A multi-omics analysis reveals the unfolded protein response regulon and stress-induced resistance to folate-based antimetabolites

Stefan Reich, Chi D. L. Nguyen, Canan Has, Sascha Steltgens, Himanshu Soni, Cristina Coman, Moritz Freyberg, Anna Bichler, Nicole Seifert, Dominik Conrad, Christiane B. Knobbe-Thomsen, Björn Tews, Grischa Toedt, Robert Ahrends () and Jan Medenbach ()
Additional contact information
Stefan Reich: University of Regensburg
Chi D. L. Nguyen: Leibniz-Institut für Analytische Wissenschaften—ISAS—e.V.
Canan Has: Leibniz-Institut für Analytische Wissenschaften—ISAS—e.V.
Sascha Steltgens: Heinrich Heine University Düsseldorf
Himanshu Soni: German Cancer Research Center (DKFZ)
Cristina Coman: University of Vienna
Moritz Freyberg: University of Regensburg
Anna Bichler: University of Regensburg
Nicole Seifert: University of Regensburg
Dominik Conrad: University of Regensburg
Christiane B. Knobbe-Thomsen: Heinrich Heine University Düsseldorf
Björn Tews: German Cancer Research Center (DKFZ)
Grischa Toedt: European Molecular Biology Laboratory (EMBL)
Robert Ahrends: Leibniz-Institut für Analytische Wissenschaften—ISAS—e.V.
Jan Medenbach: University of Regensburg

Nature Communications, 2020, vol. 11, issue 1, 1-15

Abstract: Abstract Stress response pathways are critical for cellular homeostasis, promoting survival through adaptive changes in gene expression and metabolism. They play key roles in numerous diseases and are implicated in cancer progression and chemoresistance. However, the underlying mechanisms are only poorly understood. We have employed a multi-omics approach to monitor changes to gene expression after induction of a stress response pathway, the unfolded protein response (UPR), probing in parallel the transcriptome, the proteome, and changes to translation. Stringent filtering reveals the induction of 267 genes, many of which have not previously been implicated in stress response pathways. We experimentally demonstrate that UPR‐mediated translational control induces the expression of enzymes involved in a pathway that diverts intermediate metabolites from glycolysis to fuel mitochondrial one‐carbon metabolism. Concomitantly, the cells become resistant to the folate-based antimetabolites Methotrexate and Pemetrexed, establishing a direct link between UPR‐driven changes to gene expression and resistance to pharmacological treatment.

Date: 2020
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DOI: 10.1038/s41467-020-16747-y

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