High-throughput proteomics and the fight against pathogens

Abstract

Pathogens pose a major threat to human and animal welfare. Understanding the interspecies host-pathogen protein-protein interactions could lead to the development of novel strategies to combat infectious diseases through the rapid development of new therapeutics. The first step in understanding the host-pathogen crosstalk is to identify interacting proteins in order to define crucial hot-spots in the host-pathogen interactome, such as the proposed pharmaceutical targets by means of high-throughput proteomic methodologies. In order to obtain holistic insight into the inter- and intra-species bimolecular interactions, apart from the proteomic approach, sophisticated in silico modeling is used to correlate the obtained large data sets with other omics data and clinical outcomes. Since the main focus in this area has been directed towards human medicine, it is time to extrapolate the existing expertise to a new emerging field: the 'systems veterinary medicine'. Therefore, this review addresses high-throughput mass spectrometry-based technology for monitoring protein-protein interactions in vitro and in vivo and discusses pathogen cultivation, model host cells and available bioinformatic tools employed in vaccine development.

Proteomic and bioinformatic pipeline to screen the ligands of S. pneumoniae interacting with human brain microvascular endothelial cells

“…Among shortlisted 22 exclusively surface-exposed proteins, we observed presence of 15 membrane proteins, which proves the suitability of the experimental approach used in this study. The membrane-attached proteins possess high or moderate hydrophobic domains along the peptide sequence 31 , 40 and are difficult to resolve applying gel based proteomic platforms such as 2D-PAGE. Moreover, in the list of potential candidates around 45% corresponded to proteins with unpredicted functions in GO, which makes them highly interesting for further studies on molecular characterization, participation in virulence and pathogenesis, or assess their role in the protein-protein interactions.…”

Shotgun Proteomics as a Powerful Tool for the Study of the Proteomes of Plants, Their Pathogens, and Plant–Pathogen Interactions

“…In addition, many plant pathogens such as soilborne pathogens, produce long-lived resting spores, which are highly resistant to adverse environmental conditions [ 24 ]. Harsh conditions, including mechanical force, must be applied for the disruption of the thickened cell walls in these structures [ 25 ].…”

Host gene expression in wildlife disease: making sense of species‐level responses

“…Looking beyond gene regulation as the primary molecular process of interest, genomic (Blanchong et al, 2016; Longo et al, 2014), epigenomic (Bandyopadhaya et al, 2016; Garcia et al, 2019), proteomic (Heck & Neely, 2020; Horvatić et al, 2016; Neely et al, 2021), and metabolomic (Grogan, Skerratt, et al, 2018) methods are also highly relevant to the study of host‐pathogen interactions and wildlife disease outcome. For example, genomic methods commonly used to parse organismal adaptation to environmental stressors, such as genome‐wide association mapping and selection scans (Brennan et al, 2018; Elbers et al, 2018; Reid et al, 2016), can identify loci that are under selection due to pathogen pressure (Alves et al, 2019; Auteri & Knowles, 2020; Gignoux‐Wolfsohn et al, 2021; Gupta et al, 2020; Schwensow et al, 2020).…”