Summary of Study ST003467

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 PR002122. The data can be accessed directly via it's Project DOI: 10.21228/M8B52G 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.

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Study IDST003467
Study TitleLipidomics of mice serum to support understanding of early metabolic shift in presymptomatic sepsis patients. (Part12 mice serum lipid)
Study SummarySepsis, a life-threatening organ dysfunction caused by a dysregulated response to infection, is a critical medical condition with significant global impact, responsible for 48.9 million cases and 11 million deaths annually. Metabolic dysregulation in sepsis is a critical determinant of disease outcome, yet most studies focus on patients after severe illness onset, comparing septic versus non-septic groups or survivors versus non-survivors. To truly understand this complex disease, it is essential to investigate early metabolic shifts, capturing the transition from simple infection to sepsis. Our untargeted lipidome analysis of serum from mice model revealed early septic biomarkers in serum.
Institute
Leibniz Institute for Natural Product Research and Infection Biology Hans Knöll Institute
DepartmentMicrobiome Dynamics
Last NameXU
First NameLINLIN
AddressBeutenbergstraße 11a, Jena, Thuringia, 07745, Germany
EmailLin-Lin.Xu@hki-jena.de
Phone+4936415321265
Submit Date2024-09-05
Raw Data AvailableYes
Raw Data File Type(s)mzML
Analysis Type DetailLC-MS
Release Date2025-05-26
Release Version1
LINLIN XU LINLIN XU
https://dx.doi.org/10.21228/M8B52G
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR002122
Project DOI:doi: 10.21228/M8B52G
Project Title:Early Metabolic Shifts in the Sepsis: Insights from Presymptomatic Patients and In Vivo Models.
Project Type:MS quantitative analysis
Project Summary:Metabolomics of human serum to support understanding of early metabolic shift in presymptomatic sepsis patients and further confirmed in in vivo model.
Institute:Leibniz Institute for Natural Product Research and Infection Biology Hans Knöll Institute
Department:Microbiome Dynamics
Last Name:XU
First Name:LINLIN
Address:Beutenbergstraße 11a, Jena, Thuringia, 07745, Germany
Email:Lin-Lin.Xu@leibniz-hki.de
Phone:+4936415321265

Subject:

Subject ID:SU003595
Subject Type:Mammal
Subject Species:Mus musculus
Taxonomy ID:10090
Gender:Not applicable
Species Group:Mammals

Factors:

Subject type: Mammal; Subject species: Mus musculus (Factor headings shown in green)

mb_sample_id local_sample_id Sample source Group
SA383012Blank_001blank Blank
SA383013Blank_002blank Blank
SA383014Blank_003blank Blank
SA383015Blank_PBblank Blank
SA383016Blank_004blank Blank
SA382984SA021024Serum CLP (24h) / 12C-Serin
SA382985SA020989Serum CLP (24h) / 12C-Serin
SA382986SA021031Serum CLP (24h) / 12C-Serin
SA382987SA020982Serum CLP (24h) / 12C-Serin
SA382988SA020887Serum CLP (24h) / 13C-Serin
SA382989SA020947Serum CLP (24h) / 13C-Serin
SA382990SA020894Serum CLP (24h) / 13C-Serin
SA382991SA020940Serum CLP (24h) / 13C-Serin
SA382992SA020975Serum CLP (24h) / Vehicle
SA382993SA020901Serum CLP (24h) / Vehicle
SA382994QC_005Serum QC
SA382995QC_006Serum QC
SA382996QC_001Serum QC
SA382997QC_009Serum QC
SA382998QC_007Serum QC
SA382999QC_008Serum QC
SA383000QC_004Serum QC
SA383001SA021003Serum Sham / 12C-Serin
SA383002SA020996Serum Sham / 12C-Serin
SA383003SA021017Serum Sham / 12C-Serin
SA383004SA021010Serum Sham / 12C-Serin
SA383005SA020968Serum Sham / 13C-Serin
SA383006SA020961Serum Sham / 13C-Serin
SA383007SA020915Serum Sham / 13C-Serin
SA383008SA020908Serum Sham / 13C-Serin
SA383009SA020922Serum Sham / Vehicle
SA383010SA020954Serum Sham / Vehicle
SA383011SA021033Serum Sham / Vehicle
Showing results 1 to 33 of 33

Collection:

Collection ID:CO003588
Collection Summary:Mice tissue samples were collected from our in vivo mice model and frozen at -80 °C. Samples were shipped to MS-OMICS for metabolomic analysis.
Sample Type:Blood (serum)

Treatment:

Treatment ID:TR003604
Treatment Summary:Approximately 30% of the cecum was ligated and punctured twice with a 23 Gauge (G) needle. A small amount of faeces was extruded and the cecum was placed back into the abdominal cavity. All animals received 40 mL/kg saline s.c. directly after the procedure and once 25mg/kg s.c. Imipenem/Cilastatin after 6 hours. This model is associated with a 14-day mortality of 30%, closely mimicking the clinical situation. Animals were orally gavaged with 500mg/kg 12C-Serin (Sigma) or 13C-Serin (CLM-1574-H-0.25 Serine-L (13C3 99%13C), Euroisotope, Germany) in 10mL/kg drinking water or drinking water only (vehicle) 6 and 18 hours after CLP98,99. After 24 hours, the animals are then perfused with ice cold PBS and organs were harvested, snap frozen and stored at -80° until further analysis. Sham animals underwent exactly to the same procedures except for the CLP.

Sample Preparation:

Sampleprep ID:SP003602
Sampleprep Summary:In the different tissue samples, the pellet from the semipolar extraction were used to extract lipids as follows. DCM:MeOH (3:1) were added to the pellets, and the samples were homogenized using a pre-cooled Bead-beater (4 x 60 sec at 30 Hz), with colling of the blocks between the beading cycles. Subsequently, the samples were ultrasonicate for 5 mins and centrifuged (5 mins, 1800 RCF, 4 °C). The supernatant were collected and dried under nitrogen gas. Samples were then reconstitute with 6x (spleen and WAT) or 3x (heart, liver and kidney) the sample weight with the reconstitution solvent eluent mix and vortex mixed for 30 sec. The reconstituted samples were filtrated using SpinX filters by centrifugation (5 mins, 1800 RCF, 4 °C). All samples were mixed 1: 50 in eluent mix. For serum samples, an alliqoute of the serum samples are mixed with extraction solvent (0.1 M BHT in isopropanol with stable isotope labelled internal standard) in a Spin-X® filter. The filters were vortex-mixed for 60 sec and left at room temperature for 10 mins before placing in -20 °C Freezer overnight. The following day samples were left at room temperature for 30 mins before centrifuging (1800g /4°C/2 min). The filtrate were mixed with eluent mix 1:3.

Chromatography:

Chromatography ID:CH004324
Methods Filename:Doneanu_etal.pdf
Instrument Name:Thermo Vanquish
Column Name:Waters ACQUITY UPLC CSH C18 (100 x 2.1mm,1.7um)
Column Temperature:55
Flow Gradient:0-2 min: 40 % B, 2.1 min 50% B, 12 min 54% B, 12.1 min 70% B, 18-20 min 99 % B, 20.1-22 min 40% B
Flow Rate:0.4mL/min
Solvent A:60% Acetonitrile/40% water; 10 mM ammonium formate; 0.1% formic acid
Solvent B:90% Isopropanol/10% acetonitrile; 10 mM ammonium formate; 0.1% formic acid
Chromatography Type:Reversed phase

Analysis:

Analysis ID:AN005699
Laboratory Name:MS-Omics, Denmark
Analysis Type:MS
Analysis Protocol File:Doneanu_etal.pdf
Chromatography ID:CH004324
Num Factors:8
Num Metabolites:173
Has Rt:1
Rt Units:Minutes
Results File:ST003467_AN005699_Results.txt
Units:Normalized peak area
  
Analysis ID:AN005700
Laboratory Name:MS-Omics, Denmark
Analysis Type:MS
Analysis Protocol File:Doneanu_etal.pdf
Chromatography ID:CH004324
Num Factors:8
Num Metabolites:42
Has Rt:1
Rt Units:Minutes
Results File:ST003467_AN005700_Results.txt
Units:Normalized peak area
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