Label-free quantitative proteomic analysis of the YAP/TAZ interactome
Abstract
The function of an individual protein is typically defined by protein-protein interactions orchestrating the formation of large complexes critical for a wide variety of biological processes. Over the last decade the analysis of purified protein complexes by mass spectrometry became a key technique to identify protein-protein interactions. We present a fast and straightforward approach for analyses of interacting proteins combining a Flp-in single-copy cellular integration system and single-step affinity purification with single-shot mass spectrometry analysis. We applied this protocol to the analysis of the YAP and TAZ interactome. YAP and TAZ are the downstream effectors of the mammalian Hippo tumor suppressor pathway. Our study provides comprehensive interactomes for both YAP and TAZ and does not only confirm the majority of previously described interactors but, strikingly, revealed uncharacterized interaction partners that affect YAP/TAZ TEAD-dependent transcription. Among these newly identified candidates are Rassf8, thymopoetin, and the transcription factors CCAAT/enhancer-binding protein (C/EBP)β/δ and core-binding factor subunit β (Cbfb). In addition, our data allowed insights into complex stoichiometry and uncovered discrepancies between the YAP and TAZ interactomes. Taken together, the stringent approach presented here could help to significantly sharpen the understanding of protein-protein networks.
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iBAQ is relative to copy numbers in a given sample.
“This proteomics parameter is relative to copy numbers in a given sample (Kohli et al., 2014, Schwanhäusser et al., 2011).”
From A Multi-layered Quantitative In Vivo Expression Atlas of the Podocyte Unravels Kidney Disease Candidate Genes (2018) · cites this paper as Kohli et al., 2014
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Self-citationG Protein-Coupled Receptor Systems and Their Role in Cellular Senescence
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Protein half‐life determines expression of proteostatic networks in podocyte differentiation
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- Authors
- Kohli, P., Bartram, M. P., Habbig, S., Pahmeyer, C., Lamkemeyer, T., Benzing, T., Schermer, B., & Rinschen, M. M.
- Affiliations
- University of Cologne (DE)
- Corresponding author
- Schermer, Bernhard
- ORCID
- Venue
- American Journal of Physiology-Cell Physiology
- Publisher
- American Physiological Society
- Published
- 2014-05-01
- Volume
- 306
- Issue
- 9
- Pages
- C805-C818
- ISSN
- 0363-6143 (ISSN-L)
- 1522-1563
- OpenAlex
- W2038438556
- Cited by
- 61
- References
- 87
- Citations by year
- 2026: 2 · 2025: 2 · 2024: 3 · 2023: 3 · 2022: 3 · 2021: 2 · 2020: 3 · 2019: 7 · 2018: 11 · 2017: 5 · 2016: 10 · 2015: 6 · 2014: 4
- FWCI
- 4.15
- Type
- journal article
- Language
- en
- Open access
- closed
- Locations
- American Journal of Physiology-Cell Physiology (publishedVersion)
- PubMed (publishedVersion)
- Kölner Universitäts PublikationsServer (Universität zu Köln) (publishedVersion)
- Funders
- International Max Planck Research School for Environmental, Cellular and Molecular Microbiology
- Deutsche Forschungsgemeinschaft
- Universität zu Köln
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Cell Biology › Hippo pathway signaling and YAP/TAZ
- Physical Sciences › Chemistry › Spectroscopy › Advanced Proteomics Techniques and Applications
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Cell Biology › Biotin and Related Studies
- Keywords
- YAP, TAZ, protein-protein interaction, protein-protein interaction network, Hippo signaling pathway, thymopoietin, C/EBPβ, C/EBPδ, CBFB, protein complex stoichiometry, label-free quantitative proteomics, affinity purification
- MeSH terms
- Hippo Signaling Pathway, YAP-Signaling Proteins, Acyltransferases, Amino Acid Sequence, Animals, Gene Expression Regulation, Humans, Molecular Sequence Data, Phosphoproteins, Protein Binding, Recombinant Fusion Proteins, Transcription Factors, Transfection, Signal Transduction, Cluster Analysis, Protein Serine-Threonine Kinases, Cell Cycle Proteins, Computational Biology, Protein Interaction Mapping, Proteomics, NIH 3T3 Cells, Immunoprecipitation, Adaptor Proteins, Signal Transducing, Green Fluorescent Proteins, Mice, Tandem Mass Spectrometry, HEK293 Cells, Protein Interaction Maps
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