Axonal BACE1 Dynamics and Targeting in Hippocampal Neurons: a Role for Rab11 Gtpase Buggia-Prévot Et Al
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Characterization of Efferosome Maturation and the Processing of Apoptotic Bodies
Western University Scholarship@Western Electronic Thesis and Dissertation Repository 8-15-2014 12:00 AM Characterization of Efferosome Maturation and the Processing of Apoptotic Bodies Yohan Kim The University of Western Ontario Supervisor Dr. Bryan Heit The University of Western Ontario Graduate Program in Microbiology and Immunology A thesis submitted in partial fulfillment of the equirr ements for the degree in Master of Science © Yohan Kim 2014 Follow this and additional works at: https://ir.lib.uwo.ca/etd Part of the Cell Biology Commons, Immunity Commons, and the Other Immunology and Infectious Disease Commons Recommended Citation Kim, Yohan, "Characterization of Efferosome Maturation and the Processing of Apoptotic Bodies" (2014). Electronic Thesis and Dissertation Repository. 2268. https://ir.lib.uwo.ca/etd/2268 This Dissertation/Thesis is brought to you for free and open access by Scholarship@Western. It has been accepted for inclusion in Electronic Thesis and Dissertation Repository by an authorized administrator of Scholarship@Western. For more information, please contact [email protected]. CHARACTERIZATION OF EFFEROSOME MATURATION AND THE PROCESSING OF APOPTOTIC BODIES (Thesis format: Monologue) by Yohan Kim Graduate Program in Microbiology and Immunology A thesis submitted in partial fulfillment of the requirements for the degree of Master of Science The School of Graduate and Postdoctoral Studies The University of Western Ontario London, Ontario, Canada © Yohan Kim 2014 Abstract Every day billions of cells in our bodies undergo apoptosis and are cleared through efferocytosis – a phagocytosis-like process in which phagocytes engulf and degrade apoptotic cells. Proper processing of efferosomes prevents inflammation and immunogenic presentation of antigens. -
Anti-Rab11 Antibody (ARG41900)
Product datasheet [email protected] ARG41900 Package: 100 μg anti-Rab11 antibody Store at: -20°C Summary Product Description Goat Polyclonal antibody recognizes Rab11 Tested Reactivity Hu, Ms, Rat, Dog, Mk Tested Application IHC-Fr, IHC-P, WB Host Goat Clonality Polyclonal Isotype IgG Target Name Rab11 Antigen Species Mouse Immunogen Purified recombinant peptides within aa. 110 to the C-terminus of Mouse Rab11a, Rab11b and Rab11c (Rab25). Conjugation Un-conjugated Alternate Names RAB11A: Rab-11; Ras-related protein Rab-11A; YL8 RAB11B: GTP-binding protein YPT3; H-YPT3; Ras-related protein Rab-11B RAB25: RAB11C; CATX-8; Ras-related protein Rab-25 Application Instructions Application table Application Dilution IHC-Fr 1:100 - 1:400 IHC-P 1:100 - 1:400 WB 1:250 - 1:2000 Application Note IHC-P: Antigen Retrieval: Heat mediation was recommended. * The dilutions indicate recommended starting dilutions and the optimal dilutions or concentrations should be determined by the scientist. Positive Control Hepa cell lysate Calculated Mw 24 kDa Observed Size ~ 26 kDa Properties Form Liquid Purification Affinity purification with immunogen. Buffer PBS, 0.05% Sodium azide and 20% Glycerol. Preservative 0.05% Sodium azide www.arigobio.com 1/3 Stabilizer 20% Glycerol Concentration 3 mg/ml Storage instruction For continuous use, store undiluted antibody at 2-8°C for up to a week. For long-term storage, aliquot and store at -20°C. Storage in frost free freezers is not recommended. Avoid repeated freeze/thaw cycles. Suggest spin the vial prior to opening. The antibody solution should be gently mixed before use. Note For laboratory research only, not for drug, diagnostic or other use. -
Transcytosis of Ngcam in Epithelial Cells Reflects Differential Signal
Published August 8, 2005 JCB: ARTICLE Transcytosis of NgCAM in epithelial cells reflects differential signal recognition on the endocytic and secretory pathways Eric Anderson, Sandra Maday, Jeff Sfakianos, Michael Hull, Bettina Winckler, David Sheff, Heike Fölsch, and Ira Mellman Department of Cell Biology, Ludwig Institute for Cancer Research, Yale University School of Medicine, New Haven, CT 06520 gCAM is a cell adhesion molecule that is largely ability to interact with clathrin adaptors. Based on the be- axonal in neurons and apical in epithelia. In Ma- havior of various NgCAM mutants, it appears that after Ndin-Darby canine kidney cells, NgCAM is tar- arrival at the basolateral surface, the AP-1B interaction geted to the apical surface by transcytosis, being first in- site is silenced by phosphorylation of Tyr33. This slows en- serted into the basolateral domain from which it is docytosis and inhibits basolateral recycling from endo- internalized and transported to the apical domain. Initial somes, resulting in NgCAM transcytosis due to a cryptic basolateral transport is mediated by a sequence motif apical targeting signal in its extracellular domain. Thus, Downloaded from (Y33RSL) decoded by the AP-1B clathrin adaptor complex. transcytosis of NgCAM and perhaps other membrane This motif is a substrate in vitro for tyrosine phosphoryla- proteins may reflect the spatial regulation of recognition tion by p60src, a modification that disrupts NgCAM’s by adaptors such as AP-1B. on March 10, 2017 Introduction The generation and maintenance of cellular polarity is an es- ously resorted in endosomes to maintain their polarized distri- sential aspect of multicellular life. -
Four-Dimensional Live Imaging of Apical Biosynthetic Trafficking Reveals a Post-Golgi Sorting Role of Apical Endosomal Intermediates
Four-dimensional live imaging of apical biosynthetic trafficking reveals a post-Golgi sorting role of apical endosomal intermediates Roland Thuenauera,b,1,2, Ya-Chu Hsua, Jose Maria Carvajal-Gonzaleza,3, Sylvie Debordea,4, Jen-Zen Chuanga, Winfried Römerc,d, Alois Sonnleitnerb, Enrique Rodriguez-Boulana,5, and Ching-Hwa Sunga,5 aMargaret M. Dyson Vision Research Institute, Weill Medical College of Cornell University, New York, NY 10065; bCenter for Advanced Bioanalysis Linz, 4020 Linz, Austria; and cInstitute of Biology II, and dBIOSS Centre for Biological Signalling Studies, Albert-Ludwigs-University Freiburg, 79104 Freiburg, Germany Edited by Keith E. Mostov, University of California School of Medicine, San Francisco, CA, and accepted by the Editorial Board January 17, 2014 (received for review March 11, 2013) Emerging data suggest that in polarized epithelial cells newly is an important regulator of biological processes that require synthesized apical and basolateral plasma membrane proteins apical trafficking, e.g., lumen formation during epithelial tubu- traffic through different endosomal compartments en route to the logenesis (11), apical secretion of discoidal/fusiform vesicles in respective cell surface. However, direct evidence for trans-endo- bladder umbrella cells (12), and apical microvillus morphogenesis somal pathways of plasma membrane proteins is still missing and and rhodopsin localization in fly photoreceptors (13). However, the mechanisms involved are poorly understood. Here, we imaged despite the physiological importance of trans-endosomal traf- the entire biosynthetic route of rhodopsin-GFP, an apical marker in ficking, the underlying mechanisms remain largely unclear. epithelial cells, synchronized through recombinant conditional ag- Previous studies on trans-endosomal trafficking in polarized gregation domains, in live Madin-Darby canine kidney cells using epithelial cells have relied on pulse chase/cell fractionation pro- spinning disk confocal microscopy. -
Apical-To-Basolateral Transcytosis of Photoreceptor Outer Segments Induced by Lipid Peroxidation Products in Human Retinal Pigment Epithelial Cells
Retinal Cell Biology Apical-to-Basolateral Transcytosis of Photoreceptor Outer Segments Induced by Lipid Peroxidation Products in Human Retinal Pigment Epithelial Cells Tim U. Krohne,1 Frank G. Holz,1 and Ju¨rgen Kopitz2 PURPOSE. Progressive accumulation of extracellular material at posit formation and drusen biogenesis in AMD. (Invest Oph- the basolateral side of the retinal pigment epithelium (RPE) is thalmol Vis Sci. 2010;51:553–560) DOI:10.1167/iovs.09-3755 a key event in the pathogenesis of age-related macular degen- eration (AMD). The authors previously demonstrated that mod- rogressive deposition of extracellular material between the ifications with lipid peroxidation products, such as 4-hy- basolateral side of the retinal pigment epithelium (RPE) droxynonenal (HNE) and malondialdehyde (MDA), stabilize P and adjacent Bruch’s membrane is a hallmark of early-stage photoreceptor outer segment (POS) proteins against lysosomal age-related macular degeneration (AMD).1,2 Among the various degradation. Herein, they tested RPE cells for the basolateral histologically and clinically distinguishable manifestations of release of undegraded modified POS proteins. sub-RPE deposits, basal linear deposits (BLinD) and soft drusen METHODS. Polarized cultures of the human RPE cell line are recognized as specific for AMD.3,4 Both BLinD and soft ARPE-19 on permeable membranes were incubated with io- drusen represent accumulations of material described as mem- dine-125–labeled POS on the apical side. After 24 hours, radio- branous debris5 between the RPE basement membrane and the activity was quantified in apical medium, cell lysates, and inner collagenous layer of Bruch’s membrane and are, there- basolateral medium after separation of undegraded proteins by fore, considered diffuse and focal manifestations, respectively, precipitation. -
Thyroid Hormone Synthesis Continues Despite Biallelic Thyroglobulin Mutation with Cell Death
Thyroid hormone synthesis continues despite biallelic thyroglobulin mutation with cell death Xiaohan Zhang, … , Viviana A. Balbi, Peter Arvan JCI Insight. 2021. https://doi.org/10.1172/jci.insight.148496. Research In-Press Preview Endocrinology Graphical abstract Find the latest version: https://jci.me/148496/pdf Thyroid hormone synthesis continues despite biallelic thyroglobulin mutation with cell death Authors: Xiaohan Zhang1, Aaron P. Kellogg1, Cintia E. Citterio1,2,3, Hao Zhang1, Dennis Larkin1, Yoshiaki Morishita1,4, Héctor M. Targovnik2,3, Viviana Balbi5, and Peter Arvan1* Affiliations: 1Division of Metabolism, Endocrinology & Diabetes, University of Michigan, Ann Arbor, MI 48105 2Universidad de Buenos Aires. Facultad de Farmacia y Bioquímica. Departamento de Microbiología, Inmunología, Biotecnología y Genética/Cátedra de Genética. Buenos Aires, Argentina. 3CONICET, Universidad de Buenos Aires, Instituto de Inmunología, Genética y Metabolismo (INIGEM), Buenos Aires, Argentina 4Division of Diabetes, Department of Internal Medicine, Aichi Medical University, 1-1 Yazakokarimata, Nagakute, Aichi 480-1195, Japan 5Department of Endocrinology and Growth, Hospital de Niños Sor María Ludovica, La Plata, Argentina Conflict of interest: The authors declare that no conflict of interest exists. Short Title: Thyroxine synthesis from dead cells 1 Complete absence of thyroid hormone is incompatible with life in vertebrates. Thyroxine is synthesized within thyroid follicles upon iodination of thyroglobulin conveyed from the endoplasmic reticulum (ER), via the Golgi complex, to the extracellular follicular lumen. In congenital hypothyroidism from bi-allelic thyroglobulin mutation, thyroglobulin is misfolded and cannot advance from the ER, eliminating its secretion and triggering ER stress. Nevertheless, untreated patients somehow continue to synthesize sufficient thyroxine to yield measurable serum levels that sustain life. -
Mitosomes in Entamoeba Histolytica Contain a Sulfate Activation Pathway
Mitosomes in Entamoeba histolytica contain a sulfate activation pathway Fumika Mi-ichi, Mohammad Abu Yousuf, Kumiko Nakada-Tsukui, and Tomoyoshi Nozaki1 Department of Parasitology, National Institute of Infectious Diseases, Tokyo 162-8640, Japan Edited by Andrew Roger, Dalhousie University, Halifax, NS, Canada, and accepted by the Editorial Board October 19, 2009 (received for review June 25, 2009) Hydrogenosomes and mitosomes are mitochondrion-related or- and M. balamuthi lack the ISC system, and instead possess the ganelles in anaerobic/microaerophilic eukaryotes with highly re- nitrogen fixation (NIF) system, which is most likely derived from an duced and divergent functions. The full diversity of their content ancestral nitrogen fixing -proteobacterium by lateral gene transfer and function, however, has not been fully determined. To under- (22, 24). Only 5 proteins have been demonstrated in E. histolytica stand the central role of mitosomes in Entamoeba histolytica,a mitosomes: Cpn60 (8–10, 12), Cpn10 (13), mitochondrial Hsp70 parasitic protozoon that causes amoebic dysentery and liver ab- (11, 15), pyridine nucleotide transhydrogenase (PNT) (2, 8), and scesses, we examined the proteomic profile of purified mitosomes. mitochondria carrier family (MCF, ADP/ATP transporter) (14), Using 2 discontinuous Percoll gradient centrifugation and MS and the central role of mitosomes in E. histolytica remains unknown. analysis, we identified 95 putative mitosomal proteins. Immuno- Analysis of the genome of E. histolytica has not revealed any fluorescence assay showed that 3 proteins involved in sulfate additional information regarding the function of mitosomes and activation, ATP sulfurylase, APS kinase, and inorganic pyrophos- thus, a proteomic analysis of mitosomes seems to be the best phatase, as well as sodium/sulfate symporter, involved in sulfate approach to understand its structure and function (1, 2). -
Drosophila and Human Transcriptomic Data Mining Provides Evidence for Therapeutic
Drosophila and human transcriptomic data mining provides evidence for therapeutic mechanism of pentylenetetrazole in Down syndrome Author Abhay Sharma Institute of Genomics and Integrative Biology Council of Scientific and Industrial Research Delhi University Campus, Mall Road Delhi 110007, India Tel: +91-11-27666156, Fax: +91-11-27662407 Email: [email protected] Nature Precedings : hdl:10101/npre.2010.4330.1 Posted 5 Apr 2010 Running head: Pentylenetetrazole mechanism in Down syndrome 1 Abstract Pentylenetetrazole (PTZ) has recently been found to ameliorate cognitive impairment in rodent models of Down syndrome (DS). The mechanism underlying PTZ’s therapeutic effect is however not clear. Microarray profiling has previously reported differential expression of genes in DS. No mammalian transcriptomic data on PTZ treatment however exists. Nevertheless, a Drosophila model inspired by rodent models of PTZ induced kindling plasticity has recently been described. Microarray profiling has shown PTZ’s downregulatory effect on gene expression in fly heads. In a comparative transcriptomics approach, I have analyzed the available microarray data in order to identify potential mechanism of PTZ action in DS. I find that transcriptomic correlates of chronic PTZ in Drosophila and DS counteract each other. A significant enrichment is observed between PTZ downregulated and DS upregulated genes, and a significant depletion between PTZ downregulated and DS dowwnregulated genes. Further, the common genes in PTZ Nature Precedings : hdl:10101/npre.2010.4330.1 Posted 5 Apr 2010 downregulated and DS upregulated sets show enrichment for MAP kinase pathway. My analysis suggests that downregulation of MAP kinase pathway may mediate therapeutic effect of PTZ in DS. Existing evidence implicating MAP kinase pathway in DS supports this observation. -
A Novel Rab11-Rab3a Cascade Required for Lysosome Exocytosis
bioRxiv preprint doi: https://doi.org/10.1101/2021.03.06.434066; this version posted March 6, 2021. 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. A novel Rab11-Rab3a cascade required for lysosome exocytosis Cristina Escrevente1,*, Liliana Bento-Lopes1*, José S Ramalho1, Duarte C Barral1,† 1 iNOVA4Health, CDOC, NOVA Medical School, NMS, Universidade NOVA de Lisboa, 1169-056 Lisboa, Portugal. * These authors contributed equally to this work. † Correspondence should be sent to: Duarte C Barral, CEDOC, NOVA Medical School|Faculdade de Ciências Médicas, Universidade NOVA de Lisboa, Campo dos Mártires da Pátria 130, 1169-056, Lisboa, Portugal, Tel: +351 218 803 102, Fax: +351 218 803 006, [email protected]. (ORCID 0000-0001-8867-2407). Abbreviations used in this paper: FIP, Rab11-family of interacting protein; GEF, guanine nucleotide exchange factor; LE, late endosomes; LRO, lysosome-related organelle; NMIIA, non-muscle myosin heavy chain IIA; Slp-4a, synaptotagmin-like protein 4a. 1 bioRxiv preprint doi: https://doi.org/10.1101/2021.03.06.434066; this version posted March 6, 2021. 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 Lysosomes are dynamic organelles, capable of undergoing exocytosis. This process is crucial for several cellular functions, namely plasma membrane repair. -
Transcytosis of Trka Leads to Diversification of Dendritic Signaling
www.nature.com/scientificreports OPEN Transcytosis of TrkA leads to diversifcation of dendritic signaling endosomes Received: 8 January 2018 Kelly Barford 1, Austin Keeler2, Lloyd McMahon1, Kathryn McDaniel1, Chan Choo Yap1, Accepted: 5 March 2018 Christopher D. Deppmann2,3 & Bettina Winckler1 Published: xx xx xxxx The development of the peripheral nervous system relies on long-distance signaling from target organs back to the soma. In sympathetic neurons, this long-distance signaling is mediated by target derived Nerve Growth Factor (NGF) interacting with its axonal receptor, TrkA. This ligand receptor complex internalizes into what is commonly referred to as the signaling endosome which is transported retrogradely to the soma and dendrites to mediate survival signaling and synapse formation, respectively. The molecular identity of signaling endosomes in dendrites has not yet been determined. Here, we perform a detailed analysis of TrkA endosomal compartments and trafcking patterns. We fnd that signaling endosomes are not uniform but molecularly diversifed into Rab7 (late endosome) and Rab11 (recycling endosome) populations in axons and dendrites in vitro and in the soma in vivo. Surprisingly, TrkA-NGF signaling endosomes in dendrites undergo dynamic trafcking events, including putative fusion and fssion. Overall, we fnd that signaling endosomes do not remain as a singular endosomal subtype but instead exist in multiple populations that undergo dynamic endosomal trafcking events. These dynamic events might drive functional diversifcation of the signaling endosome. Te development of the sympathetic and sensory nervous systems requires the target derived neurotrophic factor, Nerve Growth Factor (NGF)1. Te molecular and cellular mechanisms that enable target derived NGF to transmit signals long distances from distal axons to the cell body have been under intense investigation for several years. -
A New Look at Transudation: the Apocrine Connection
Physiol. Res. 69: 227-244, 2020 https://doi.org/10.33549/physiolres.934229 REVIEW A New Look at Transudation: The Apocrine Connection Robert FARKAŠ1, Milan BEŇO1, Denisa BEŇOVÁ-LISZEKOVÁ1, Ivan RAŠKA2, Otakar RAŠKA2,3 1Laboratory of Developmental Genetics, Institute of Experimental Endocrinology, Biomedical Research Center, Slovak Academy of Sciences, Bratislava, Slovak Republic, 2Institute of Biology and Medical Genetics, First Faculty of Medicine, Charles University, Prague, Czech Republic, 3Institute of Pathophysiology, Third Faculty of Medicine, Charles University, Prague, Czech Republic Received June 9, 2019 Accepted December 20, 2019 Epub Ahead of Print March 23, 2020 Summary Corresponding authors Transcellular trafficking in which various molecules are Robert Farkaš, Laboratory of Developmental Genetics, Institute transported across the interior of a cell, is commonly classified as of Experimental Endocrinology, Biomedical Research Center, transcytosis. However, historically this term has been used Slovak Academy of Sciences, Dúbravská cesta 9, 84505 synonymously with transudation. In both cases transcellular Bratislava, Slovak Republic. E-mail: [email protected]. Otakar trafficking starts with the internalization of proteins or other Raška, Third Faculty of Medicine, Charles University, Ruská 87, compounds on the basal or basolateral side of a cell and 10000 Prague, Czech Republic. E-mail: [email protected] continues by their transport across the interior to the apical pole (or vice versa) where they are subsequently released. -
Bioinformatics Analysis of Autophagy-Related Lncrnas in Esophageal Carcinoma
Bioinformatics analysis of autophagy-related lncRNAs in esophageal carcinoma Dan Wu Shanxi Medical University Yi Ding Xinjiang Medical University junbai fan ( [email protected] ) Shanxi Medical University https://orcid.org/0000-0003-3132-1715 Research article Keywords: Autophagy, Bioinformatics analysis, Esophageal carcinoma Posted Date: November 17th, 2020 DOI: https://doi.org/10.21203/rs.3.rs-60567/v2 License: This work is licensed under a Creative Commons Attribution 4.0 International License. Read Full License Version of Record: A version of this preprint was published at Combinatorial Chemistry & High Throughput Screening on June 24th, 2021. See the published version at https://doi.org/10.2174/1386207324666210624143452. Page 1/19 Abstract Background: Esophageal carcinoma (ESCA) is a malignant tumor with high invasiveness and mortality. Autophagy has multiple roles in the development of cancer; however, there are limited data on autophagy genes associated with long non-coding RNAs (lncRNAs) in ESCA. The purpose of this study was to screen potential diagnostic and prognostic molecules, and to identify gene co-expression networks associated with autophagy in ESCA. Methods: We downloaded transcriptome expression proles from The Cancer Genome Atlas and autophagy-related gene data from the Human Autophagy Database, and analyzed the co-expression of mRNAs and lncRNAs. In addition, the diagnostic and prognostic value of autophagy-related lncRNAs was analyzed by multivariate Cox regression. Furthermore, Kyoto Encyclopedia of Genes and Genomes analysis was carried out for high-risk patients, and enriched pathways were analyzed by gene set enrichment analysis. Results: The results showed that genes of high-risk patients were enriched in protein export and spliceosome.