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GNPS - 05092023-neg-pc18-data-backup-JH-human-serum-project

ABSTRACT: Human serum samples from Johns Hopkins University. LCMS run on 05-09-2023. Polar C18 column in negative mode. This project is about the chagas disease progression. Four groups in this dataset: infected-progressed, infected-non-progressed, uninfected-progressed, uninfected-non-progressed. We want to compare the progressed and non-progressed in infected groups to see the changes of metabolites related to the disease progression.

INSTRUMENT(S): Q Exactive Plus

ORGANISM(S): Human Trypanosoma Cruzi

SUBMITTER: Dr. McCall

PROVIDER: MSV000092758 | GNPS | Fri Aug 25 11:53:00 BST 2023

REPOSITORIES: GNPS

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Project description:Variations in the susceptibility to SARS-CoV-2 infection and risk of severe disease are yet not well understood. The information on the human pathways and active members of the microbiome that can affect SARS-CoV-2 susceptibility and disease progression in the saliva is very scarce. Here, we studied 10 hospitalized patients with severe and moderate COVID-19 (Scov and Mcov) at an early stage of the disease during April to June 2020, compared to 10 uninfected individuals, including healthcare workers with repeated high-risk exposures to the virus but not infected (Non-susceptible, Nsus) and subjects who became infected during the follow-up (susceptible, Non-COVID, Ncov). We performed high-throughput proteomic profiling in saliva to determine the human pathways and active members of the microbiome across individuals. We detected differentially expressed proteins between groups, being the differences especially remarkable in the comparison between the non-infected vs the non-susceptible groups. In a functional analysis to correlate the putative protein biomarkers with relevant biological functions, we found increased expression of proteins related to inflammatory responses and central cellular processes and decreased expression of molecules involved in antiviral activity. The most noteworthy are the Cystatin family, protective molecules present at the oral cavity, the Calprotectin family involved in cell cycle progression, or the Histone family related to nucleosome functions. Furthermore, since proteomics allows checking microbiome functionality, we explored bacterial products and found in the COVID-19+ group 4 overrepresented genera and 2 phyla together with 4 main functional features (KOs) related to ribosomal proteins. Finally, we studied correlations with the plasma activity of the molecular target of SARS-CoV-2, ACE2, and found a link with two proteins related to protein transport through the microtubules in the cytoplasm (DYBC1 and MAPR1). Our study delineates new mechanisms of SARS-CoV-2 susceptibility and progression to severe disease that may help find better therapies for COVID-19.

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GNPS - 05092023-neg-pc18-data-backup-JH-human-serum-project

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