Disrupted Neuronal Trafficking in Amyotrophic Lateral Sclerosis
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Supplemental Material Table of Contents
Supplemental material Table of Contents Detailed Materials and Methods ......................................................................................................... 2 Perioperative period ........................................................................................................................... 2 Ethical aspects ................................................................................................................................... 4 Evaluation of heart failure ................................................................................................................. 4 Sample preparation for ANP mRNA expression .................................................................................. 5 Sample preparation for validative qRT-PCR (Postn, Myh7, Gpx3, Tgm2) ............................................ 6 Tissue fibrosis .................................................................................................................................... 7 Ventricular remodeling and histological tissue preservation ................................................................ 8 Evaluation of the histological preservation of cardiac tissue ................................................................ 9 Sample preparation and quantitative label-free proteomics analyses .................................................. 10 Statistical methods ........................................................................................................................... 12 References ........................................................................................................................................ -
Decreased Expression of Profilin 2 in Oral Squamous Cell Carcinoma and Its Clinicopathological Implications
ONCOLOGY REPORTS 26: 813-823, 2011 Decreased expression of profilin 2 in oral squamous cell carcinoma and its clinicopathological implications C.Y. MA1,2, C.P. ZHANG1,2, L.P. ZHONG1,2, H.Y. PAN1,2, W.T. CHEN1,2, L.Z. WANG3, O.W. ANDREW4, T. JI1 and W. HAN1,2 1Department of Oral and Maxillofacial Surgery, Ninth People's Hospital, College of Stomatology; 2Shanghai Key Laboratory of Stomatology and Shanghai Research Institute of Stomatology; 3Department of Oral Pathology, Ninth People's Hospital, College of Stomatology, Shanghai Jiao Tong University School of Medicine, Shanghai 200011, P.R. China; 4Department of Oral and Maxillofacial Surgery, Faculty of Dentistry, National University of Singapore, Singapore 119074, Singapore Received February 8, 2011; Accepted April 11, 2011 DOI: 10.3892/or.2011.1365 Abstract. Profilins are small proteins essential for many clinical and pathological significance. In conclusion, PFN2 normal cellular dynamics and constitute one of the crucial can be utilized as both a potential suppressor marker and a components of actin-based cellular motility. Several recent prognostic protein for OSCC. The function of PFN2 may be to studies have implicated a role for the profilin (PFN) family in regulate the N-WASP/Arp2/3 signaling pathway. cancer pathogenesis and progression. However, their expression and promising functions are largely unknown in oral squamous Introduction cell carcinoma (OSCC). In this study, we analyzed the correlation between PFN1 and PFN2 expression in vitro and Oral squamous cell carcinoma (OSCC) is a significant public in vivo. The protein expression levels were roughly compared health problem with >300,000 new cases being diagnosed between cell lines (HIOEC, HB96) with the employment of annually worldwide (1). -
Genome-Wide Analyses Identify KIF5A As a Novel ALS Gene
This is a repository copy of Genome-wide Analyses Identify KIF5A as a Novel ALS Gene.. White Rose Research Online URL for this paper: http://eprints.whiterose.ac.uk/129590/ Version: Accepted Version Article: Nicolas, A, Kenna, KP, Renton, AE et al. (210 more authors) (2018) Genome-wide Analyses Identify KIF5A as a Novel ALS Gene. Neuron, 97 (6). 1268-1283.e6. https://doi.org/10.1016/j.neuron.2018.02.027 Reuse This article is distributed under the terms of the Creative Commons Attribution-NonCommercial-NoDerivs (CC BY-NC-ND) licence. This licence only allows you to download this work and share it with others as long as you credit the authors, but you can’t change the article in any way or use it commercially. More information and the full terms of the licence here: https://creativecommons.org/licenses/ Takedown If you consider content in White Rose Research Online to be in breach of UK law, please notify us by emailing [email protected] including the URL of the record and the reason for the withdrawal request. [email protected] https://eprints.whiterose.ac.uk/ Genome-wide Analyses Identify KIF5A as a Novel ALS Gene Aude Nicolas1,2, Kevin P. Kenna2,3, Alan E. Renton2,4,5, Nicola Ticozzi2,6,7, Faraz Faghri2,8,9, Ruth Chia1,2, Janice A. Dominov10, Brendan J. Kenna3, Mike A. Nalls8,11, Pamela Keagle3, Alberto M. Rivera1, Wouter van Rheenen12, Natalie A. Murphy1, Joke J.F.A. van Vugt13, Joshua T. Geiger14, Rick A. Van der Spek13, Hannah A. Pliner1, Shankaracharya3, Bradley N. -
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. -
Intracellular Transport of Influenza Virus Hemagglutinin to the Apical Surface of Madin-Darby Canine Kidney Cells
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by PubMed Central Intracellular Transport of Influenza Virus Hemagglutinin to the Apical Surface of Madin-Darby Canine Kidney Cells ENRIQUE RODRIGUEZ-BOULAN, KEVIN T . PASKIET, PEDRO J. I . SALAS, and ENZO BARD Department of Pathology, Downstate Medical Center, State University of New York, Brooklyn, New York 11203 ABSTRACT The intracellular pathway followed by the influenza virus hemagglutinin (HA) to the apical surface of Madin-Darby canine kidney cells was studied by radioimmunoassay, immunofluorescence, and immunoelectron microscopy. To synchronize the migration, we used a temperature-sensitive mutant of influenza WSN, ts61, which, at the nonpermissive temperature, 39.5°C, exhibits a defect in the HA that prevents its exit from the endoplasmic reticulum . Upon transfer to permissive temperature, 32°C, the HA appeared in the Golgi apparatus after 10 min, and on the apical surface after 30-40 min. In the presence of cycloheximide, the expression was not inhibited, indicating that the is defect is reversible; a wave of HA migrated to the cell surface, where it accumulated with a half time of 60 min . After passage through the Golgi apparatus the HA was detected in a population of smooth vesicles, about twice the size of coated vesicles, located in the apical half of the cytoplasm . These HA-containing vesicles did not react with anti-clathrin antibodies . Monensin (10 'UM) delayed the surface appearance of HA by 2 h, but not the transport to the Golgi apparatus. Incubation at 20°C retarded the migration to the Golgi apparatus by ^-30 min and blocked the surface appearance by acting at a late stage in the intracellular pathway, presumably at the level of the post-Golgi vesicles. -
Genome-Wide Screen of Otosclerosis in Population Biobanks
medRxiv preprint doi: https://doi.org/10.1101/2020.11.15.20227868; this version posted November 16, 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. It is made available under a CC-BY-NC-ND 4.0 International license . 1 Genome-wide Screen of Otosclerosis in 2 Population Biobanks: 18 Loci and Shared 3 Heritability with Skeletal Structure 4 Joel T. Rämö1, Tuomo Kiiskinen1, Juha Karjalainen1,2,3,4, Kristi Krebs5, Mitja Kurki1,2,3,4, Aki S. 5 Havulinna6, Eija Hämäläinen1, Paavo Häppölä1, Heidi Hautakangas1, FinnGen, Konrad J. 6 Karczewski1,2,3,4, Masahiro Kanai1,2,3,4, Reedik Mägi5, Priit Palta1,5, Tõnu Esko5, Andres Metspalu5, 7 Matti Pirinen1,7,8, Samuli Ripatti1,2,7, Lili Milani5, Antti Mäkitie9, Mark J. Daly1,2,3,4,10, and Aarno 8 Palotie1,2,3,4 9 1. Institute for Molecular Medicine Finland (FIMM), Helsinki Institute of Life Science (HiLIFE), University of 10 Helsinki, Helsinki, Finland 11 2. Program in Medical and Population Genetics, Broad Institute of Harvard and MIT, Cambridge, 12 Massachusetts, USA 13 3. Stanley Center for Psychiatric Research, Broad Institute of Harvard and MIT, Cambridge, Massachusetts, 14 USA 15 4. Analytic and Translational Genetics Unit, Massachusetts General Hospital, Boston, Massachusetts, USA 16 5. Estonian Genome Center, University of Tartu, Tartu, Estonia, Institute of Molecular and Cell Biology, 17 University of Tartu, Tartu, Estonia 18 6. Finnish Institute for Health and Welfare, Helsinki, Finland 19 7. Department of Public Health, Clinicum, Faculty of Medicine, University of Helsinki, Helsinki, Finland 20 8. -
The Mechanics of Intracellular Transport
Developmental Cell Previews Cutting through the Noise: The Mechanics of Intracellular Transport Samantha Stam1,2 and Margaret L. Gardel2,3,* 1Biophysical Sciences Graduate Program, University of Chicago, Chicago, IL 60637, USA 2James Franck Institute and Institute for Biophysical Dynamics, University of Chicago, Chicago, IL 60637, USA 3Department of Physics, University of Chicago, Chicago, IL 60637, USA *Correspondence: [email protected] http://dx.doi.org/10.1016/j.devcel.2014.08.013 Intracellular transport of organelles and proteins is driven by multiple ATP-dependent processes. Recently in Cell, Guo et al. (2014) developed a technique, force-spectrum microscopy, to measure intracellular forces and demonstrate that large motion of cellular components can be produced by random ATP-dependent fluc- tuations within the cytoplasm. Intracellular transport is crucial to diverse mechanisms, and they overcome the Here, Guo et al. (2014) provide the physiological tasks. The cell employs limitations of diffusive transport in at first measurements to directly charac- multiple mechanisms to meet the de- least two distinct ways. One well-appre- terize these ATP-dependent yet random mands of rapidly transporting cell con- ciated mechanism is that molecular forces within the cytoplasm. The authors tents of varying size over large distances, motor proteins drive directed transport measured the mechanics of the cyto- ranging from microns to up to a meter, to of attached cargo along filament tracks plasm using optical tweezers to apply support specific physiological tasks (Figure 1C, blue and black) (Howard, forces to inert particles microinjected (Figure 1A). In a recent issue of Cell, Guo 2001). Motors transport cargo along into the cytoplasm. -
Frontotemporal Dementia an Autophagy Disease? Zhiqiang Deng1,2,3, Patricia Sheehan3, Shi Chen1,2* and Zhenyu Yue3*
Deng et al. Molecular Neurodegeneration (2017) 12:90 DOI 10.1186/s13024-017-0232-6 REVIEW Open Access Is amyotrophic lateral sclerosis/ frontotemporal dementia an autophagy disease? Zhiqiang Deng1,2,3, Patricia Sheehan3, Shi Chen1,2* and Zhenyu Yue3* Abstract Amyotrophic lateral sclerosis (ALS) and frontotemporal dementia (FTD) are neurodegenerative disorders that share genetic risk factors and pathological hallmarks. Intriguingly, these shared factors result in a high rate of comorbidity of these diseases in patients. Intracellular protein aggregates are a common pathological hallmark of both diseases. Emerging evidence suggests that impaired RNA processing and disrupted protein homeostasis are two major pathogenic pathways for these diseases. Indeed, recent evidence from genetic and cellular studies of the etiology and pathogenesis of ALS-FTD has suggested that defects in autophagy may underlie various aspects of these diseases. In this review, we discuss the link between genetic mutations, autophagy dysfunction, and the pathogenesis of ALS-FTD. Although dysfunction in a variety of cellular pathways can lead to these diseases, we provide evidence that ALS-FTD is, in many cases, an autophagy disease. Keywords: Amyotrophic lateral sclerosis, Frontotemporal dementia, Autophagy, Disease-associated genes, Autophagy- related genes Background FTD is a form of dementia characterized by focal atro- Though various cellular defects are noted in Amyo- phy of the frontal and anterior temporal lobes of the trophic Lateral Sclerosis (ALS) and Frontotemporal de- brain, called frontaltemporal lobar degeneration (FTLD) mentia (FTD) including dysregulation of RNA [4]. The comorbidity of these diseases in patients and processing, protein aggregation, and oxidative stress, the the shared genetic risk factors suggest ALS and FTD detailed disease mechanisms remain poorly understood represent a continuum of neurodegenerative disorders [1, 2]. -
Fluorescence Microscopy Applied to Intracellular Transport by Microtubule Motors
J Biosci Vol. 43, No. 3, July 2018, pp. 437–445 Ó Indian Academy of Sciences DOI: 10.1007/s12038-018-9765-2 Fluorescence microscopy applied to intracellular transport by microtubule motors 1 2 1 DIVYA PATHAK ,SHREYASI THAKUR and ROOP MALLIK * 1Department of Biological Sciences, Tata Institute of Fundamental Research, Mumbai 400005, India 2Department of Physiology, University of Pennsylvania, Philadelphia, PA 19104, USA *Corresponding author (Email, [email protected]) Published online: 25 May 2018 Long-distance transport of many organelles inside eukaryotic cells is driven by the dynein and kinesin motors on microtubule filaments. More than 30 years since the discovery of these motors, unanswered questions include motor– organelle selectivity, structural determinants of processivity, collective behaviour of motors and track selection within the complex cytoskeletal architecture, to name a few. Fluorescence microscopy has been invaluable in addressing some of these questions. Here we present a review of some efforts to understand these sub-microscopic machines using fluorescence. Keywords. Dynein; fluorescence; kinesin; motor proteins; myosin 1. Background observe motors navigating the complex cytoskeleton. Fluo- rescent labelling also shows that both dynein and kinesin are Intracellular transport of vesicles was first inferred from present on the cargo, but how do these antagonistic motors ligatures of sciatic nerve where swelling was observed on work together is a matter of much debate (Hancock 2014). either sides of the ligature (Grafstein -
Supplementary Table S4. FGA Co-Expressed Gene List in LUAD
Supplementary Table S4. FGA co-expressed gene list in LUAD tumors Symbol R Locus Description FGG 0.919 4q28 fibrinogen gamma chain FGL1 0.635 8p22 fibrinogen-like 1 SLC7A2 0.536 8p22 solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 DUSP4 0.521 8p12-p11 dual specificity phosphatase 4 HAL 0.51 12q22-q24.1histidine ammonia-lyase PDE4D 0.499 5q12 phosphodiesterase 4D, cAMP-specific FURIN 0.497 15q26.1 furin (paired basic amino acid cleaving enzyme) CPS1 0.49 2q35 carbamoyl-phosphate synthase 1, mitochondrial TESC 0.478 12q24.22 tescalcin INHA 0.465 2q35 inhibin, alpha S100P 0.461 4p16 S100 calcium binding protein P VPS37A 0.447 8p22 vacuolar protein sorting 37 homolog A (S. cerevisiae) SLC16A14 0.447 2q36.3 solute carrier family 16, member 14 PPARGC1A 0.443 4p15.1 peroxisome proliferator-activated receptor gamma, coactivator 1 alpha SIK1 0.435 21q22.3 salt-inducible kinase 1 IRS2 0.434 13q34 insulin receptor substrate 2 RND1 0.433 12q12 Rho family GTPase 1 HGD 0.433 3q13.33 homogentisate 1,2-dioxygenase PTP4A1 0.432 6q12 protein tyrosine phosphatase type IVA, member 1 C8orf4 0.428 8p11.2 chromosome 8 open reading frame 4 DDC 0.427 7p12.2 dopa decarboxylase (aromatic L-amino acid decarboxylase) TACC2 0.427 10q26 transforming, acidic coiled-coil containing protein 2 MUC13 0.422 3q21.2 mucin 13, cell surface associated C5 0.412 9q33-q34 complement component 5 NR4A2 0.412 2q22-q23 nuclear receptor subfamily 4, group A, member 2 EYS 0.411 6q12 eyes shut homolog (Drosophila) GPX2 0.406 14q24.1 glutathione peroxidase -
Exploring Profilin
RESEARCH HIGHLIGHTS NEUROTRANSMISSION Exploring profilin DOI: 10.1038/nrn2182 Surprisingly, they found that Pfn2–/– mice, pointing towards a Pfn2–/– mice displayed normal higher vesicle release probability. development and brain anatomy. Immunoprecipitation and EM studies Learning and memory, long-term also indicated that the number of potentiation (LTP) and long-term docked vesicles is approximately 25% depression (LTD) were not impaired higher in Pfn2–/– mice. in Pfn2–/– mice when compared with How does profilin 2 alter vesicle control mice. These results suggest release? When neurotransmitter that profilin 2 is not required for secretion was stimulated in cortical development, synaptic plasticity or synaptosomes from control mice, learning and memory. F-actin levels were significantly The authors noticed, however, increased. This did not occur in that the Pfn2–/– mice behaved synaptosome preparations from differently to control mice. They Pfn2–/– mice. In addition, profilin 2, were hyperactive, and they showed but not profilin 1, was shown to be elevated exploratory and novelty- tightly associated with the WAVE- Profilins are regulators of actin seeking behaviour when placed into complex, a protein complex that is polymerization. Profilin 2 is a new environment. This included implicated in actin dynamics and expressed mainly in neurons, but increased locomotor activity, wall is abundant in synaptosomal prepa- its specific function is unknown. A rearings and rearings in the centre of rations. The authors therefore study by Boyl et al. provides evidence the experimental area. Conversely, suggest that WAVE and profilin 2 that profilin 2 is required for activ- in the familiar environment of their might cooperate to restrict synaptic ity-stimulated actin polymerization home cage, they showed reduced vesicle release. -
Profilin and Formin Constitute a Pacemaker System for Robust Actin
RESEARCH ARTICLE Profilin and formin constitute a pacemaker system for robust actin filament growth Johanna Funk1, Felipe Merino2, Larisa Venkova3, Lina Heydenreich4, Jan Kierfeld4, Pablo Vargas3, Stefan Raunser2, Matthieu Piel3, Peter Bieling1* 1Department of Systemic Cell Biology, Max Planck Institute of Molecular Physiology, Dortmund, Germany; 2Department of Structural Biochemistry, Max Planck Institute of Molecular Physiology, Dortmund, Germany; 3Institut Curie UMR144 CNRS, Paris, France; 4Physics Department, TU Dortmund University, Dortmund, Germany Abstract The actin cytoskeleton drives many essential biological processes, from cell morphogenesis to motility. Assembly of functional actin networks requires control over the speed at which actin filaments grow. How this can be achieved at the high and variable levels of soluble actin subunits found in cells is unclear. Here we reconstitute assembly of mammalian, non-muscle actin filaments from physiological concentrations of profilin-actin. We discover that under these conditions, filament growth is limited by profilin dissociating from the filament end and the speed of elongation becomes insensitive to the concentration of soluble subunits. Profilin release can be directly promoted by formin actin polymerases even at saturating profilin-actin concentrations. We demonstrate that mammalian cells indeed operate at the limit to actin filament growth imposed by profilin and formins. Our results reveal how synergy between profilin and formins generates robust filament growth rates that are resilient to changes in the soluble subunit concentration. DOI: https://doi.org/10.7554/eLife.50963.001 *For correspondence: peter.bieling@mpi-dortmund. mpg.de Introduction Competing interests: The Eukaryotic cells move, change their shape and organize their interior through dynamic actin net- authors declare that no works.