Summary of Study ST002984
This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench, https://www.metabolomicsworkbench.org, where it has been assigned Project ID PR001859. The data can be accessed directly via it's Project DOI: 10.21228/M8DT65 This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
This study contains a large results data set and is not available in the mwTab file. It is only available for download via FTP as data file(s) here.
| Study ID | ST002984 |
| Study Title | Amino acid catabolite markers for early prognostication of pneumonia in patients with COVID-19 |
| Study Summary | Effective early-stage markers for predicting which patients are at risk of developing SARS-CoV-2 infection have not been fully investigated. Here, we performed comprehensive serum metabolome analysis of a total of 83 patients from two cohorts to determine that the acceleration of amino acid catabolism within 5 days from disease onset correlated with future disease severity. Increased levels of de-aminated amino acid catabolites involved in the de novo nucleotide synthesis pathway were identified as early prognostic markers that correlated with the initial viral load. We further employed mice models of SARS-CoV2-MA10 and influenza infection to demonstrate that such de-amination of amino acids and de novo synthesis of nucleotides were associated with the abnormal proliferation of airway and vascular tissue cells in the lungs during the early stages of infection. Consequently, it can be concluded that lung parenchymal tissue remodeling in the early stages of respiratory viral infections induces systemic metabolic remodeling and that the associated key amino acid catabolites are valid predictors for excessive inflammatory response in later disease stages. |
| Institute | Graduate School of Medicine, Kyoto University |
| Department | Center for Cancer Immunotherapy and Immunobiology |
| Laboratory | Sugiura-lab |
| Last Name | Sugiura |
| First Name | Yuki |
| Address | Shogoin-Kawaramachi 53,, Sakyo-ku, Kyoto, Kyoto, 160-8582, Japan |
| yuki.sgi@gmail.com | |
| Phone | +818050027858 |
| Submit Date | 2023-11-16 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | lcd, raw(Thermo) |
| Analysis Type Detail | LC-MS |
| Release Date | 2023-12-04 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Combined analysis:
| Analysis ID | AN004903 | AN004904 |
|---|---|---|
| Analysis type | MS | MS |
| Chromatography type | Ion exchange | Reversed phase |
| Chromatography system | Thermo Dionex ICS-5000+ | Shimadzu Nexera X2 |
| Column | Dionex IonPac AS11-HC (250 x 2mm, 4um) | Sigma-Aldrich Discovery HS F5-3 (150 x 2.1 mm, 3 um) |
| MS Type | ESI | ESI |
| MS instrument type | Orbitrap | Triple quadrupole |
| MS instrument name | Thermo Q Exactive Focus | LCMS-8060, Shimadzu Corporation |
| Ion Mode | UNSPECIFIED | UNSPECIFIED |
| Units | Peak area/Internal Standard | Peak area/Internal Standard |
MS:
| MS ID: | MS004646 |
| Analysis ID: | AN004903 |
| Instrument Name: | Thermo Q Exactive Focus |
| Instrument Type: | Orbitrap |
| MS Type: | ESI |
| MS Comments: | For IC-HR-MS data analysis, the Trace Finder compound identification and confirmation setup parameters included a molecular ion intensity threshold override of 10,000, S/N 5, and mass tolerance of 5 ppm. Isotope pattern analysis using a 90% fit threshold, 30% allowable relative intensity deviation, and 5 ppm mass deviation was also performed to ensure that the relative intensities of the M + 1 and/or M + 2 isotope peaks for each compound were consistent with the theoretical relative intensities. |
| Ion Mode: | UNSPECIFIED |
| MS ID: | MS004647 |
| Analysis ID: | AN004904 |
| Instrument Name: | LCMS-8060, Shimadzu Corporation |
| Instrument Type: | Triple quadrupole |
| MS Type: | ESI |
| MS Comments: | For LC-MS/MS analysis, chromatographic peaks obtained with compound-specific SRM channels were integrated and manually reviewed. For a single target compound, one or more confirmatory SRM channels were set (if available) to confirm peak compound identification. Chromatograms were acquired using Lab Solutions (ver. 5.113, Shimadzu). Peak areas were determined using Data browser software. |
| Ion Mode: | UNSPECIFIED |
