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A system for inducible mitochondria-specific protein degradation in vivo

Swastika Sanyal (), Anna Kouznetsova, Lena Ström and Camilla Björkegren ()
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Swastika Sanyal: Karolinska Institutet, Department of Biosciences and Nutrition, Neo
Anna Kouznetsova: Karolinska Institutet, Department of Cell and Molecular Biology, Biomedicum
Lena Ström: Karolinska Institutet, Department of Cell and Molecular Biology, Biomedicum
Camilla Björkegren: Karolinska Institutet, Department of Cell and Molecular Biology, Biomedicum

Nature Communications, 2024, vol. 15, issue 1, 1-13

Abstract: Abstract Targeted protein degradation systems developed for eukaryotes employ cytoplasmic machineries to perform proteolysis. This has prevented mitochondria-specific analysis of proteins that localize to multiple locations, for example, the mitochondria and the nucleus. Here, we present an inducible mitochondria-specific protein degradation system in Saccharomyces cerevisiae based on the Mesoplasma florum Lon (mf-Lon) protease and its corresponding ssrA tag (called PDT). We show that mitochondrially targeted mf-Lon protease efficiently and selectively degrades a PDT-tagged reporter protein localized to the mitochondrial matrix. The degradation can be induced by depleting adenine from the medium, and tuned by altering the promoter strength of the MF-LON gene. We furthermore demonstrate that mf-Lon specifically degrades endogenous, PDT-tagged mitochondrial proteins. Finally, we show that mf-Lon-dependent PDT degradation can also be achieved in human mitochondria. In summary, this system provides an efficient tool to selectively analyze the mitochondrial function of dually localized proteins.

Date: 2024
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DOI: 10.1038/s41467-024-45819-6

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