GPMDB00454OtherChapel A, et al.InstrumentNot AvailableNot availableRatajournet@cea.fr23436907INSERM 1038, BGE Lab, OdyCell team, iRTSV, CEA-Grenoblehttp://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210011729Not availableGPMDBLysosomes are membrane-bound endocytic organelles that play a major role in degrading cell macromolecules and recycling their building blocks. A comprehensive knowledge of the lysosome function requires an extensive description of its content, an issue partially addressed by previous proteomic analyses. However, the proteins underlying many lysosomal membrane functions, including numerous membrane transporters, remain unidentified. We performed a comparative, semi-quantitative proteomic analysis of rat liver lysosome-enriched and lysosome-nonenriched membranes and used spectral counts to evaluate the relative abundance of proteins. Among a total of 2,385 identified proteins, 734 proteins were significantly enriched in the lysosomal fraction, including 207 proteins already known or predicted as endo-lysosomal and 94 proteins without any known or predicted subcellular localization. The remaining 433 proteins had been previously assigned to other subcellular compartments but may in fact reside on lysosomes either predominantly or as a secondary location. Many membrane-associated complexes implicated in diverse processes such as degradation, membrane trafficking, lysosome biogenesis, lysosome acidification, signaling, and nutrient sensing were enriched in the lysosomal fraction. They were identified to an unprecedented extent as most, if not all, of their subunits were found and retained by our screen. Numerous transporters were also identified, including 46 novel potentially lysosomal proteins. We expressed 12 candidates in HeLa cells and observed that most of them colocalized with the lysosomal marker LAMP1, thus confirming their lysosomal residency. This list of candidate lysosomal proteins substantially increases our knowledge of the lysosomal membrane and provides a basis for further characterization of lysosomal functions.An extended proteome map of the lysosomal membrane reveals novel potential transporters.Chapel Agnès A,Kieffer-Jaquinod Sylvie S,Sagné Corinne C,Verdon Quentin Q,Ivaldi Corinne C,Mellal Mourad M,Thirion Jaqueline J,Jadot Michel M,Bruley Christophe C,Garin Jérôme J,Gasnier Bruno B,Journet Agnès A,Chapel Agnès A, Kieffer-Jaquinod Sylvie S, Sagné Corinne C, Verdon Quentin Q, Ivaldi Corinne C, Mellal Mourad M, Thirion Jaqueline J, Jadot Michel M, Bruley Christophe C, Garin Jérôme J, Gasnier Bruno B, Journet Agnès ARUTBC3, rabGAPLP, RabGAP-5, lysosome membrane., MUTYH-Associated Polyposis, MYH-Associated Polyposis, Proteomes, RUSC3, MAP, RABGAP5Gene., Membrane Tissue, data, Lysosome, mol, Entire liver, Proteins, number, presence, Cell, jecur, polypeptide, Membrane Tissues, count in organism, rat, Rattus sp. strain Wistar, count, Rats, Rattus norwegicus, Mammals, "Rattus rattiscus" RELATED misnomer [], Protein, proteomic analysis, "rat" EXACT common_name [], Gene Products, "Rattus sp. strain Wistar" EXACT equivalent_name [], Norway rat, Rattus rattiscus, brown rat, "Gunn rats" RELATED misnomer [], "rats" EXACT common_name [], cell, Tissues, Tissue, iecur, "brown rat" EXACT common_name [], proteins, "Rattus norvegicus8" RELATED misspelling [], Membrane, rats, Protein Gene Products, Livers, Gene Proteins, "Norway rat" EXACT genbank_common_name [], "Rattus norwegicus" RELATED misspelling [], quantitative, presence or absence in organism, Gunn rats, Rattus norvegicus8RUTBC3, rabGAPLP, RabGAP-5, lysosome membrane., MUTYH-Associated Polyposis, MYH-Associated Polyposis, Proteomes, RUSC3, MAP, RABGAP5projections, extent, multicellular organismal catabolic process, single-organism catabolic process, biological signaling, Plays, lysosome membrane, Lysosome, lamellae, number, Gene, nutrient sensing, Organelle, composed of, presence, process of organ, jecur, protrusion, lamella, Membrane Tissues, rat, Rattus sp. strain Wistar, LAMPA, Rats, Roles, Mammals, "Rattus rattiscus" RELATED misnomer [], Gene Products, establishment and maintenance of position, Concepts, Norway rat, Endo, establishment and maintenance of substrate location, Rattus rattiscus, CD105, placement, Toy, brown rat, "Gunn rats" RELATED misnomer [], FACT80, Playthings, cell, Tissues, FACT, catabolism, HeLa, Tissue, iecur, "brown rat" EXACT common_name [], composition, secreted lysosomal protein (MEP), proteins, ridges, "Rattus norvegicus8" RELATED misspelling [], AI528660, CD107a, Puppets, LGP120, papilla, signaling process, Role Concepts, Play, S-endoglin, associated, laminae, Puppet, single organism signaling, Rattus norvegicus8, AI662476, Membrane Tissue, establishment and maintenance of substance location, membrane, anatomical protrusion, degradation, completeness, Entire liver, anatomical process, Proteins, lamina, mouse, flanges, function, membranous organ component, compositionality, Cell, predicted, Concept, polypeptide, AI196048, count in organism, single organism localization, Lamp-1, Role Concept, count, Rattus norwegicus, HeLa Cell, Endometriosis, Playthings and Play, Protein, proteomic analysis, shelf, Role, "rat" EXACT common_name [], Plaything, "Rattus sp. strain Wistar" EXACT equivalent_name [], establishment and maintenance of localization, relational spatial quality, perception of nutrients, flange, detection of nutrients, organ process, Epistemology, membrane of organ, breakdown, "rats" EXACT common_name [], acidification, content, shelves, Toys, lysosome membrane., single-organism localization, Membrane, rats, projection, ridge, signalling, Protein Gene Products, Gene Proteins, Livers, process, processes, metastatic, localisation, signalling process, spine, "Norway rat" EXACT genbank_common_name [], structure, PDGF-modulated lysosomal protein, Cells, "Rattus norwegicus" RELATED misspelling [], T160, processus, quantitative, location, establishment and maintenance of cellular component location, presence or absence in organism, Gunn rats4504http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM11210011729dbgap_ncbi~0patentfamilies~0rfam~0merops~0complex-portal~0uniprot~1wormbaseparasite~0embl-covid19~0reactome~0emdb~0wgs_masters~0ebiweb_resources~0opentargets_genetics~0biomodels_all~0ipd-mhc~0ebiweb_teams~0taxonomy~0genome_assembly~0sc-experiments~0ebiweb_people~0enzymeportal_enzymes~0ipd-nhkir~0cellosaurus~0pdbe~0chebi~0patentproteins~0interpro7~0uniref~0chembl~0pdbekb~0gpcrdb~0hgnc~0sc-genes~0intact~0rhea~0ebiweb_training~0alphafold~0imgt-hla~0patentnucleotides~0ensemblroot~0eva_studies~0non-coding~0europepmc~0pubmed~1identifiers_registry~0pdbechem~0hpa-covid19~0eva-variants-covid19~0biosamples~0gwas_catalog~0biotools~0tls_masters~0mesh~0coding~0sra~0opentargets~0efo~0embl-pathogen~0project~0human_diseases~0geo_datasets~0pride~0embl~0treefam~0uniparc~0ols~0dgva~0intenz~0go~0tsa_masters~0biosamples-covid19~0ebiweb_corporate~0omim~0lrg~0earlycause-molecular-sequences~0ipd-kir~0empiar~0rnacentral~0orcid_data_claims~0gpmdb~2lineage-covid19~0metagenomics~0pfam~0varsite~00Resource Reanalysis0.00.00.0138803207896360271.00.0falseAn extended proteome map of the lysosomal membrane reveals novel potential transporters.PRIDE ID: 22847. Data published as part of Mol Cell Proteomics. 2013 Feb 24 . From the Abstract: {{i}}... We performed a comparative, semi-quantitative proteomic analysis of rat liver lysosome-enriched and lysosome-non-enriched membranes and used spectral counts to evaluate the relative abundance of proteins ... {{/i}}2013-03-07GPM1121001172923436907