Summary of Study ST001069

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 PR000716. The data can be accessed directly via it's Project DOI: 10.21228/M8496H This work is supported by NIH grant, U2C- DK119886. See: https://www.metabolomicsworkbench.org/about/howtocite.php

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Study IDST001069
Study TitleEvaluation of Seryl-leucine core 1 O-glycosylated peptide (SLC1G) in TB patient urine
Study SummaryPrevious work detected an uncharacterized urine metabolite with a molecular mass of 874.3547 Da that showed promise as a biomarker for successful TB treatment. Using mass spectrometry combined with enzymatic digestions, the metabolite was structurally characterized as a seryl-leucine core 1 O-glycosylated peptide (SLC1G) of human origin. Examination of SLC1G in urine revealed a significant abundance increase in individuals with active TB versus their household contacts and healthy controls. Moreover, differential decreases in SLC1G levels were observed by week-one in TB patients during successful treatment versus those that failed treatment. The SLC1G levels also associated with clinical parameters used to measure bacterial burden (GeneXpert) and inflammation (PET-CT). These results demonstrate the importance of metabolite identification and provide strong evidence for applying SLC1G as a biomarker of TB treatment response.
Institute
Colorado State University
Last NameFitzgerald
First NameBryna
Address3185 Rampart Rd
Emailblfitz@colostate.edu
Phone9704918905
Submit Date2018-10-07
Raw Data AvailableYes
Raw Data File Type(s)d
Analysis Type DetailLC-MS
Release Date2018-12-11
Release Version1
Bryna Fitzgerald Bryna Fitzgerald
https://dx.doi.org/10.21228/M8496H
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR000716
Project DOI:doi: 10.21228/M8496H
Project Title:Evaluation of TB Treatment Response Biomarkers
Project Type:Directed MS analysis
Project Summary:Directed MS analysis of promising treatment response biomarkers in TB patient urine.
Institute:Colorado State University
Department:Department of Microbiology, Immunology, and Pathology
Laboratory:Belisle
Last Name:Fitzgerald
First Name:Bryna
Address:3185 Rampart Rd, Fort Collins, CO, 80521, USA
Email:blfitz@colostate.edu
Phone:9704918905
Funding Source:NIH U01 AI-115619

Subject:

Subject ID:SU001113
Subject Type:Human
Subject Species:Homo sapiens
Taxonomy ID:9606
Species Group:Mammals

Factors:

Subject type: Human; Subject species: Homo sapiens (Factor headings shown in green)

mb_sample_id local_sample_id Sample Type
SA07211249_417599Cure
SA07211349_452751Cure
SA07211452_417241Cure
SA07211549_417420Cure
SA07211649_417104Cure
SA07211754_417397Cure
SA07211853_452557Cure
SA07211952_417306Cure
SA07212049_417197Cure
SA07212152_417612Cure
SA07212270_452598Cure
SA07212370_452879Cure
SA07212454_453981Cure
SA07212553_417432Cure
SA07212653_417276Cure
SA07212753_452177Cure
SA07212852_453273Cure
SA07212953_417231Cure
SA07213052_417327Cure
SA07213142_417730Cure
SA0721324_413165Cure
SA0721334_413529Cure
SA0721344_415983Cure
SA0721354_412676Cure
SA0721364_412467Cure
SA07213754_452300Cure
SA07213854_417543Cure
SA07213954_417526Cure
SA07214041_416680Cure
SA07214141_416839Cure
SA07214242_417082Cure
SA07214342_417298Cure
SA07214470_454358Cure
SA07214570_452497Cure
SA07214642_416647Cure
SA07214741_417796Cure
SA07214841_417812Cure
SA07214941_452528Cure
SA07215042_452621Cure
SA07215170_453399Cure
SA072152133_6017982Cure
SA072153133_6015609Cure
SA072154133_6015265Cure
SA07215584_450359Cure
SA07215699_450530Cure
SA07215772_452579Cure
SA07215877_454840Cure
SA07215999_455509Cure
SA072160133_6015125Cure
SA07216184_454074Cure
SA0721629_413423Cure
SA0721639_414448Cure
SA0721649_416315Cure
SA0721659_413209Cure
SA0721669_413017Cure
SA07216784_454302Cure
SA07216884_454456Cure
SA07216984_454731Cure
SA07217099_455537Cure
SA07217199_6016048Cure
SA07217272_452697Cure
SA07217372_452708Cure
SA07217472_453409Cure
SA072175144_6016655Cure
SA072176144_6016764Cure
SA072177144_6019586Cure
SA072178144_6017656Cure
SA072179144_6017147Cure
SA07218072_454467Cure
SA07218176_452740Cure
SA07218277_453331Cure
SA07218377_453575Cure
SA07218477_453869Cure
SA07218577_453178Cure
SA07218676_454831Cure
SA07218776_453251Cure
SA07218876_453628Cure
SA07218976_453992Cure
SA07219099_450109Cure
SA07219143_416824Fail
SA07219243_452641Fail
SA07219343_417332Fail
SA07219443_416760Fail
SA07219543_416684Fail
SA07219619_415454Fail
SA072197169_6020182Fail
SA072198169_6018329Fail
SA072199169_6017991Fail
SA072200169_6017639Fail
SA07220119_413660Fail
SA07220219_413693Fail
SA07220321_413701Fail
SA07220419_416777Fail
SA07220519_414721Fail
SA072206169_6017465Fail
SA072207168_6020172Fail
SA072208163_6018193Fail
SA072209163_6017645Fail
SA072210163_6017429Fail
SA072211163_6017331Fail
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Collection:

Collection ID:CO001107
Collection Summary:Urine was collected and frozen at -20 for storage. Prior to analysis, urine was thawed and centrifuged to remove particulates.
Sample Type:Urine

Treatment:

Treatment ID:TR001127
Treatment Summary:Urine was analyzed by LC-MS

Sample Preparation:

Sampleprep ID:SP001120
Sampleprep Summary:Urine was thawed on ice and centrifuged to remove particulates prior to analysis.

Combined analysis:

Analysis ID AN001750 AN001751
Chromatography ID CH001235 CH001235
MS ID MS001618 MS001619
Analysis type MS MS
Chromatography type Reversed phase Reversed phase
Chromatography system Agilent 1200 Agilent 1200
Column Atlantis T3 reverse-phase C18 (150 x 2.1mm,3.5um) Atlantis T3 reverse-phase C18 (150 x 2.1mm,3.5um)
MS Type ESI ESI
MS instrument type TOF QTOF
MS instrument name Agilent 6230 TOF Agilent 6520 QTOF
Ion Mode POSITIVE POSITIVE
Units counts counts

Chromatography:

Chromatography ID:CH001235
Instrument Name:Agilent 1200
Column Name:Atlantis T3 reverse-phase C18 (150 x 2.1mm,3.5um)
Column Temperature:30
Flow Gradient:100% Solvent A to 90% Solvent B
Flow Rate:0.25 ml/min
Solvent A:100% water; 0.1% formic acid
Solvent B:100% methanol; 0.1% formic acid
Chromatography Type:Reversed phase

MS:

MS ID:MS001618
Analysis ID:AN001750
Instrument Name:Agilent 6230 TOF
Instrument Type:TOF
MS Type:ESI
Ion Mode:POSITIVE
Capillary Voltage:2000 V
Dry Gas Flow:11 L/min
Fragment Voltage:120 V
Nebulizer:40 psi
Octpole Voltage:750 V
Skimmer Voltage:60 V
Analysis Protocol File:SLC1G_Methods
  
MS ID:MS001619
Analysis ID:AN001751
Instrument Name:Agilent 6520 QTOF
Instrument Type:QTOF
MS Type:ESI
Ion Mode:POSITIVE
Capillary Voltage:2000 V
Collision Energy:10 V
Dry Gas Flow:8 L/min
Fragment Voltage:120 V
Nebulizer:45 psi
Octpole Voltage:750 V
Scanning Cycle:1.2 spectra/sec
Scanning Range:100-1700 m/z
Skimmer Voltage:60 V
Analysis Protocol File:SLC1G_Methods
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