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  1. Article ; Online: From policy to practice: Lessons learned from an open science funding initiative.

    Dumanis, Sonya B / Ratan, Kristen / McIntosh, Souad / Shah, Hetal V / Lewis, Matt / Vines, Timothy H / Schekman, Randy / Riley, Ekemini A

    PLoS computational biology

    2023  Volume 19, Issue 12, Page(s) e1011626

    Language English
    Publishing date 2023-12-07
    Publishing country United States
    Document type Journal Article
    ZDB-ID 2193340-6
    ISSN 1553-7358 ; 1553-734X
    ISSN (online) 1553-7358
    ISSN 1553-734X
    DOI 10.1371/journal.pcbi.1011626
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Loss of TAX1BP1-Directed Autophagy Results in Protein Aggregate Accumulation in the Brain.

    Sarraf, Shireen A / Shah, Hetal V / Kanfer, Gil / Pickrell, Alicia M / Holtzclaw, Lynne A / Ward, Michael E / Youle, Richard J

    Molecular cell

    2022  Volume 82, Issue 7, Page(s) 1383–1385

    Language English
    Publishing date 2022-04-08
    Publishing country United States
    Document type Published Erratum
    ZDB-ID 1415236-8
    ISSN 1097-4164 ; 1097-2765
    ISSN (online) 1097-4164
    ISSN 1097-2765
    DOI 10.1016/j.molcel.2022.03.020
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: Loss of TAX1BP1-Directed Autophagy Results in Protein Aggregate Accumulation in the Brain.

    Sarraf, Shireen A / Shah, Hetal V / Kanfer, Gil / Pickrell, Alicia M / Holtzclaw, Lynne A / Ward, Michael E / Youle, Richard J

    Molecular cell

    2020  Volume 80, Issue 5, Page(s) 779–795.e10

    Abstract: Protein aggregates disrupt cellular homeostasis, causing toxicity linked to neurodegeneration. Selective autophagic elimination of aggregates is critical to protein quality control, but how aggregates are selectively targeted for degradation is unclear. ... ...

    Abstract Protein aggregates disrupt cellular homeostasis, causing toxicity linked to neurodegeneration. Selective autophagic elimination of aggregates is critical to protein quality control, but how aggregates are selectively targeted for degradation is unclear. We compared the requirements for autophagy receptor proteins: OPTN, NBR1, p62, NDP52, and TAX1BP1 in clearance of proteotoxic aggregates. Endogenous TAX1BP1 is recruited to and required for the clearance of stress-induced aggregates, whereas ectopic expression of TAX1BP1 increases clearance through autophagy, promoting viability of human induced pluripotent stem cell-derived neurons. In contrast, TAX1BP1 depletion sensitizes cells to several forms of aggregate-induced proteotoxicity. Furthermore, TAX1BP1 is more specifically expressed in the brain compared to other autophagy receptor proteins. In vivo, loss of TAX1BP1 results in accumulation of high molecular weight ubiquitin conjugates and premature lipofuscin accumulation in brains of young TAX1BP1 knockout mice. TAX1BP1 mediates clearance of a broad range of cytotoxic proteins indicating therapeutic potential in neurodegenerative diseases.
    MeSH term(s) Animals ; Apoptosis Regulatory Proteins/deficiency ; Apoptosis Regulatory Proteins/metabolism ; Autophagy ; Brain/metabolism ; Brain/pathology ; Female ; HEK293 Cells ; HeLa Cells ; Humans ; Intracellular Signaling Peptides and Proteins/deficiency ; Intracellular Signaling Peptides and Proteins/metabolism ; Lipofuscin/genetics ; Lipofuscin/metabolism ; Male ; Mice ; Mice, Knockout ; Neoplasm Proteins/deficiency ; Neoplasm Proteins/metabolism ; Neurodegenerative Diseases/genetics ; Neurodegenerative Diseases/metabolism ; Neurodegenerative Diseases/pathology ; Protein Aggregation, Pathological/genetics ; Protein Aggregation, Pathological/metabolism ; Protein Aggregation, Pathological/pathology ; Rats ; Rats, Sprague-Dawley ; Ubiquitin/genetics ; Ubiquitin/metabolism
    Chemical Substances Apoptosis Regulatory Proteins ; Intracellular Signaling Peptides and Proteins ; Lipofuscin ; Neoplasm Proteins ; TAX1BP1 protein, human ; TAX1BP1 protein, mouse ; Tax1-binding protein 1, rat ; Ubiquitin
    Language English
    Publishing date 2020-11-17
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, N.I.H., Intramural
    ZDB-ID 1415236-8
    ISSN 1097-4164 ; 1097-2765
    ISSN (online) 1097-4164
    ISSN 1097-2765
    DOI 10.1016/j.molcel.2020.10.041
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article: Loss of TAX1BP1-Directed Autophagy Results in Protein Aggregate Accumulation in the Brain

    Sarraf, Shireen A / Shah, Hetal V / Kanfer, Gil / Pickrell, Alicia M / Holtzclaw, Lynne A / Ward, Michael E / Youle, Richard J

    Molecular cell. 2020 Dec. 03, v. 80, no. 5

    2020  

    Abstract: Protein aggregates disrupt cellular homeostasis, causing toxicity linked to neurodegeneration. Selective autophagic elimination of aggregates is critical to protein quality control, but how aggregates are selectively targeted for degradation is unclear. ... ...

    Abstract Protein aggregates disrupt cellular homeostasis, causing toxicity linked to neurodegeneration. Selective autophagic elimination of aggregates is critical to protein quality control, but how aggregates are selectively targeted for degradation is unclear. We compared the requirements for autophagy receptor proteins: OPTN, NBR1, p62, NDP52, and TAX1BP1 in clearance of proteotoxic aggregates. Endogenous TAX1BP1 is recruited to and required for the clearance of stress-induced aggregates, whereas ectopic expression of TAX1BP1 increases clearance through autophagy, promoting viability of human induced pluripotent stem cell-derived neurons. In contrast, TAX1BP1 depletion sensitizes cells to several forms of aggregate-induced proteotoxicity. Furthermore, TAX1BP1 is more specifically expressed in the brain compared to other autophagy receptor proteins. In vivo, loss of TAX1BP1 results in accumulation of high molecular weight ubiquitin conjugates and premature lipofuscin accumulation in brains of young TAX1BP1 knockout mice. TAX1BP1 mediates clearance of a broad range of cytotoxic proteins indicating therapeutic potential in neurodegenerative diseases.
    Keywords autophagy ; brain ; cytotoxicity ; homeostasis ; humans ; molecular weight ; neurodegenerative diseases ; protein value ; quality control ; therapeutics ; ubiquitin ; viability
    Language English
    Dates of publication 2020-1203
    Size p. 779-795.e10.
    Publishing place Elsevier Inc.
    Document type Article
    Note NAL-AP-2-clean
    ZDB-ID 1415236-8
    ISSN 1097-4164 ; 1097-2765
    ISSN (online) 1097-4164
    ISSN 1097-2765
    DOI 10.1016/j.molcel.2020.10.041
    Database NAL-Catalogue (AGRICOLA)

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  5. Article ; Online: VPS13D promotes peroxisome biogenesis.

    Baldwin, Heather A / Wang, Chunxin / Kanfer, Gil / Shah, Hetal V / Velayos-Baeza, Antonio / Dulovic-Mahlow, Marija / Brüggemann, Norbert / Anding, Allyson / Baehrecke, Eric H / Maric, Dragan / Prinz, William A / Youle, Richard J

    The Journal of cell biology

    2021  Volume 220, Issue 5

    Abstract: The VPS13 gene family consists of VPS13A-D in mammals. Although all four genes have been linked to human diseases, their cellular functions are poorly understood, particularly those of VPS13D. We generated and characterized knockouts of each VPS13 gene ... ...

    Abstract The VPS13 gene family consists of VPS13A-D in mammals. Although all four genes have been linked to human diseases, their cellular functions are poorly understood, particularly those of VPS13D. We generated and characterized knockouts of each VPS13 gene in HeLa cells. Among the individual knockouts, only VPS13D-KO cells exhibit abnormal mitochondrial morphology. Additionally, VPS13D loss leads to either partial or complete peroxisome loss in several transformed cell lines and in fibroblasts derived from a VPS13D mutation-carrying patient with recessive spinocerebellar ataxia. Our data show that VPS13D regulates peroxisome biogenesis.
    MeSH term(s) HEK293 Cells ; HeLa Cells ; Humans ; Mitochondria/genetics ; Mitochondria/metabolism ; Mutation/genetics ; Peroxisomes/genetics ; Peroxisomes/metabolism ; Proteins/genetics ; Proteins/metabolism
    Chemical Substances Proteins ; VPS13D protein, human
    Language English
    Publishing date 2021-06-02
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Intramural
    ZDB-ID 218154-x
    ISSN 1540-8140 ; 0021-9525
    ISSN (online) 1540-8140
    ISSN 0021-9525
    DOI 10.1083/jcb.202001188
    Database MEDical Literature Analysis and Retrieval System OnLINE

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