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.

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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

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
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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