Scalable multiplex co-fractionation/mass spectrometry platform for accelerated protein interactome discovery.
Pierre C HavugimanaRaghuveera Kumar GoelSadhna PhanseAhmed YoussefDzmitry PadhornySergei KotelnikovDima KozakovAndrew EmiliPublished in: Nature communications (2022)
Co-fractionation/mass spectrometry (CF/MS) enables the mapping of endogenous macromolecular networks on a proteome scale, but current methods are experimentally laborious, resource intensive and afford lesser quantitative accuracy. Here, we present a technically efficient, cost-effective and reproducible multiplex CF/MS (mCF/MS) platform for measuring and comparing, simultaneously, multi-protein assemblies across different experimental samples at a rate that is up to an order of magnitude faster than previous approaches. We apply mCF/MS to map the protein interaction landscape of non-transformed mammary epithelia versus breast cancer cells in parallel, revealing large-scale differences in protein-protein interactions and the relative abundance of associated macromolecules connected with cancer-related pathways and altered cellular processes. The integration of multiplexing capability within an optimized workflow renders mCF/MS as a powerful tool for systematically exploring physical interaction networks in a comparative manner.
Keyphrases
- mass spectrometry
- breast cancer cells
- high resolution
- liquid chromatography
- high throughput
- multiple sclerosis
- ms ms
- gas chromatography
- high performance liquid chromatography
- capillary electrophoresis
- cystic fibrosis
- protein protein
- small molecule
- physical activity
- mental health
- binding protein
- tandem mass spectrometry
- high density
- electronic health record