Engineering and 5Division of Nephrology & Hypertension Research, Department of Medicine, Mayo Clinic, Rochester, Minnesota, USA. Hindered by a limited understanding of the mechanisms responsible for diabetic gastroenteropathy (DGE), management is symptomatic. We investigated the duodenal mucosal expression of protein- coding genes and microRNAs (miRNA) in DGE and related them to clinical features. The diabetic phenotype, gastric emptying, mRNA, and miRNA expression and ultrastructure of duodenal mucosal biopsies were compared in 39 DGE patients and 21 controls. Among 3175 differentially expressed genes (FDR < 0.05), several mitochondrial DNA–encoded (mtDNA-encoded) genes (12 of 13 protein coding genes involved in oxidative phosphorylation [OXPHOS], both rRNAs and 9 of 22 transfer RNAs) were downregulated; conversely, nuclear DNA–encoded (nDNA-encoded) mitochondrial genes (OXPHOS) were upregulated in DGE. -
LONP1 Is Required for Maturation of a Subset of Mitochondrial Proteins and Its Loss Elicits
bioRxiv preprint doi: https://doi.org/10.1101/306316; this version posted April 23, 2018. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. LONP1 is required for maturation of a subset of mitochondrial proteins and its loss elicits an integrated stress response Olga Zurita Rendón and Eric A. Shoubridge. Montreal Neurological Institute and Department of Human Genetics, McGill University, Montreal, QC, Canada. Eric A. Shoubridge, Montreal Neurological Institute, 3801 University Street, Montreal, Quebec, Canada H3A 2B4 Email: [email protected] Tel: 514-398-1997 FAX: 514-398-1509 bioRxiv preprint doi: https://doi.org/10.1101/306316; this version posted April 23, 2018. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. Abstract LONP1, a AAA+ mitochondrial protease, is implicated in protein quality control, but its substrates and precise role in this process remain poorly understood. Here we have investigated the role of human LONP1 in mitochondrial gene expression and proteostasis. Depletion of LONP1 resulted in partial loss of mtDNA, complete suppression of mitochondrial translation, a marked increase in the levels of a distinct subset of mitochondrial matrix proteins (SSBP1, MTERFD3, FASTKD2 and CLPX), and the accumulation of their unprocessed forms, with intact mitochondrial targeting sequences, in an insoluble protein fraction.