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Untargeted plasma metabolomics and lipidomics of hospitalized COVID-19 patients with and without acute kidney injury

ABSTRACT: This dataset contains untargeted plasma metabolomics and lipidomics data from approximately 600 hospitalized COVID-19 patients recruited at Hospital das Clinicas, University of Sao Paulo (HC-USP), Brazil. All samples were collected during the first wave of the COVID-19 pandemic in Sao Paulo, before the introduction of vaccination, and include patients who did and did not develop acute kidney injury (AKI) during hospitalization. Plasma samples were analyzed by high-resolution LC-MS/MS in both positive and negative ionization modes. De-identified clinical and demographic metadata (70 variables per patient), including AKI status (KDIGO-based), comorbidities, laboratory measurements, and outcomes, are provided to enable discovery and validation of metabolic signatures of COVID-19-associated AKI and to support downstream multi-omics and repository-scale reanalysis.

INSTRUMENT(S): Q Exactive

ORGANISM(S): Homo Sapiens (ncbitaxon:9606)

SUBMITTER: Alessandra Sussulini

PROVIDER: MSV000100080 | MassIVE | Tue Dec 02 13:42:00 GMT 2025

REPOSITORIES: MassIVE

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Project description:The lack of available biomarkers for diagnosing and predicting different stages of coronavirus disease 2019 (COVID-19) is currently one of the main challenges that clinicians are facing. Recent evidence indicates that the plasma levels of specific miRNAs may be significantly modified in COVID-19 patients. Large-scale deep sequencing analysis of small RNA expression was performed on plasma samples from 40 patients hospitalized for severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection (between March and May 2020) (median 13.50 [IQR 9–24] days since symptoms initiation) and 21 healthy noninfected individuals. Patients were categorized as hospitalized not requiring oxygen therapy (n = 6), hospitalized requiring low-flow oxygen (n = 23), and hospitalized requiring high-flow oxygen support (n = 11). A total of 1218 different micro(mi)RNAs were identified. When compared with healthy noninfected donors, SARS-CoV-2 infected patients showed significantly (fold change [FC] >1.2 and adjusted p [padj] <0.05) altered expression of 190 miRNAs. The top 10 differentially expressed (DE) miRNAs were miR-122-5p, let-7b-5p, miR-146a-5p, miR-342-3p, miR-146b-5p, miR-629-5p, miR-24-3p, miR-12136, let-7a-5p, and miR-191-5p, which displayed FC and padj values ranging from 153 to 5 and 2.51 × 10-32 to 2.21 × 10-21, respectively, which unequivocally diagnosed SARS-CoV-2 infection. No differences in blood cell counts and biochemical plasma parameters, including interleukin 6, ferritin and D-dimer, were observed between COVID-19 patients on high-flow oxygen therapy, low-flow oxygen therapy, or not requiring oxygen therapy. Notably, 31 significantly deregulated miRNAs were found when patients on high- and low-flow oxygen therapy were compared. Similarly, 6 DE miRNAs were identified between patients on high flow and those not requiring oxygen therapy. SARS-CoV-2 infection generates a specific miRNA signature in hospitalized patients. Furthermore, specific miRNA profiles are associated with COVID-19 prognosis in severe patients.

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Untargeted plasma metabolomics and lipidomics of hospitalized COVID-19 patients with and without acute kidney injury

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