Samuel, J. M. | Search bioRxiv

bioRxiv2026

Iterative Spatial Resolution Enhancement in Imaging Mass Spectrometry via Hydrogel Tissue Expansion and Multimodal Image Fusion

The pixel size of imaging mass spectrometry (IMS) is fundamentally limited by several factors, including the diameter of the incident probe and the raster step size of the sample stage. We have previously demonstrated that hydrogel-based tissue expansion, originally developed for microscopy (ExM), can also be adapted for imaging mass spectrometry to physically magnify the size of the tissue. Expansion imaging mass spectrometry (ExIMS) uses a superabsorbent hydrogel to isotropically expand thin tissue sections, which can then be sampled via imaging mass spectrometry, resulting in improved effective spatial resolution. Separately, multimodal image fusion has been used to computationally upsample the effective spatial resolution in imaging mass spectrometry by predictively mapping mass spectrometric intensity values to the smaller diameter pixel sizes of a microscopy image of the same tissue section. Here, we present ExFusion, a unified workflow that combines these two approaches by computationally fusing structurally detailed fluorescent ExM and chemically detailed lipid ExIMS data obtained from the same 9.4-fold expanded mouse brain tissue. Following a 10-fold upsampling from image fusion, multimodal expansion image fusion enabled prediction of MS images at a [~]106 nm pixel size on a commercial mass spectrometer using a 10 m raster step size. At this resolution, lipids in the Purkinje cells of the cerebellum are clearly defined with intracellular distributions.

biochemistry↗

bioRxiv2024

Examination of Lipid Distributions in Hydrogel-Expanded Mouse Brain Tissue Using Imaging Mass Spectrometry

Imaging is an essential tool in biological research, and imaging mass spectrometry uniquely provides a label-free approach with high molecular specificity. However, imaging mass spectrometry is limited in spatial resolution, which in turn limits the biological structures and processes that can be studied at small dimensions. Custom lens setups and altered optical paths have been used to shrink the diameter of the incident laser beam probe in matrix-assisted laser desorption/ionization (MALDI) imaging mass spectrometry to achieve high spatial resolutions (< 5 m). However, these research-grade instruments are complex and expensive, making high spatial resolution imaging experiments unrealistic for the broader community. An alternative method for improving spatial resolution is through physical magnification of the substrate, which has been well established in the subfield of expansion microscopy (ExM). ExM leverages superabsorbent hydrogels for isotropic expansion of tissues and retention of analytes containing fluorescent tags. While typical ExM involves covalently anchoring the analyte of interest to the hydrogel network, lipid retention without anchoring has been recently demonstrated for imaging mass spectrometry. Herein, we demonstrate expansion imaging mass spectrometry (ExIMS) of expanded, whole brain tissue and examine lipid distributions in both positive and negative ion mode across multiple brain structures. A linear expansion factor of 4.5-fold is achieved and used to obtain high spatial resolution images of mouse brain cerebellum. Approximately 95% of lipids in both positive and negative ion mode are retained in expanded tissue compared to unexpanded tissue. Additionally, the majority of lipid distributions across the brain are maintained post-expansion. Alterations to the hydrogel formulation (e.g., crosslinker density) can significantly affect the ability of ExIMS to maintain accurate lipid distributions in expanded tissue.

biochemistry↗