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Updated: Aug 19, 2025

Multicolor Flow Cytometry-based Quantification of Mitochondria and Lysosomes in T Cells
Published on: January 9, 2019
Lysosomal damage drives mitochondrial proteome remodelling and reprograms macrophage immunometabolism
Claudio Bussi1, Tiaan Heunis2,3, Enrica Pellegrino4
1The Francis Crick Institute, London, UK. claudio.bussi@crick.ac.uk.
Abstract:
Transient lysosomal damage after infection with cytosolic pathogens or silica crystals uptake results in protease leakage. Whether limited leakage of lysosomal contents into the cytosol affects the function of cytoplasmic organelles is unknown. Here, we show that sterile and non-sterile lysosomal damage triggers a cell death independent proteolytic remodelling of the mitochondrial proteome in macrophages. Mitochondrial metabolic reprogramming required leakage of lysosomal cathepsins and was independent of mitophagy, mitoproteases and proteasome degradation. In an in vivo mouse model of endomembrane damage, live lung macrophages that internalised crystals displayed impaired mitochondrial function. Single-cell RNA-sequencing revealed that lysosomal damage skewed metabolic and immune responses in alveolar macrophages subsets with increased lysosomal content. Functionally, drug modulation of macrophage metabolism impacted host responses to Mycobacterium tuberculosis infection in an endomembrane damage dependent way. This work uncovers an inter-organelle communication pathway, providing a general mechanism by which macrophages undergo mitochondrial metabolic reprograming after endomembrane damage.
Insights
Lysosomal damage causes protease leakage, reprogramming macrophage mitochondria independently of cell death. This mitochondrial metabolic reprogramming impacts host defense against Mycobacterium tuberculosis.
Area of Science:
- Cell Biology
- Immunology
- Mitochondrial Biology
Background:
- Lysosomal damage, from pathogens or silica, releases proteases into the cytosol.
- The impact of this limited lysosomal content leakage on cytoplasmic organelles, particularly mitochondria, remains unclear.
Purpose of the Study:
- To investigate if lysosomal damage affects mitochondrial proteome and function in macrophages.
- To elucidate the mechanism of mitochondrial metabolic reprogramming following lysosomal damage.
Main Methods:
- Utilized in vitro cell models and an in vivo mouse model of endomembrane damage.
- Employed techniques including protease activity assays, mitochondrial function assessments, single-cell RNA-sequencing, and drug modulation of macrophage metabolism.
Main Results:
- Lysosomal damage triggers cell death-independent proteolytic remodeling of the mitochondrial proteome in macrophages.
- Mitochondrial metabolic reprogramming necessitates lysosomal cathepsin leakage and is independent of mitophagy, mitoproteases, and proteasome.
- In vivo, macrophages with internalized crystals showed impaired mitochondrial function, and lysosomal damage skewed macrophage metabolic and immune responses.
Conclusions:
- Uncovered a novel inter-organelle communication pathway linking lysosomal damage to mitochondrial metabolic reprogramming in macrophages.
- Demonstrated that modulating macrophage metabolism affects host responses to Mycobacterium tuberculosis infection in an endomembrane damage-dependent manner.
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