Summary of Study ST001654

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 PR001060. The data can be accessed directly via it's Project DOI: 10.21228/M8PH55 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 IDST001654
Study TitleMetabolic profiling of plasma collected from Peromyscus leucopus and Mus musculus following LPS treatment
Study TypeUntargeted Metabolomic profiling
Study SummarySmall molecule metabolites were extracted from plasma from Peromyscus leucopus and Mus musculus BALB/c and analyzed by liquid chromatography couple with mass spectrometry (LC-MS). XCMS software was used for peak picking, grouping and retention time correction from LC-MS data and generated a molecular feature spreadsheet. Pathway way enrichment analysis was carried out using Mummichog pathway analysis software using data from feature table.
Institute
Colorado State University
DepartmentMicrobiology, Immunology and Pathology
LaboratoryBelisle Lab
Last NameNurul
First NameIslam
Address3185 Rampart Road, Fort Collins, CO 80521
Emailnurul.islam@colostate.edu
Phone970 492 4249
Submit Date2021-01-13
Num Groups4
Total Subjects40
Num Males20
Num Females20
Raw Data AvailableYes
Raw Data File Type(s)mzML
Analysis Type DetailLC-MS
Release Date2021-03-15
Release Version1
Islam Nurul Islam Nurul
https://dx.doi.org/10.21228/M8PH55
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR001060
Project DOI:doi: 10.21228/M8PH55
Project Title:Investigation of infection-tolerance phenomenon in mammalian reservoir of Lyme disease, Peromyscus leucopus
Project Type:Comparative study of Peromyscus leucopus and Mus musculus, BALB/c, metabolic response to endotoxin treatment
Project Summary:Infection-tolerance mechanism were investigated in a natural reservoir of Lyme disease, Peromyscus leucopus, white-footed deermice following exposure of a single dose of lipopolysaccharide endotoxin. The multiparametric responses of this treatment were compared to widely used mouse model, Mus musculus BALB/c. Following LPS and saline treatment, samples from blood, spleen and liver tissues were collected postmortem from both animals and subjected to RNA-seq, untargeted metabolomics and specific RT-qPCR.
Institute:Colorado State University
Department:Microbiology, Immunology and Pathology
Laboratory:Belisle Lab
Last Name:Nurul
First Name:Islam
Address:3185 Rampart Road, Fort Collins, CO 80521
Email:nurul.islam@colostate.edu
Phone:970 492 4249
Funding Source:NIH and the Office of the Assistant Secretary of Defense for Health Affairs through the Tick Borne Disease Research Program
Project Comments:N/A
Publications:N/A
Contributors:Gabriela Balderrama Gutierrez, Ana Milovic, Vanessa J. Cook, M. Nurul Islam, Youwen Zhang, Hippokratis Kiaris, John T. Belisle, Ali Mortazavi and Alan G. Barbour.

Subject:

Subject ID:SU001731
Subject Type:Mammal
Subject Species:Mus musculus;Peromyscus leucopus
Taxonomy ID:10090;10041
Gender:Male and female

Factors:

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

mb_sample_id local_sample_id Sample Type
SA151775Peromyscus_22275_Control_Plasmacontrol (saline)
SA151776Mus_F101_Control_Plasmacontrol (saline)
SA151777Mus_106_Control_Plasmacontrol (saline)
SA151778Mus_120_Control_Plasmacontrol (saline)
SA151779Mus_116_Control_Plasmacontrol (saline)
SA151780Mus_102_Control_Plasmacontrol (saline)
SA151781Mus_M404_Control_Plasmacontrol (saline)
SA151782Mus_115_Control_Plasmacontrol (saline)
SA151783Mus_F302_Control_Plasmacontrol (saline)
SA151784Peromyscus_22335_Control_Plasmacontrol (saline)
SA151785Peromyscus_22341_Control_Plasmacontrol (saline)
SA151786Peromyscus_22321_Control_Plasmacontrol (saline)
SA151787Peromyscus_22315_Control_Plasmacontrol (saline)
SA151788Peromyscus_22277_Control_Plasmacontrol (saline)
SA151789Peromyscus_22282_Control_Plasmacontrol (saline)
SA151790Peromyscus_22279_Control_Plasmacontrol (saline)
SA151791Mus_109_LPS_Plasmalipopolysaccharide
SA151792Mus_107_LPS_Plasmalipopolysaccharide
SA151793Mus_M205_LPS_Plasmalipopolysaccharide
SA151794Mus_108_LPS_Plasmalipopolysaccharide
SA151795Mus_M407_LPS_Plasmalipopolysaccharide
SA151796Mus_F303_LPS_Plasmalipopolysaccharide
SA151797Peromyscus_22258_LPS_Plasmalipopolysaccharide
SA151798Mus_M406_LPS_Plasmalipopolysaccharide
SA151799Mus_118_LPS_Plasmalipopolysaccharide
SA151800Peromyscus_22319_LPS_Plasmalipopolysaccharide
SA151801Peromyscus_22284_LPS_Plasmalipopolysaccharide
SA151802Peromyscus_22316_LPS_Plasmalipopolysaccharide
SA151803Peromyscus_22325_LPS_Plasmalipopolysaccharide
SA151804Peromyscus_22327_LPS_Plasmalipopolysaccharide
SA151805Peromyscus_22339_LPS_Plasmalipopolysaccharide
SA151806Peromyscus_22292_LPS_Plasmalipopolysaccharide
SA151807Peromyscus_22289_LPS_Plasmalipopolysaccharide
SA151808Mus_104_LPS_Plasmalipopolysaccharide
SA151809Mus_105_LPS_Plasmalipopolysaccharide
SA151810Mus_103_LPS_Plasmalipopolysaccharide
SA151811Mus_101_LPS_Plasmalipopolysaccharide
SA151812Peromyscus_22278_LPS_Plasmalipopolysaccharide
SA151813Peromyscus_22281_LPS_Plasmalipopolysaccharide
SA151814Peromyscus_22332_LPS_Plasmalipopolysaccharide
SA151768Pooled_QC03Pooled quality control sample
SA151769Pooled_QC01Pooled quality control sample
SA151770Pooled_QC04Pooled quality control sample
SA151771Pooled_QC02Pooled quality control sample
SA151772Pooled_QC05Pooled quality control sample
SA151773Pooled_QC07Pooled quality control sample
SA151774Pooled_QC06Pooled quality control sample
Showing results 1 to 47 of 47

Collection:

Collection ID:CO001724
Collection Summary:At 4.0 hr after LPS injection the animals were euthanized. After opening the chest, exsanguination was performed by cardiac puncture and blood was transferred to a heparin sulfate coated tubes (Becton-Dickinson Microtainer). Anticoagulated blood was centrifuged to pellet blood cells for 3 min at 4600 x g at 4° C. Plasma and blood pellet was kept separately at -80° C until further analysis.
Sample Type:Blood (plasma)
Storage Conditions:-80℃

Treatment:

Treatment ID:TR001744
Treatment Summary:Animals were anesthetized with isoflurane and injected i.p. with a single dose of E. coli O111:B4 LPS at a concentration of 10 µg/gm body weight in a 50 µl volume as described above. The control group was anesthetized and then injected with the 0.9% saline alone. The experiment started at 0800 h with 10 min intervals between animals and with alteration of LPS and control injections. At 4.0 hr after their injection the animals were euthanized. After opening the chest, exsanguination was performed by cardiac puncture and blood was transferred to a heparin sulfate coated tubes (Becton-Dickinson Microtainer). Anticoagulated blood was centrifuged to pellet blood cells for 3 min at 4600 x g at 4° C. Plasma and blood pellet was kept separately at -80° C until further analysis.
Treatment Compound:E. coli O111:B4 LPS
Treatment Route:i.p.
Treatment Dose:10 µg/gm body weight
Treatment Dosevolume:50 µl volume
Treatment Vehicle:sterile, endotoxin-free 0.9% saline
Animal Anesthesia:isoflurane

Sample Preparation:

Sampleprep ID:SP001737
Sampleprep Summary:Metabolites were extracted from aliquots of 40 µL of plasma with 75% LC-MS grade methanol, supernatants were dried, resuspended in 50% methanol, 10 µL samples were subjected to liquid chromatography and mass spectrometry. Pooled quality control sample was prepared by mixing small aliquot (10 µL) of each plasma sample in the study.

Combined analysis:

Analysis ID AN002701
Analysis type MS
Chromatography type Reversed phase
Chromatography system Agilent 1260
Column Agilent Poroshell 120 EC-C8 (100 x 2.1mm,2.7um)
MS Type ESI
MS instrument type QTOF
MS instrument name Agilent 6520 QTOF
Ion Mode POSITIVE
Units peak area

Chromatography:

Chromatography ID:CH001993
Instrument Name:Agilent 1260
Column Name:Agilent Poroshell 120 EC-C8 (100 x 2.1mm,2.7um)
Column Temperature:50
Flow Gradient:non-linear gradient
Flow Rate:0.25 mL/min
Solvent A:100% water; 0.1% formic acid
Solvent B:100% acetonitrile; 0.1% formic acid
Chromatography Type:Reversed phase

MS:

MS ID:MS002499
Analysis ID:AN002701
Instrument Name:Agilent 6520 QTOF
Instrument Type:QTOF
MS Type:ESI
MS Comments:An aliquot of sample was injected into LC-MS to acquire data in positive mode. Data acquisition and analysis were achieved using MassHunter software.
Ion Mode:POSITIVE
Capillary Voltage:4000V
Dry Gas Temp:300 degree C
Fragment Voltage:120V
Gas Pressure:45
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