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      Mutations in the X-linked ATP6AP2 cause a glycosylation disorder with autophagic defects

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          Abstract

          Rujano et al. report mutations in ATP6AP2 leading to liver disease, immunodeficiency, and psychomotor impairment. ATP6AP2 deficiency impairs the assembly and function of the V-ATPase proton pump, causing defects in protein glycosylation and autophagy.

          Abstract

          The biogenesis of the multi-subunit vacuolar-type H +-ATPase (V-ATPase) is initiated in the endoplasmic reticulum with the assembly of the proton pore V0, which is controlled by a group of assembly factors. Here, we identify two hemizygous missense mutations in the extracellular domain of the accessory V-ATPase subunit ATP6AP2 (also known as the [pro]renin receptor) responsible for a glycosylation disorder with liver disease, immunodeficiency, cutis laxa, and psychomotor impairment. We show that ATP6AP2 deficiency in the mouse liver caused hypoglycosylation of serum proteins and autophagy defects. The introduction of one of the missense mutations into Drosophila led to reduced survival and altered lipid metabolism. We further demonstrate that in the liver-like fat body, the autophagic dysregulation was associated with defects in lysosomal acidification and mammalian target of rapamycin (mTOR) signaling. Finally, both ATP6AP2 mutations impaired protein stability and the interaction with ATP6AP1, a member of the V0 assembly complex. Collectively, our data suggest that the missense mutations in ATP6AP2 lead to impaired V-ATPase assembly and subsequent defects in glycosylation and autophagy.

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          Defining the human deubiquitinating enzyme interaction landscape.

          Deubiquitinating enzymes (Dubs) function to remove covalently attached ubiquitin from proteins, thereby controlling substrate activity and/or abundance. For most Dubs, their functions, targets, and regulation are poorly understood. To systematically investigate Dub function, we initiated a global proteomic analysis of Dubs and their associated protein complexes. This was accomplished through the development of a software platform called CompPASS, which uses unbiased metrics to assign confidence measurements to interactions from parallel nonreciprocal proteomic data sets. We identified 774 candidate interacting proteins associated with 75 Dubs. Using Gene Ontology, interactome topology classification, subcellular localization, and functional studies, we link Dubs to diverse processes, including protein turnover, transcription, RNA processing, DNA damage, and endoplasmic reticulum-associated degradation. This work provides the first glimpse into the Dub interaction landscape, places previously unstudied Dubs within putative biological pathways, and identifies previously unknown interactions and protein complexes involved in this increasingly important arm of the ubiquitin-proteasome pathway.
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            Analysis of genetic mosaics in developing and adult Drosophila tissues.

            T Xu, G Rubin (1993)
            We have constructed a series of strains to facilitate the generation and analysis of clones of genetically distinct cells in developing and adult tissues of Drosophila. Each of these strains carries an FRT element, the target for the yeast FLP recombinase, near the base of a major chromosome arm, as well as a gratuitous cell-autonomous marker. Novel markers that carry epitope tags and that are localized to either the cell nucleus or cell membrane have been generated. As a demonstration of how these strains can be used to study a particular gene, we have analyzed the developmental role of the Drosophila EGF receptor homolog. Moreover, we have shown that these strains can be utilized to identify new mutations in mosaic animals in an efficient and unbiased way, thereby providing an unprecedented opportunity to perform systematic genetic screens for mutations affecting many biological processes.
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              Drosophila tools and assays for the study of human diseases

              ABSTRACT Many of the internal organ systems of Drosophila melanogaster are functionally analogous to those in vertebrates, including humans. Although humans and flies differ greatly in terms of their gross morphological and cellular features, many of the molecular mechanisms that govern development and drive cellular and physiological processes are conserved between both organisms. The morphological differences are deceiving and have led researchers to undervalue the study of invertebrate organs in unraveling pathogenic mechanisms of diseases. In this review and accompanying poster, we highlight the physiological and molecular parallels between fly and human organs that validate the use of Drosophila to study the molecular pathogenesis underlying human diseases. We discuss assays that have been developed in flies to study the function of specific genes in the central nervous system, heart, liver and kidney, and provide examples of the use of these assays to address questions related to human diseases. These assays provide us with simple yet powerful tools to study the pathogenic mechanisms associated with human disease-causing genes.
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                Author and article information

                Journal
                J Exp Med
                J. Exp. Med
                jem
                jem
                The Journal of Experimental Medicine
                The Rockefeller University Press
                0022-1007
                1540-9538
                4 December 2017
                : 214
                : 12
                : 3707-3729
                Affiliations
                [1 ]Laboratory of Epithelial Biology and Disease, Imagine Institute, Paris, France
                [2 ]Université Paris Descartes—Sorbonne Paris Cité, Imagine Institute, Paris, France
                [3 ]Institut Necker-Enfants Malades, Paris, France
                [4 ]Institut National de la Santé et de la Recherche Medicale U1151/Centre National de la Recherche Scientifique UMR 8253, Paris, France
                [5 ]University of Leuven (KU Leuven), Center for Human Genetics, Leuven, Belgium
                [6 ]Universitätsklinikum Münster, Klinik für Kinder- und Jugendmedizin, Münster, Germany
                [7 ]Kreiskliniken Reutlingen, Klinik für Kinder- und Jugendmedizin, Klinikum am Steinenberg, Reutlingen, Germany
                [8 ]Dr. von Haunersches Kinderspital der Universität München, München, Germany
                [9 ]Osaka Medical Center and Research Institute for Maternal and Child Health, Osaka, Japan
                [10 ]Department of Cellular and Molecular Pharmacology, University of California, San Francisco, San Francisco, CA
                [11 ]Centre for Biological Signaling Studies BIOSS, University of Freiburg, Freiburg, Germany
                [12 ]Metabolic Reference Center, Coimbra University Hospital Center, Coimbra, Portugal
                [13 ]Biochemical Genetics Unit, Centro de Genética Médica Doutor Jacinto Magalhães, Centro Hospitalar do Porto, Abel Salazar Institute of Biomedical Sciences, University of Porto, Porto, Portugal
                [14 ]Department of Neurology, University of Washington, Seattle, WA
                [15 ]Department of Medicine, University of Washington, Seattle, WA
                [16 ]Geriatric Research Center, Veterans Administration Medical Center, Seattle, WA
                [17 ]Faculty of Chemistry/Biochemistry III, University Bielefeld, Bielefeld, Germany
                [18 ]Université Lille, Centre National de la Recherche Scientifique UMR 8576, Unité de Glycobiologie Structurale et Fonctionnelle, Lille, France
                Author notes
                Correspondence to Matias Simons: matias.simons@ 123456institutimagine.org
                [*]

                M.A. Rujano and M. Cannata Serio contributed equally to this paper.

                [**]

                G. Matthijs, T. Marquardt, and M. Simons contributed equally to this paper.

                M. Schwake’s present address is Dept. of Neurology, Northwestern University Feinberg School of Medicine, Chicago, IL.

                Author information
                http://orcid.org/0000-0002-6859-3418
                http://orcid.org/0000-0002-2084-3406
                http://orcid.org/0000-0001-6077-4620
                http://orcid.org/0000-0001-6628-3910
                http://orcid.org/0000-0003-2305-9948
                http://orcid.org/0000-0001-9184-445X
                http://orcid.org/0000-0001-6749-8681
                http://orcid.org/0000-0002-6847-745X
                http://orcid.org/0000-0001-8141-9054
                http://orcid.org/0000-0003-3959-6350
                Article
                20170453
                10.1084/jem.20170453
                5716037
                29127204
                756522b7-426d-4287-b64c-9788ebafce98
                © 2017 Rujano et al.

                This article is distributed under the terms of an Attribution–Noncommercial–Share Alike–No Mirror Sites license for the first six months after the publication date (see http://www.rupress.org/terms/). After six months it is available under a Creative Commons License (Attribution–Noncommercial–Share Alike 4.0 International license, as described at https://creativecommons.org/licenses/by-nc-sa/4.0/).

                History
                : 10 March 2017
                : 01 August 2017
                : 22 September 2017
                Funding
                Funded by: ATIP-Avenir
                Funded by: Fondation Bettencourt-Schueller, DOI https://doi.org/10.13039/501100007492;
                Funded by: Agence Nationale de la Recherche, DOI https://doi.org/10.13039/501100001665;
                Award ID: ANR-10-IAHU-01
                Funded by: NEPHROFLY
                Award ID: ANR-14-ACHN-0013
                Funded by: Agence Nationale de la Recherche, DOI https://doi.org/10.13039/501100001665;
                Award ID: SOLV-CDG
                Funded by: NUTRISENSPIK
                Award ID: ANR-16-CE14-0029
                Funded by: European Union’s Horizon 2020, DOI https://doi.org/10.13039/100010661;
                Funded by: ERA-NET Cofund
                Award ID: 643578
                Funded by: FWO, DOI https://doi.org/10.13039/501100003130;
                Funded by: CNRS, DOI https://doi.org/10.13039/501100004794;
                Funded by: FWO, DOI https://doi.org/10.13039/501100003130;
                Funded by: FWO, DOI https://doi.org/10.13039/501100003130;
                Funded by: National Institutes of Health, DOI https://doi.org/10.13039/100000002;
                Award ID: R01NS069719
                Funded by: Department of Veterans Affairs, DOI https://doi.org/10.13039/100000738;
                Funded by: Fundação para a Ciência e a Tecnologia, DOI https://doi.org/10.13039/501100001871;
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