SPEx: Compartment-Resolved Proteomics via Expansion Microscopy–Guided Microdissection
Year: 2026
Type: preprint
Abstract: Cells contain different organelles and compartments that are essential for cellular function and life. These organelles and compartments need to communicate to assess cellular state in a changing environment, adapt to the new situation, and also to ensure functionality and homeostasis. Moreover, organization and communication differ between cell types. However, our knowledge about these changes is still rather scarce. Subcellular spatial proteomics aims to fill this knowledge gap. While proximity labeling techniques represent a great advance, they do not provide precise spatial resolution. To overcome this limitation, we developed SPEx (Subcellular spatial Proteomics coupled to Expansion), in which we first expand cells about 10– fold, laser micro-dissect regions of interests and then perform mass spectrometry-based proteomics on these samples. We demonstrate the effectiveness of SPEx by determining the proteome of the Golgi, the nucleus and nucleoli. Satisfyingly, we also identify novel components of these organelles. Combining inexpensive already existing technologies makes SPEx readily usable by the wider scientific community.
Source: eLife
DOI: 10.7554/elife.111393
Institution: University of Basel
Subfield: Spectroscopy
Field: Chemistry
Domain: Physical Sciences
Open Access status: gold
Estimated APC paid: $2,500
OpenAlex ID: W7162490624