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mTOR inhibitor-independent Autophagy Activator Ameliorates Tauopathy and Prionopathy Neurodegeneration Phenotypes

View ORCID ProfileLeonard Yoon, Rachel C. Botham, Adriaan Verhelle, Pablo Sanz-Martinez, Jin Xu, Christian M. Cole, Ee Phie Tan, Ching Chieh Chou, Caroline A. Cuoco, Lynée A. Massey, Sergio Labra, Lisa P. Elia, Amina Ta, Maziar S. Ardejani, Kyunga Lee, Gabriel M. Kline, Qiang Xiao, Sara Cano-Franco, Nora J. Lyang, William C. Hou, Anan Yu, Susan Fox, Yeonjin Ko, Cristian Wulkop-Gil, Lara H. Ibrahim, Starr Jiang, Alina Meneses, Luke T. Nelson, Hongfan Peng, Stuart A. Lipton, Michael J. Bollong, Malene Hansen, Richard I. Morimoto, H. Michael Petrassi, R. Luke Wiseman, Evan T. Powers, Steven Finkbeiner, Danny Garza, Daniel Finley, Miguel A. Prado, Ivan Dikic, Judith Frydman, Kristen A. Johnson, M. Catarina Silva, Stephen J. Haggarty, Alexandra Stolz, View ORCID ProfileSandra E. Encalada, View ORCID ProfileJeffery W. Kelly
doi: https://doi.org/10.1101/2022.09.29.509997
Leonard Yoon
1Department of Chemistry, Neurodegeneration New Medicines Center, and the Skaggs Institute of Chemical Biology, The Scripps Research Institute, La Jolla CA 92037 USA
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  • ORCID record for Leonard Yoon
Rachel C. Botham
1Department of Chemistry, Neurodegeneration New Medicines Center, and the Skaggs Institute of Chemical Biology, The Scripps Research Institute, La Jolla CA 92037 USA
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Adriaan Verhelle
2Departments of Molecular Medicine and Neurobiology, Neurodegeneration New Medicines Center, The Scripps Research Institute, La Jolla CA 92037 USA
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Pablo Sanz-Martinez
4Institute of Biochemistry 2 and Buchmann Institute for Molecular Life Sciences, Goethe University Frankfurt, 60590 Frankfurt am Main, Germany
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Jin Xu
1Department of Chemistry, Neurodegeneration New Medicines Center, and the Skaggs Institute of Chemical Biology, The Scripps Research Institute, La Jolla CA 92037 USA
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Christian M. Cole
1Department of Chemistry, Neurodegeneration New Medicines Center, and the Skaggs Institute of Chemical Biology, The Scripps Research Institute, La Jolla CA 92037 USA
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Ee Phie Tan
1Department of Chemistry, Neurodegeneration New Medicines Center, and the Skaggs Institute of Chemical Biology, The Scripps Research Institute, La Jolla CA 92037 USA
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Ching Chieh Chou
12Department of Molecular Medicine, The Scripps Research Institute, La Jolla, CA 92037 USA
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Caroline A. Cuoco
1Department of Chemistry, Neurodegeneration New Medicines Center, and the Skaggs Institute of Chemical Biology, The Scripps Research Institute, La Jolla CA 92037 USA
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Lynée A. Massey
1Department of Chemistry, Neurodegeneration New Medicines Center, and the Skaggs Institute of Chemical Biology, The Scripps Research Institute, La Jolla CA 92037 USA
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Sergio Labra
1Department of Chemistry, Neurodegeneration New Medicines Center, and the Skaggs Institute of Chemical Biology, The Scripps Research Institute, La Jolla CA 92037 USA
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Lisa P. Elia
6Gladstone Institute of Neurologic Disease, San Francisco, CA, USA
7Department of Neurology, University of California-San Francisco Medical Center, San Francisco, CA, USA
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Amina Ta
8Calibr, a Division of Scripps Research, 11119 North Torrey Pines Rd, La Jolla, CA 92037 USA
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Maziar S. Ardejani
1Department of Chemistry, Neurodegeneration New Medicines Center, and the Skaggs Institute of Chemical Biology, The Scripps Research Institute, La Jolla CA 92037 USA
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Kyunga Lee
1Department of Chemistry, Neurodegeneration New Medicines Center, and the Skaggs Institute of Chemical Biology, The Scripps Research Institute, La Jolla CA 92037 USA
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Gabriel M. Kline
1Department of Chemistry, Neurodegeneration New Medicines Center, and the Skaggs Institute of Chemical Biology, The Scripps Research Institute, La Jolla CA 92037 USA
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Qiang Xiao
1Department of Chemistry, Neurodegeneration New Medicines Center, and the Skaggs Institute of Chemical Biology, The Scripps Research Institute, La Jolla CA 92037 USA
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Sara Cano-Franco
4Institute of Biochemistry 2 and Buchmann Institute for Molecular Life Sciences, Goethe University Frankfurt, 60590 Frankfurt am Main, Germany
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Nora J. Lyang
5Sanford Burnham Prebys Medical Discovery Institute, La Jolla CA 92037 USA
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William C. Hou
1Department of Chemistry, Neurodegeneration New Medicines Center, and the Skaggs Institute of Chemical Biology, The Scripps Research Institute, La Jolla CA 92037 USA
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Anan Yu
11Department of Biochemistry, Molecular Biology, and Cell Biology, Northwestern University Institute for Neuroscience, Rice Institute for Biomedical Research, Northwestern University, Evanston, Illinois 60208, USA
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Susan Fox
11Department of Biochemistry, Molecular Biology, and Cell Biology, Northwestern University Institute for Neuroscience, Rice Institute for Biomedical Research, Northwestern University, Evanston, Illinois 60208, USA
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Yeonjin Ko
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Cristian Wulkop-Gil
2Departments of Molecular Medicine and Neurobiology, Neurodegeneration New Medicines Center, The Scripps Research Institute, La Jolla CA 92037 USA
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Lara H. Ibrahim
1Department of Chemistry, Neurodegeneration New Medicines Center, and the Skaggs Institute of Chemical Biology, The Scripps Research Institute, La Jolla CA 92037 USA
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Starr Jiang
9Department of Biology, Stanford University, Stanford, CA, USA
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Alina Meneses
1Department of Chemistry, Neurodegeneration New Medicines Center, and the Skaggs Institute of Chemical Biology, The Scripps Research Institute, La Jolla CA 92037 USA
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Luke T. Nelson
1Department of Chemistry, Neurodegeneration New Medicines Center, and the Skaggs Institute of Chemical Biology, The Scripps Research Institute, La Jolla CA 92037 USA
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Hongfan Peng
1Department of Chemistry, Neurodegeneration New Medicines Center, and the Skaggs Institute of Chemical Biology, The Scripps Research Institute, La Jolla CA 92037 USA
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Stuart A. Lipton
2Departments of Molecular Medicine and Neurobiology, Neurodegeneration New Medicines Center, The Scripps Research Institute, La Jolla CA 92037 USA
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Michael J. Bollong
1Department of Chemistry, Neurodegeneration New Medicines Center, and the Skaggs Institute of Chemical Biology, The Scripps Research Institute, La Jolla CA 92037 USA
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Malene Hansen
5Sanford Burnham Prebys Medical Discovery Institute, La Jolla CA 92037 USA
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Richard I. Morimoto
11Department of Biochemistry, Molecular Biology, and Cell Biology, Northwestern University Institute for Neuroscience, Rice Institute for Biomedical Research, Northwestern University, Evanston, Illinois 60208, USA
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H. Michael Petrassi
8Calibr, a Division of Scripps Research, 11119 North Torrey Pines Rd, La Jolla, CA 92037 USA
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R. Luke Wiseman
12Department of Molecular Medicine, The Scripps Research Institute, La Jolla, CA 92037 USA
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Evan T. Powers
1Department of Chemistry, Neurodegeneration New Medicines Center, and the Skaggs Institute of Chemical Biology, The Scripps Research Institute, La Jolla CA 92037 USA
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Steven Finkbeiner
6Gladstone Institute of Neurologic Disease, San Francisco, CA, USA
7Department of Neurology, University of California-San Francisco Medical Center, San Francisco, CA, USA
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Danny Garza
1Department of Chemistry, Neurodegeneration New Medicines Center, and the Skaggs Institute of Chemical Biology, The Scripps Research Institute, La Jolla CA 92037 USA
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Daniel Finley
10Department of Cell Biology, Harvard Medical School, Boston, MA 02115 US
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Miguel A. Prado
10Department of Cell Biology, Harvard Medical School, Boston, MA 02115 US
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Ivan Dikic
4Institute of Biochemistry 2 and Buchmann Institute for Molecular Life Sciences, Goethe University Frankfurt, 60590 Frankfurt am Main, Germany
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Judith Frydman
12Department of Molecular Medicine, The Scripps Research Institute, La Jolla, CA 92037 USA
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Kristen A. Johnson
8Calibr, a Division of Scripps Research, 11119 North Torrey Pines Rd, La Jolla, CA 92037 USA
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  • For correspondence: steve.finkbeiner@gladstone.ucsf.edu kajohnson@scripps.edu mlimadasilva@mgh.harvard.edu shaggarty@mgh.harvard.edu stolz@em.uni-frankfurt.de encalada@scripps.edu jwk@scripps.edu
M. Catarina Silva
3Chemical Neurobiology Laboratory, Center for Genomic Medicine, Department of Neurology, Massachusetts General Hospital and Harvard Medical School, 185 Cambridge Street CPZN 5400, Boston, MA 02114 USA
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  • For correspondence: steve.finkbeiner@gladstone.ucsf.edu kajohnson@scripps.edu mlimadasilva@mgh.harvard.edu shaggarty@mgh.harvard.edu stolz@em.uni-frankfurt.de encalada@scripps.edu jwk@scripps.edu
Stephen J. Haggarty
3Chemical Neurobiology Laboratory, Center for Genomic Medicine, Department of Neurology, Massachusetts General Hospital and Harvard Medical School, 185 Cambridge Street CPZN 5400, Boston, MA 02114 USA
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  • For correspondence: steve.finkbeiner@gladstone.ucsf.edu kajohnson@scripps.edu mlimadasilva@mgh.harvard.edu shaggarty@mgh.harvard.edu stolz@em.uni-frankfurt.de encalada@scripps.edu jwk@scripps.edu
Alexandra Stolz
4Institute of Biochemistry 2 and Buchmann Institute for Molecular Life Sciences, Goethe University Frankfurt, 60590 Frankfurt am Main, Germany
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  • For correspondence: steve.finkbeiner@gladstone.ucsf.edu kajohnson@scripps.edu mlimadasilva@mgh.harvard.edu shaggarty@mgh.harvard.edu stolz@em.uni-frankfurt.de encalada@scripps.edu jwk@scripps.edu
Sandra E. Encalada
2Departments of Molecular Medicine and Neurobiology, Neurodegeneration New Medicines Center, The Scripps Research Institute, La Jolla CA 92037 USA
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  • For correspondence: steve.finkbeiner@gladstone.ucsf.edu kajohnson@scripps.edu mlimadasilva@mgh.harvard.edu shaggarty@mgh.harvard.edu stolz@em.uni-frankfurt.de encalada@scripps.edu jwk@scripps.edu
Jeffery W. Kelly
1Department of Chemistry, Neurodegeneration New Medicines Center, and the Skaggs Institute of Chemical Biology, The Scripps Research Institute, La Jolla CA 92037 USA
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  • For correspondence: steve.finkbeiner@gladstone.ucsf.edu kajohnson@scripps.edu mlimadasilva@mgh.harvard.edu shaggarty@mgh.harvard.edu stolz@em.uni-frankfurt.de encalada@scripps.edu jwk@scripps.edu
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Summary

Autophagy activation has the potential to ameliorate neurodegenerative disease phenotypes, including protein aggregation, lipid level perturbations and axonal trafficking defects. We performed a high content imaging-based screen assessing 940,000 small molecules to identify those that accelerate lipid droplet clearance. Hits were validated in diverse cell lines and by counter-screening. Of the 77 validated structurally diverse hits, 24 increase autophagy flux. Herein, we highlight CCT020312 as a mammalian target of rapamycin (mTOR) inhibitor-independent autophagy activator, which should function without suppressing the immune response. CCT020312 dose-dependently reduces cytotoxic axonal mutant prion protein aggregate levels within endosomes of primary murine hippocampal neurons and normalizes axonal trafficking deficiencies. Moreover, CCT020312 robustly clears phosphorylated insoluble tau, while reducing tau-mediated neuronal stress vulnerability in patient-derived neuronal models. CCT020312 also restores lysosomal function in neurons differentiated from sporadic Alzheimer’s patients fibroblasts bearing epigenetic marks of aging. Taken together, we describe a promising strategy to uncover novel pharmacological agents that normalize cellular neurodegenerative disease pathology.

Competing Interest Statement

The authors have declared no competing interest.

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mTOR inhibitor-independent Autophagy Activator Ameliorates Tauopathy and Prionopathy Neurodegeneration Phenotypes
Leonard Yoon, Rachel C. Botham, Adriaan Verhelle, Pablo Sanz-Martinez, Jin Xu, Christian M. Cole, Ee Phie Tan, Ching Chieh Chou, Caroline A. Cuoco, Lynée A. Massey, Sergio Labra, Lisa P. Elia, Amina Ta, Maziar S. Ardejani, Kyunga Lee, Gabriel M. Kline, Qiang Xiao, Sara Cano-Franco, Nora J. Lyang, William C. Hou, Anan Yu, Susan Fox, Yeonjin Ko, Cristian Wulkop-Gil, Lara H. Ibrahim, Starr Jiang, Alina Meneses, Luke T. Nelson, Hongfan Peng, Stuart A. Lipton, Michael J. Bollong, Malene Hansen, Richard I. Morimoto, H. Michael Petrassi, R. Luke Wiseman, Evan T. Powers, Steven Finkbeiner, Danny Garza, Daniel Finley, Miguel A. Prado, Ivan Dikic, Judith Frydman, Kristen A. Johnson, M. Catarina Silva, Stephen J. Haggarty, Alexandra Stolz, Sandra E. Encalada, Jeffery W. Kelly
bioRxiv 2022.09.29.509997; doi: https://doi.org/10.1101/2022.09.29.509997
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mTOR inhibitor-independent Autophagy Activator Ameliorates Tauopathy and Prionopathy Neurodegeneration Phenotypes
Leonard Yoon, Rachel C. Botham, Adriaan Verhelle, Pablo Sanz-Martinez, Jin Xu, Christian M. Cole, Ee Phie Tan, Ching Chieh Chou, Caroline A. Cuoco, Lynée A. Massey, Sergio Labra, Lisa P. Elia, Amina Ta, Maziar S. Ardejani, Kyunga Lee, Gabriel M. Kline, Qiang Xiao, Sara Cano-Franco, Nora J. Lyang, William C. Hou, Anan Yu, Susan Fox, Yeonjin Ko, Cristian Wulkop-Gil, Lara H. Ibrahim, Starr Jiang, Alina Meneses, Luke T. Nelson, Hongfan Peng, Stuart A. Lipton, Michael J. Bollong, Malene Hansen, Richard I. Morimoto, H. Michael Petrassi, R. Luke Wiseman, Evan T. Powers, Steven Finkbeiner, Danny Garza, Daniel Finley, Miguel A. Prado, Ivan Dikic, Judith Frydman, Kristen A. Johnson, M. Catarina Silva, Stephen J. Haggarty, Alexandra Stolz, Sandra E. Encalada, Jeffery W. Kelly
bioRxiv 2022.09.29.509997; doi: https://doi.org/10.1101/2022.09.29.509997

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