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Serum proteomics in a cohort of COVID patients and healthy controls

ABSTRACT: This project investigates the serum proteome patterms in recovered COVID patients compared to that in healthy controls. Specifically, serum saamples from 29 recovered patients and 29 age, sex, and race matched healthy controls were collected and subject to DIA-MS proteomics. A fraction of the serum from each sample was pooled for all 58 samples and run as a quality control.

INSTRUMENT(S): Q Exactive HF

ORGANISM(S): Homo Sapiens (human)

TISSUE(S): Blood Serum

SUBMITTER: Shaohuan Wu

LAB HEAD: Christine Vogel

PROVIDER: PXD036597 | Pride | 2024-01-03

REPOSITORIES: Pride

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Project description:During pregnancy, the Zika virus (ZIKV) can be vertically transmitted, causing Congenital Zika Syndrome (CZS) in fetuses. ZIKV infection in early gestational trimesters increases the chances to develop CZS. This syndrome involves several pathologies with a difficult diagnosis, which usually occurs in the postnatal stage. In this work, we aim to identify biological processes and molecular pathways related to CZS development and propose a series of putative protein and metabolite biomarkers for CZS prognosis in early pregnancy trimesters. Twenty-five serum samples of pregnant women were analyzed. For biological analysis, samples were separated into 3 biological groups composed of a control group of healthy pregnant women and two groups of ZIKV-infected pregnant women bearing non- microcephalic and microcephalic fetuses. Control and ZIKV-infected groups - without microcephalic fetuses - were subdivided into healthy and Cognitive Developmental Delay (CDD) newborns for biomarker analysis. We detected over 1,000 proteins and 500 metabolites by bottom-up proteomics and untargeted metabolomics, respectively. Statistical approaches - (t-Student, Limma, ANOVA, and DIABLO) - were applied to find CZS differentially abundant proteins (DAP) and metabolites (DAM). Enrichment analysis (i.e., biological processes and molecular pathways) of the DAP and the DAM allowed us to identify the ECM organization and proteoglycans, amino acid metabolism, and arachidonic acid metabolism as signatures in the CZS development. Five proteins and four metabolites were selected as CZS biomarkers candidates. The protein-based model indicated superior performance values for the Vitamin K-dependent protein S, Selenoprotein P, Inter-alpha- trypsin inhibitor heavy chain H2, Kallistatin, and Protein Z-dependent protease inhibitor proteins. Furthermore, the metabolite-based model was able to predict CZS with a probability of 90%. Serum multi-omics analysis led us to propose for further studies nine potential biomarkers for CZS early prognosis with high sensitivity and specificity.

			Action	DRS
	74_COVID_samples_BGS_Factory_Report.xls	Xls
	C10_set2_201010.raw	Raw
	C11_set3_201111_9.raw	Raw
	C12_set4_201117.raw	Raw
	C13_set1_201006.raw	Raw

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Serum proteomics in a cohort of COVID patients and healthy controls

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