Summary of Study ST003103
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 PR001926. The data can be accessed directly via it's Project DOI: 10.21228/M8RT5W 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 | ST003103 |
Study Title | Reinforcing the Evidence of Mitochondrial Dysfunction in Long COVID Patients using a Multiplatform Mass Spectrometry-based Metabolomics Approach |
Study Summary | Despite the recent and increasing knowledge surrounding COVID-19 infection, the underlying mechanisms of the persistence of symptoms long time after the acute infection are still not completely understood. Here, a multiplatform mass spectrometry-based approach was used for metabolomic and lipidomic profiling of human plasma samples from Long COVID patients (n=40) to reveal mitochondrial dysfunction when compared with individuals fully recovered from acute mild COVID-19 (n=40). Untargeted metabolomic analysis using CE-ESI(+/–)-TOF-MS and GC-Q-MS was performed. Additionally, a lipidomic analysis using LC-ESI(+/–)-QTOF-MS based on an in-house library revealed 471 lipid species identified with high confidence annotation level. The integration of complementary analytical platforms has allowed a comprehensive metabolic and lipidomic characterization of plasma alterations in Long COVID disease that found 46 relevant metabolites which allowed to discriminate between Long COVID and fully recovered patients. We report specific metabolites altered in Long COVID, mainly related to a decrease in the amino acid metabolism and ceramide plasma levels, and an increase in the tricarboxylic acid (TCA) cycle, reinforcing the evidence of an impaired mitochondrial function. The most relevant alterations shown in this study will help to better understand the insights of Long COVID syndrome by providing a deeper knowledge of the metabolomic basis of the pathology. |
Institute | Universidad CEU San Pablo |
Department | Chemistry and Biochemistry |
Laboratory | CEMBIO |
Last Name | Martinez |
First Name | Sara |
Address | Urbanización Montepríncipe, 28660, Boadilla del Monte, Madrid, Spain |
sara.martinezlopez@ceu.es | |
Phone | (+34)913724769 |
Submit Date | 2024-02-15 |
Num Groups | 2 |
Total Subjects | 80 |
Num Males | 14 |
Num Females | 66 |
Raw Data Available | Yes |
Raw Data File Type(s) | mzML |
Analysis Type Detail | GC/LC-MS |
Release Date | 2024-03-25 |
Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
Project ID: | PR001926 |
Project DOI: | doi: 10.21228/M8RT5W |
Project Title: | Reinforcing the Evidence of Mitochondrial Dysfunction in Long COVID Patients using a Multiplatform Mass Spectrometry-based Metabolomics Approach |
Project Summary: | Despite the recent and increasing knowledge surrounding COVID-19 infection, the underlying mechanisms of the persistence of symptoms long time after the acute infection are still not completely understood. Here, a multiplatform mass spectrometry-based approach was used for metabolomic and lipidomic profiling of human plasma samples from Long COVID patients (n=40) to reveal mitochondrial dysfunction when compared with individuals fully recovered from acute mild COVID-19 (n=40). Untargeted metabolomic analysis using CE-ESI(+/–)-TOF-MS and GC-Q-MS was performed. Additionally, a lipidomic analysis using LC-ESI(+/–)-QTOF-MS based on an in-house library revealed 471 lipid species identified with high confidence annotation level. The integration of complementary analytical platforms has allowed a comprehensive metabolic and lipidomic characterization of plasma alterations in Long COVID disease that found 46 relevant metabolites which allowed to discriminate between Long COVID and fully recovered patients. We report specific metabolites altered in Long COVID, mainly related to a decrease in the amino acid metabolism and ceramide plasma levels, and an increase in the tricarboxylic acid (TCA) cycle, reinforcing the evidence of an impaired mitochondrial function. The most relevant alterations shown in this study will help to better understand the insights of Long COVID syndrome by providing a deeper knowledge of the metabolomic basis of the pathology. |
Institute: | Universidad CEU San Pablo |
Department: | Chemistry and Biochemistry |
Laboratory: | CEMBIO |
Last Name: | Martinez |
First Name: | Sara |
Address: | Urbanización Montepríncipe, Boadilla del Monte, Madrid, 28660, Spain |
Email: | sara.martinezlopez@ceu.es |
Phone: | (+34)913724769 |
Subject:
Subject ID: | SU003218 |
Subject Type: | Human |
Subject Species: | Homo sapiens |
Taxonomy ID: | 9606 |
Factors:
Subject type: Human; Subject species: Homo sapiens (Factor headings shown in green)
mb_sample_id | local_sample_id | Sample source | Factor |
---|---|---|---|
SA333503 | L52 | Plasma | Long COVID |
SA333504 | L51 | Plasma | Long COVID |
SA333505 | L50 | Plasma | Long COVID |
SA333506 | L54 | Plasma | Long COVID |
SA333507 | L56 | Plasma | Long COVID |
SA333508 | L58 | Plasma | Long COVID |
SA333509 | L57 | Plasma | Long COVID |
SA333510 | L49 | Plasma | Long COVID |
SA333511 | L55 | Plasma | Long COVID |
SA333512 | L47 | Plasma | Long COVID |
SA333513 | L103 | Plasma | Long COVID |
SA333514 | L102 | Plasma | Long COVID |
SA333515 | L101 | Plasma | Long COVID |
SA333516 | L42 | Plasma | Long COVID |
SA333517 | L43 | Plasma | Long COVID |
SA333518 | L59 | Plasma | Long COVID |
SA333519 | L46 | Plasma | Long COVID |
SA333520 | L45 | Plasma | Long COVID |
SA333521 | L48 | Plasma | Long COVID |
SA333522 | L61 | Plasma | Long COVID |
SA333523 | L74 | Plasma | Long COVID |
SA333524 | L73 | Plasma | Long COVID |
SA333525 | L72 | Plasma | Long COVID |
SA333526 | L75 | Plasma | Long COVID |
SA333527 | L76 | Plasma | Long COVID |
SA333528 | L79 | Plasma | Long COVID |
SA333529 | L78 | Plasma | Long COVID |
SA333530 | L77 | Plasma | Long COVID |
SA333531 | L70 | Plasma | Long COVID |
SA333532 | L69 | Plasma | Long COVID |
SA333533 | L63 | Plasma | Long COVID |
SA333534 | L62 | Plasma | Long COVID |
SA333535 | L100 | Plasma | Long COVID |
SA333536 | L64 | Plasma | Long COVID |
SA333537 | L65 | Plasma | Long COVID |
SA333538 | L68 | Plasma | Long COVID |
SA333539 | L67 | Plasma | Long COVID |
SA333540 | L66 | Plasma | Long COVID |
SA333541 | L60 | Plasma | Long COVID |
SA333542 | L44 | Plasma | Long COVID |
SA333543 | QC2 | Plasma | Quality control |
SA333544 | QC3 | Plasma | Quality control |
SA333545 | QC12 | Plasma | Quality control |
SA333546 | QC11 | Plasma | Quality control |
SA333547 | QC1 | Plasma | Quality control |
SA333548 | QC4 | Plasma | Quality control |
SA333549 | QC10 | Plasma | Quality control |
SA333550 | QC5 | Plasma | Quality control |
SA333551 | QC9 | Plasma | Quality control |
SA333552 | QC8 | Plasma | Quality control |
SA333553 | QC6 | Plasma | Quality control |
SA333554 | QC7 | Plasma | Quality control |
SA333555 | C18 | Plasma | Recovered from acute COVID-19 |
SA333556 | C17 | Plasma | Recovered from acute COVID-19 |
SA333557 | C19 | Plasma | Recovered from acute COVID-19 |
SA333558 | C21 | Plasma | Recovered from acute COVID-19 |
SA333559 | C16 | Plasma | Recovered from acute COVID-19 |
SA333560 | C20 | Plasma | Recovered from acute COVID-19 |
SA333561 | C2 | Plasma | Recovered from acute COVID-19 |
SA333562 | C13 | Plasma | Recovered from acute COVID-19 |
SA333563 | C10 | Plasma | Recovered from acute COVID-19 |
SA333564 | C22 | Plasma | Recovered from acute COVID-19 |
SA333565 | C11 | Plasma | Recovered from acute COVID-19 |
SA333566 | C12 | Plasma | Recovered from acute COVID-19 |
SA333567 | C14 | Plasma | Recovered from acute COVID-19 |
SA333568 | C15 | Plasma | Recovered from acute COVID-19 |
SA333569 | C23 | Plasma | Recovered from acute COVID-19 |
SA333570 | C52 | Plasma | Recovered from acute COVID-19 |
SA333571 | C55 | Plasma | Recovered from acute COVID-19 |
SA333572 | C49 | Plasma | Recovered from acute COVID-19 |
SA333573 | C43 | Plasma | Recovered from acute COVID-19 |
SA333574 | C42 | Plasma | Recovered from acute COVID-19 |
SA333575 | C59 | Plasma | Recovered from acute COVID-19 |
SA333576 | C1 | Plasma | Recovered from acute COVID-19 |
SA333577 | C8 | Plasma | Recovered from acute COVID-19 |
SA333578 | C7 | Plasma | Recovered from acute COVID-19 |
SA333579 | C68 | Plasma | Recovered from acute COVID-19 |
SA333580 | C61 | Plasma | Recovered from acute COVID-19 |
SA333581 | C41 | Plasma | Recovered from acute COVID-19 |
SA333582 | C4 | Plasma | Recovered from acute COVID-19 |
SA333583 | C27 | Plasma | Recovered from acute COVID-19 |
SA333584 | C29 | Plasma | Recovered from acute COVID-19 |
SA333585 | C26 | Plasma | Recovered from acute COVID-19 |
SA333586 | C25 | Plasma | Recovered from acute COVID-19 |
SA333587 | C24 | Plasma | Recovered from acute COVID-19 |
SA333588 | C31 | Plasma | Recovered from acute COVID-19 |
SA333589 | C32 | Plasma | Recovered from acute COVID-19 |
SA333590 | C37 | Plasma | Recovered from acute COVID-19 |
SA333591 | C35 | Plasma | Recovered from acute COVID-19 |
SA333592 | C34 | Plasma | Recovered from acute COVID-19 |
SA333593 | C33 | Plasma | Recovered from acute COVID-19 |
SA333594 | C9 | Plasma | Recovered from acute COVID-19 |
Showing results 1 to 92 of 92 |
Collection:
Collection ID: | CO003211 |
Collection Summary: | Samples were collected after fasting conditions. 1,500 μL of cold MeOH/EtOH (1:1, v/v) were added to 500 μL of plasma for virus inactivation. Afterward, samples were vigorously mixed using vortex for 1 min, followed by incubation on ice for 5 min, and subsequent centrifugation at 16,000 x g for 20 min at 4 °C to eliminate proteins by precipitation. The resulting extract, containing the metabolites of interest, was transferred to EppendorfTM tubes, and stored at –80 °C until analysis. |
Sample Type: | Blood (plasma) |
Storage Conditions: | -80℃ |
Treatment:
Treatment ID: | TR003227 |
Treatment Summary: | N/A |
Sample Preparation:
Sampleprep ID: | SP003224 |
Sampleprep Summary: | For CE-MS analysis 200 µL of frozen plasma extract (MeOH/EtOH 1:1, v/v) were thawed on ice and dried completely using a SpeedVac Concentrator System. The resulting residue was then reconstituted in 100 µL of 0.2 mM MetS dissolved in 0.1 M FA. After vortex-mixing for 1 min, the samples were transferred to a Millipore filter with a 30 kDa protein cutoff and centrifuged at 2,000 x g for 40 min at 4 °C. Finally, the resulting ultrafiltrate was transferred to a CE-MS vial for further analysis. Prior to the analysis vials were centrifuged at 2,000 x g for 10 min at 4 °C to ensure that any possible sediment remained at the bottom of the vial. For GC-MS analysis 200 µL of each plasma extract was thawed on ice to room temperature and 30 µL of the internal standard (IS), palmitic acid-d31 in MeOH (80 mg/mL) was added to it. The mixture was vortexed for 5 min and 200 µL of the solution were transferred to a GC-MS vial. Then, samples were evaporated to dryness using a SpeedVac Concentrator System and maintained at 8 °C in the Gerstel Multiple Purpose Sample (MPS) Preparation Station. An automated two step derivatization process was performed before sample injection using a protocol adjusted from a previous reported method. First, each precipitate was redissolved in 20 µL of O-methoxyamine solution (15 mg/mL in pyridine) for the methoximation process, mixed 10 min at 1,000 rpm and incubated for 90 min at 60 °C at 750 rpm. Second, and after waiting 5 min, 40 µL of BSTFA with 1% TMCS were added for the silylation process. Then, samples were mixed for 10 min at 1,000 rpm and incubated for 60 min at 60 °C at 750 rpm. After waiting 30 min at 8 °C, 80 µL of heptane containing 20 mg/mL of tricosane (IS) were added and mixed for 5 min at 1,000 rpm. Finally, samples were maintained at 8 °C for 30 min before injection. For LC-MS 200 µL of each plasma extract was thawed on ice to room temperature and centrifuged for 10 min at 16,100 x g at 4 °C, transferred to a LC-MS vial and directly injected into the system. |
Combined analysis:
Analysis ID | AN005077 | AN005078 | AN005079 | AN005080 | AN005081 |
---|---|---|---|---|---|
Analysis type | MS | MS | MS | MS | MS |
Chromatography type | Reversed phase | Reversed phase | GC | CE | CE |
Chromatography system | Agilent 1290 Infinity II | Agilent 1290 Infinity II | Agilent 8890 GC System | Agilent 7100 CE | Agilent 7100 CE |
Column | Agilent InfinityLab Poroshell 120 EC-C18 (100 x 3mm,2.7um) | Agilent InfinityLab Poroshell 120 EC-C18 (100 x 3mm,2.7um) | GC DB5-MS column (40 m length, 0.25 mm inner diameter, and 0.25 µm film of 95% dimethyl/5% diphenylpolysiloxane) | Agilent Technologies fused silica capillary (total length, 100 cm; internal diameter, 50 µm) | Agilent Technologies fused silica capillary (total length, 100 cm; internal diameter, 50 µm) |
MS Type | ESI | ESI | EI | ESI | ESI |
MS instrument type | QTOF | QTOF | Single quadrupole | TOF | TOF |
MS instrument name | Agilent 6545 QTOF | Agilent 6545 QTOF | Agilent 5977B | Agilent 6230 TOF | Agilent 6230 TOF |
Ion Mode | POSITIVE | NEGATIVE | UNSPECIFIED | POSITIVE | NEGATIVE |
Units | Area | Corrected areas | Corrected areas | Corrected areas | Corrected areas |
Chromatography:
Chromatography ID: | CH003834 |
Chromatography Summary: | RP-UHPLC-ESI(+)-QTOF-MS |
Instrument Name: | Agilent 1290 Infinity II |
Column Name: | Agilent InfinityLab Poroshell 120 EC-C18 (100 x 3mm,2.7um) |
Column Temperature: | 50°C |
Flow Gradient: | The chromatographic gradient started at 70 % of B at 0 - 1 min, 86 % B at 3.5 - 10 min, 100% B at 11 - 17 min. The starting conditions were recovered by min 17, followed by a 2 min re-equilibration time, reaching a total running time of 19 min |
Flow Rate: | 0.6 mL/min |
Solvent A: | 10 mM CH3COONH4 and 0.2 mM NH4F in H2O/MeOH (9:1, v/v) |
Solvent B: | 10 mM CH3COONH4 and 0.2 mM NH4F in ACN/MeOH/IPA (2:3:5, v/v/v) |
Analytical Time: | 19 min |
Chromatography Type: | Reversed phase |
Chromatography ID: | CH003835 |
Chromatography Summary: | RP-UHPLC-ESI(-)-QTOF-MS |
Instrument Name: | Agilent 1290 Infinity II |
Column Name: | Agilent InfinityLab Poroshell 120 EC-C18 (100 x 3mm,2.7um) |
Column Temperature: | 50°C |
Flow Gradient: | The chromatographic gradient started at 70 % of B at 0 - 1 min, 86 % B at 3.5 - 10 min, 100% B at 11 - 17 min. The starting conditions were recovered by min 17, followed by a 2 min re-equilibration time, reaching a total running time of 19 min |
Flow Rate: | 0.6 mL/min |
Solvent A: | 10 mM CH3COONH4 and 0.2 mM NH4F in H2O/MeOH (9:1, v/v) |
Solvent B: | 10 mM CH3COONH4 and 0.2 mM NH4F in ACN/MeOH/IPA (2:3:5, v/v/v) |
Analytical Time: | 19 min |
Chromatography Type: | Reversed phase |
Chromatography ID: | CH003836 |
Chromatography Summary: | GC-Q-MS |
Instrument Name: | Agilent 8890 GC System |
Column Name: | GC DB5-MS column (40 m length, 0.25 mm inner diameter, and 0.25 µm film of 95% dimethyl/5% diphenylpolysiloxane) |
Column Temperature: | The column temperature gradient was programmed as follows: it started at 60 °C for 1 min, then increased by 10 °C/min until reaching 325 °C and held at this temperature for 10 min before cooling down |
Flow Gradient: | Constant |
Flow Rate: | 0.5658 mL/min |
Solvent A: | Helium |
Solvent B: | N/A |
Analytical Time: | 37 min followed by 5 min of post-run period |
Chromatography Type: | GC |
Chromatography ID: | CH003837 |
Chromatography Summary: | CE-ESI(+)-TOF-MS |
Instrument Name: | Agilent 7100 CE |
Column Name: | Agilent Technologies fused silica capillary (total length, 100 cm; internal diameter, 50 µm) |
Column Temperature: | 20°C |
Flow Gradient: | N/A |
Flow Rate: | N/A |
Solvent A: | BGE (1 M FA in 10% MeOH) |
Solvent B: | N/A |
Analytical Time: | 26 min |
Capillary Voltage: | 30kV |
Sheath Liquid: | MeOH: H2O (1:1, v/v) with 1mM FA containing two reference masses (purine: 121.0509 and HP-0922: 922.0098) at a flow rate of 0.6 mL/min (1:100 of split ratio) |
Chromatography Type: | CE |
Chromatography ID: | CH003838 |
Chromatography Summary: | CE-ESI(-)-TOF-MS |
Instrument Name: | Agilent 7100 CE |
Column Name: | Agilent Technologies fused silica capillary (total length, 100 cm; internal diameter, 50 µm) |
Column Temperature: | 20°C |
Flow Gradient: | N/A |
Flow Rate: | N/A |
Solvent A: | BGE (1 M FA in 10% MeOH) |
Solvent B: | N/A |
Analytical Time: | 40 min |
Capillary Voltage: | -30kV |
Sheath Liquid: | MeOH: H2O (1:1, v/v) with 1mM FA containing two reference masses (purine: 121.0509 and HP-0922: 922.0098) at a flow rate of 1.0 mL/min (1:100 of split ratio) |
Chromatography Type: | CE |
MS:
MS ID: | MS004815 |
Analysis ID: | AN005077 |
Instrument Name: | Agilent 6545 QTOF |
Instrument Type: | QTOF |
MS Type: | ESI |
MS Comments: | The mass spectrometer operated in full scan mode, scanning from m/z 40 - 1700 at a scan rate of 3 spectra/s. During the analysis, a solution containing two reference mass compounds was continuously infused to the system at a flow rate of 1 mL/min to provide mass correction. The reference masses used were m/z 121.0509 (purine detected as [C5H4N4 + H]+) and m/z 922.0098 (HP-0921 detected as [C18H18O6N3P3F24 + H]+) for ESI(+) and m/z 119.0363 (purine detected as [C5H4N4 - H]-) and m/z 1033.9881 (HP-0921 detected as [C18H18O6N3P3F24 + CF3COOH-H]-) for ESI(–). At the end of the analysis, ten iterative-MS/MS runs were performed for both, positive and negative ionization modes using a QC sample. They were operated with a MS and MS/MS scan rates of 3 spectra/s, 3 precursors per cycle, a mass range of m/z 40 - 1700, a narrow (~ 1.3 amu) MS/MS isolation width, and 5000 counts and 0.001 % of MS/MS threshold. The collision energy for the first five iterative-MS/MS runs was set at 20 eV, and the subsequent five runs were performed at 40 eV. To ensure accuracy, reference masses and contaminants detected in blank samples were excluded from the analysis. This prevented thein inclusion in the iterative-MS/MS runs. Data was acquired using MassHunter Workstation Software LC-MS Data Acquisition v B.09.00 (Agilent Technologies, Waldbronn, Germany). |
Ion Mode: | POSITIVE |
MS ID: | MS004816 |
Analysis ID: | AN005078 |
Instrument Name: | Agilent 6545 QTOF |
Instrument Type: | QTOF |
MS Type: | ESI |
MS Comments: | The mass spectrometer operated in full scan mode, scanning from m/z 40 - 1700 at a scan rate of 3 spectra/s. During the analysis, a solution containing two reference mass compounds was continuously infused to the system at a flow rate of 1 mL/min to provide mass correction. The reference masses used were m/z 121.0509 (purine detected as [C5H4N4 + H]+) and m/z 922.0098 (HP-0921 detected as [C18H18O6N3P3F24 + H]+) for ESI(+) and m/z 119.0363 (purine detected as [C5H4N4 - H]-) and m/z 1033.9881 (HP-0921 detected as [C18H18O6N3P3F24 + CF3COOH-H]-) for ESI(–). At the end of the analysis, ten iterative-MS/MS runs were performed for both, positive and negative ionization modes using a QC sample. They were operated with a MS and MS/MS scan rates of 3 spectra/s, 3 precursors per cycle, a mass range of m/z 40 - 1700, a narrow (~ 1.3 amu) MS/MS isolation width, and 5000 counts and 0.001 % of MS/MS threshold. The collision energy for the first five iterative-MS/MS runs was set at 20 eV, and the subsequent five runs were performed at 40 eV. To ensure accuracy, reference masses and contaminants detected in blank samples were excluded from the analysis. This prevented thein inclusion in the iterative-MS/MS runs. Data was acquired using MassHunter Workstation Software LC-MS Data Acquisition v B.09.00 (Agilent Technologies, Waldbronn, Germany). |
Ion Mode: | NEGATIVE |
MS ID: | MS004817 |
Analysis ID: | AN005079 |
Instrument Name: | Agilent 5977B |
Instrument Type: | Single quadrupole |
MS Type: | EI |
MS Comments: | For ionization, the EI source was used with the following settings: filament source temperature at 230 °C and electron ionization energy at 70 eV. Mass spectra were collected in a mass range of m/z 50 - 600 at a scan rate of 2 spectra/s. Mass calibration was performed after every injection with internal reference masses m/z 68.9947, 263.9866 and 501.9706. Data acquisition was performed using the Agilent MassHunter Workstation GC-MS Data Acquisition v 10.0 (Agilent Technologies, Waldbronn, Germany). |
Ion Mode: | UNSPECIFIED |
MS ID: | MS004818 |
Analysis ID: | AN005080 |
Instrument Name: | Agilent 6230 TOF |
Instrument Type: | TOF |
MS Type: | ESI |
MS Comments: | The mass spectra data were acquired in positive polarity mode with a full scan range of m/z 70 - 1000 at a rate of 1.36 spectra/s. The following MS parameters were employed: fragmentor set to 125 V, skimmer to 65 V, OCT RF Vpp to 750 V, drying gas temperature to 200 °C ESI(+), flow rate to 10 L/min, nebulizer to 10 psi, and capillary voltage to 3500 V ESI(+). The Agilent MassHunter Workstation v B.09.00 (Agilent Technologies, Waldbronn, Germany) was used for CE-MS data acquisition. |
Ion Mode: | POSITIVE |
MS ID: | MS004819 |
Analysis ID: | AN005081 |
Instrument Name: | Agilent 6230 TOF |
Instrument Type: | TOF |
MS Type: | ESI |
MS Comments: | The mass spectra data were acquired in negative polarity mode with a full scan range m/z 60 - 1000 at a rate of 1 spectra/s. The following MS parameters were employed: fragmentor set to 125 V, skimmer to 65 V, OCT RF Vpp to 750 V, drying gas temperature to 275 °C ESI(–), flow rate to 10 L/min, nebulizer to 10 psi, and capillary voltage to 2000 V ESI(-). The Agilent MassHunter Workstation v B.09.00 (Agilent Technologies, Waldbronn, Germany) was used for CE-MS data acquisition. |
Ion Mode: | NEGATIVE |