Proteome effects of genome-wide single gene perturbations

Merve Öztürk, Anja Freiwald, Jasmin Cartano, Ramona Schmitt, Mario Dejung, Katja Luck, Bassem Al-Sady, Sigurd Braun, Michal Levin and Falk Butter ()
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Merve Öztürk: Institute of Molecular Biology (IMB)
Anja Freiwald: Institute of Molecular Biology (IMB)
Jasmin Cartano: Institute of Molecular Biology (IMB)
Ramona Schmitt: Institute of Molecular Biology (IMB)
Mario Dejung: Institute of Molecular Biology (IMB)
Katja Luck: Institute of Molecular Biology (IMB)
Bassem Al-Sady: University of California San Francisco
Sigurd Braun: Ludwig-Maximilians University of Munich
Michal Levin: Institute of Molecular Biology (IMB)
Falk Butter: Institute of Molecular Biology (IMB)

Nature Communications, 2022, vol. 13, issue 1, 1-10

Abstract: Abstract Protein abundance is controlled at the transcriptional, translational and post-translational levels, and its regulatory principles are starting to emerge. Investigating these principles requires large-scale proteomics data and cannot just be done with transcriptional outcomes that are commonly used as a proxy for protein abundance. Here, we determine proteome changes resulting from the individual knockout of 3308 nonessential genes in the yeast Schizosaccharomyces pombe. We use similarity clustering of global proteome changes to infer gene functionality that can be extended to other species, such as humans or baker’s yeast. Furthermore, we analyze a selected set of deletion mutants by paired transcriptome and proteome measurements and show that upregulation of proteins under stable transcript expression utilizes optimal codons.

Date: 2022
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DOI: 10.1038/s41467-022-33814-8

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