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Quantitative proteomic analysis reveals apoE4-dependent phosphorylation of the actin-regulating protein VASP

Zeynep Cakir, Samuel J. Lord, David Jimenez-Morales, Gwendolyn M. Jang, Benjamin J. Polacco, Manon Eckhardt, Billy W. Newton, Yuan Zhou, Adam L. Orr, Jeffrey R. Johnson, R. Dyche Mullins, Nevan J. Krogan, Robert W. Mahley, View ORCID ProfileDanielle L. Swaney
doi: https://doi.org/10.1101/2022.06.06.495052
Zeynep Cakir
1University of California San Francisco, Quantitative Biosciences Institute (QBI), San Francisco, CA, 94158, USA
2University of California San Francisco, Department of Cellular and Molecular Pharmacology, San Francisco, CA, 94143, USA
3Gladstone Institute of Data Science and Biotechnology, Gladstone Institutes, San Francisco, CA, 94158, USA
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Samuel J. Lord
2University of California San Francisco, Department of Cellular and Molecular Pharmacology, San Francisco, CA, 94143, USA
4Howard Hughes Medical Institute, San Francisco, CA, 94143, USA
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David Jimenez-Morales
1University of California San Francisco, Quantitative Biosciences Institute (QBI), San Francisco, CA, 94158, USA
2University of California San Francisco, Department of Cellular and Molecular Pharmacology, San Francisco, CA, 94143, USA
3Gladstone Institute of Data Science and Biotechnology, Gladstone Institutes, San Francisco, CA, 94158, USA
5Department of Medicine, Division of Cardiovascular Medicine, Stanford University, Stanford, CA, USA
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Gwendolyn M. Jang
1University of California San Francisco, Quantitative Biosciences Institute (QBI), San Francisco, CA, 94158, USA
2University of California San Francisco, Department of Cellular and Molecular Pharmacology, San Francisco, CA, 94143, USA
3Gladstone Institute of Data Science and Biotechnology, Gladstone Institutes, San Francisco, CA, 94158, USA
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Benjamin J. Polacco
1University of California San Francisco, Quantitative Biosciences Institute (QBI), San Francisco, CA, 94158, USA
2University of California San Francisco, Department of Cellular and Molecular Pharmacology, San Francisco, CA, 94143, USA
3Gladstone Institute of Data Science and Biotechnology, Gladstone Institutes, San Francisco, CA, 94158, USA
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Manon Eckhardt
1University of California San Francisco, Quantitative Biosciences Institute (QBI), San Francisco, CA, 94158, USA
2University of California San Francisco, Department of Cellular and Molecular Pharmacology, San Francisco, CA, 94143, USA
3Gladstone Institute of Data Science and Biotechnology, Gladstone Institutes, San Francisco, CA, 94158, USA
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Billy W. Newton
1University of California San Francisco, Quantitative Biosciences Institute (QBI), San Francisco, CA, 94158, USA
2University of California San Francisco, Department of Cellular and Molecular Pharmacology, San Francisco, CA, 94143, USA
3Gladstone Institute of Data Science and Biotechnology, Gladstone Institutes, San Francisco, CA, 94158, USA
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Yuan Zhou
1University of California San Francisco, Quantitative Biosciences Institute (QBI), San Francisco, CA, 94158, USA
2University of California San Francisco, Department of Cellular and Molecular Pharmacology, San Francisco, CA, 94143, USA
3Gladstone Institute of Data Science and Biotechnology, Gladstone Institutes, San Francisco, CA, 94158, USA
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Adam L. Orr
6Gladstone Institute of Neurological Disease, Gladstone Institutes, San Francisco, CA, 94158, USA
7Helen and Robert Appel Alzheimer’s Disease Research Institute, Feil Family Brain and Mind Research Institute, Weill Cornell Medicine, New York, NY, 10021, USA
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Jeffrey R. Johnson
1University of California San Francisco, Quantitative Biosciences Institute (QBI), San Francisco, CA, 94158, USA
2University of California San Francisco, Department of Cellular and Molecular Pharmacology, San Francisco, CA, 94143, USA
3Gladstone Institute of Data Science and Biotechnology, Gladstone Institutes, San Francisco, CA, 94158, USA
8Department of Microbiology, Icahn School of Medicine at Mount Sinai, New York, NY, 10029, USA
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R. Dyche Mullins
2University of California San Francisco, Department of Cellular and Molecular Pharmacology, San Francisco, CA, 94143, USA
4Howard Hughes Medical Institute, San Francisco, CA, 94143, USA
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Nevan J. Krogan
1University of California San Francisco, Quantitative Biosciences Institute (QBI), San Francisco, CA, 94158, USA
2University of California San Francisco, Department of Cellular and Molecular Pharmacology, San Francisco, CA, 94143, USA
3Gladstone Institute of Data Science and Biotechnology, Gladstone Institutes, San Francisco, CA, 94158, USA
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Robert W. Mahley
6Gladstone Institute of Neurological Disease, Gladstone Institutes, San Francisco, CA, 94158, USA
9University of California San Francisco, Departments of Pathology and Medicine, San Francisco, CA, 94143, USA
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Danielle L. Swaney
1University of California San Francisco, Quantitative Biosciences Institute (QBI), San Francisco, CA, 94158, USA
2University of California San Francisco, Department of Cellular and Molecular Pharmacology, San Francisco, CA, 94143, USA
3Gladstone Institute of Data Science and Biotechnology, Gladstone Institutes, San Francisco, CA, 94158, USA
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  • ORCID record for Danielle L. Swaney
  • For correspondence: danielle.swaney@ucsf.edu
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Abstract

Apolipoprotein (apo) E4 is the major genetic risk factor for Alzheimer’s Disease (AD). While neurons generally produce a minority of the apoE in the central nervous system, neuronal expression of apoE increases dramatically in response to stress and is sufficient to drive pathology. Currently, the molecular mechanisms of how apoE4 expression may regulate pathology are not fully understood. Here we expand upon our previous studies measuring the impact of apoE4 on protein abundance to include the analysis of protein phosphorylation and ubiquitylation signaling in isogenic Neuro-2a cells expressing apoE3 or apoE4. ApoE4 expression resulted in a dramatic increase in VASP S235 phosphorylation in a PKA-dependent manner. This phosphorylation disrupted VASP interactions with numerous actin cytoskeletal and microtubular proteins. Reduction of VASP S235 phosphorylation via PKA inhibition resulted in a significant increase in filopodia formation and neurite outgrowth in apoE4-expressing cells, exceeding levels observed in apoE3-expressing cells. Our results highlight the pronounced and diverse impact of apoE4 on multiple modes of protein regulation and identify potential therapeutic targets to restore apoE4-related cytoskeletal defects.

Competing Interest Statement

The NJK laboratory has received research support from Vir Biotechnology and F. Hoffmann-La Roche. NJK has consulting agreements with the Icahn School of Medicine at Mount Sinai, New York, Maze Therapeutics and Interline Therapeutics, is a shareholder of Tenaya Therapeutics and has received stocks from Maze Therapeutics and Interline Therapeutics. DLS has a consulting agreement with Maze Therapeutics. RWM is the co-founder and shareholder of Escape Bio, Inc. RWM is the CEO, CSO, and shareholder of the stem cell company GABAeron, Inc.

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The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license.
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Quantitative proteomic analysis reveals apoE4-dependent phosphorylation of the actin-regulating protein VASP
Zeynep Cakir, Samuel J. Lord, David Jimenez-Morales, Gwendolyn M. Jang, Benjamin J. Polacco, Manon Eckhardt, Billy W. Newton, Yuan Zhou, Adam L. Orr, Jeffrey R. Johnson, R. Dyche Mullins, Nevan J. Krogan, Robert W. Mahley, Danielle L. Swaney
bioRxiv 2022.06.06.495052; doi: https://doi.org/10.1101/2022.06.06.495052
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Quantitative proteomic analysis reveals apoE4-dependent phosphorylation of the actin-regulating protein VASP
Zeynep Cakir, Samuel J. Lord, David Jimenez-Morales, Gwendolyn M. Jang, Benjamin J. Polacco, Manon Eckhardt, Billy W. Newton, Yuan Zhou, Adam L. Orr, Jeffrey R. Johnson, R. Dyche Mullins, Nevan J. Krogan, Robert W. Mahley, Danielle L. Swaney
bioRxiv 2022.06.06.495052; doi: https://doi.org/10.1101/2022.06.06.495052

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