In-depth characterisation of pathogenic microorganisms, virulence factors and host interactions is critical to advancing infectious disease research. Mass spectrometry and proteomic analysis play a key role both in identifying protein markers to improve diagnostic tools and in molecular analysis of infection mechanisms to identify new targets and lead to new therapeutic strategies. Improving knowledge of the transmission of infectious agents requires very high sensitivity analytical tools, enabling the identification of very low abundance of proteins diluted in extremely complex matrices, particularly for the analysis of pathogens in the context of host infection. The aim of the HRMS_INFECT project is to allow an extremely thorough analysis of these pathogens, thanks to state-of-the-art instrumentation at high sensitivity and ultra-high resolution.