Summary of Study ST001726

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 PR001106. The data can be accessed directly via it's Project DOI: 10.21228/M8R395 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 IDST001726
Study TitleLong term metabolomics refrence material
Study Typenmr metabolomics reference material method
Study SummaryDescription of a novel method for the production of stable sustainable long term Biologic reference materials.
Institute
University of Georgia
DepartmentComplex carbohydrate research Center (CCRC)
LaboratoryEdison Lab
Last NameGouveia
First NameGoncalo Jorge Peres
Address550, Apt 4, willow str, apt 4
Emailgoncalog@uga.edu
Phone7063087500
Submit Date2021-03-05
Num Groups2
Total Subjects63
Raw Data AvailableYes
Raw Data File Type(s)ft
Analysis Type DetailNMR
Release Date2021-03-31
Release Version1
Goncalo Jorge Peres Gouveia Goncalo Jorge Peres Gouveia
https://dx.doi.org/10.21228/M8R395
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR001106
Project DOI:doi: 10.21228/M8R395
Project Title:Long-term metabolomics reference material
Project Type:NMR metabolomics reference material
Project Summary:Description of a novel method for the production of stable sustainable long term Biologic reference materials.
Institute:University of Georgia
Department:Microbiology, Biochemistry, Complex Carbohydrate Research Center
Laboratory:Edison Lab
Last Name:Gouveia
First Name:Goncalo Jorge Peres
Address:550, Apt 4, willow str, apt 4
Email:goncalog@uga.edu
Phone:7063087500
Funding Source:NIH Metabolomics Common fund
Contributors:Amanda Shaver, Briana Gaircia, Alison Morse, Erik Andersen, Arthur Edison, Lauren McIntyre

Subject:

Subject ID:SU001803
Subject Type:Bacteria
Subject Species:Escherichia coli
Taxonomy ID:562
Genotype Strain:HT115
Gender:Not applicable
Cell Biosource Or Supplier:CGC - caenorhabditis genetic center - University of Minesota

Factors:

Subject type: Bacteria; Subject species: Escherichia coli (Factor headings shown in green)

mb_sample_id local_sample_id sample_type
SA162388solera_NMR_D2O_44IBAT
SA162389solera_NMR_D2O_49IBAT
SA162390solera_NMR_D2O_144IBAT
SA162391solera_NMR_D2O_3IBAT
SA162392solera_NMR_D2O_97IBAT
SA162393solera_NMR_D2O_92IBAT
SA162394GG_1_5aIBAT_batch1
SA162395GG_1_5bIBAT_batch1
SA162396GG_1_5cIBAT_batch1
SA162397GG_10_3aIBAT_batch10
SA162398GG_10_3bIBAT_batch10
SA162399GG_10_3cIBAT_batch10
SA162400GG_2_6aIBAT_batch2
SA162401GG_2_6bIBAT_batch2
SA162402GG_2_6cIBAT_batch2
SA162403GG_3_7aIBAT_batch3
SA162404GG_3_7cIBAT_batch3
SA162405GG_3_7bIBAT_batch3
SA162406GG_4_8bIBAT_batch4
SA162407GG_4_8aIBAT_batch4
SA162408GG_4_8cIBAT_batch4
SA162409GG_5_9cIBAT_batch5
SA162410GG_5_9bIBAT_batch5
SA162411GG_5_9aIBAT_batch5
SA162412GG_6_10cIBAT_batch6
SA162413GG_6_10bIBAT_batch6
SA162414GG_6_10aIBAT_batch6
SA162415GG_7_11bIBAT_batch7
SA162416GG_7_11aIBAT_batch7
SA162417GG_7_11cIBAT_batch7
SA162418GG_8_1bIBAT_batch8
SA162419GG_8_1aIBAT_batch8
SA162420GG_8_1cIBAT_batch8
SA162421GG_9_2bIBAT_batch9
SA162422GG_9_2cIBAT_batch9
SA162423GG_9_2aIBAT_batch9
SA162465GG_1bindividual batch1
SA162466GG_1cindividual batch1
SA162467GG_1aindividual batch1
SA162468GG_10cindividual batch10
SA162469GG_10bindividual batch10
SA162470GG_10aindividual batch10
SA162471GG_11cindividual batch11
SA162472GG_11aindividual batch11
SA162473GG_11bindividual batch11
SA162474GG_2bindividual batch2
SA162475GG_2cindividual batch2
SA162476GG_2aindividual batch2
SA162477GG_3aindividual batch3
SA162478GG_3cindividual batch3
SA162479GG_3bindividual batch3
SA162480GG_4cindividual batch4
SA162481GG_4bindividual batch4
SA162482GG_4aindividual batch4
SA162483GG_5cindividual batch5
SA162484GG_5bindividual batch5
SA162485GG_5aindividual batch5
SA162486GG_6bindividual batch6
SA162487GG_6aindividual batch6
SA162488GG_6cindividual batch6
SA162489GG_7cindividual batch7
SA162490GG_7bindividual batch7
SA162491GG_7aindividual batch7
SA162492GG_8cindividual batch8
SA162493GG_8bindividual batch8
SA162494GG_8aindividual batch8
SA162495GG_9aindividual batch9
SA162496GG_9bindividual batch9
SA162497GG_9cindividual batch9
SA162424aos185_ga_ms2_NMR_D2O_51PD1074
SA162425aos113_ga_ms1_NMR_D2O_28PD1074
SA162426aos149_ga_ms2_NMR_D2O_9PD1074
SA162427aos188_ga_ms3_NMR_D2O_36PD1074
SA162428aos27_ga_ms3_NMR_D2O_11PD1074
SA162429aos129_ga_ms2_NMR_D2O_6PD1074
SA162430aos167_ga_ms3_NMR_D2O_31PD1074
SA162431aos53_ga_ms2_NMR_D2O_40PD1074
SA162432aos27_ga_ms4_NMR_D2O_52PD1074
SA162433aos43_ga_ms4_NMR_D2O_13PD1074
SA162434aos113_ga_ms1_NMR_D2O_84PD1074
SA162435aos107_ga_bku_NMR_D2O_80PD1074
SA162436aos140_ga_ms3_NMR_D2O_87PD1074
SA162437aos180_ga_ms2_NMR_D2O_89PD1074
SA162438aos196_ga_ms2_NMR_D2O_101PD1074
SA162439aos181_ga_ms2_NMR_D2O_99PD1074
SA162440aos92_ga_ms2_NMR_D2O_77PD1074
SA162441aos87_co_ms3_NMR_D2O_72PD1074
SA162442aos43_ga_bku_NMR_D2O_60PD1074
SA162443aos38_ga_ms2_NMR_D2O_57PD1074
SA162444aos54_ga_bku2_NMR_D2O_61PD1074
SA162445aos69_ga_ms1_NMR_D2O_64PD1074
SA162446aos99_ga_ms2_NMR_D2O_68PD1074
SA162447aos90_ga_ms3_NMR_D2O_66PD1074
SA162448aos41_ga_ms2_NMR_D2O_104PD1074
SA162449aos44_ga_ms2_NMR_D2O_106PD1074
SA162450aos198_ga_ms2_NMR_D2O_137PD1074
SA162451aos196_ga_ms3_NMR_D2O_135PD1074
SA162452aos99_ga_ms2_NMR_D2O_141PD1074
SA162453aos99_ga_ms2_NMR_D2O_26PD1074
SA162454aos54_ga_bku_NMR_D2O_17PD1074
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Collection:

Collection ID:CO001796
Collection Summary:Collection of the two sample types was carried out very differently and further information can be seen in the attached protocols. Both C. elegans and E. coli were grown in bioreactors washed and stored at -80 freezer.
Collection Protocol Filename:goncalog_20210305_191823_PR_CO_BioStat_protocol_ecoli.docx
AOS_Extraction_Protocol_09March2020.docx
Sample Type:C. elegans

Treatment:

Treatment ID:TR001816
Treatment Summary:The groups of samples to be compared are different combinations of multiple samples to reduce variance. Therefore the treatment is just different schema that is described in the puclished manuscript and protocols attached

Sample Preparation:

Sampleprep ID:SP001809
Sampleprep Summary:Two different protocols were used for each of the different organisms. see attached documentation
Sampleprep Protocol Filename:goncalog_20210305_191823_PR_CO_BioStat_protocol_ecoli.docx
AOS_Extraction_Protocol_09March2020.docx
Processing Storage Conditions:-80℃
Extraction Method:water, methanol and IPA extractions
Extract Storage:-80℃
Sample Resuspension:D2O
Sample Derivatization:n/a
Sample Spiking:n/a

Analysis:

Analysis ID:AN002811
Laboratory Name:Edison Lab - Complex Carbohydrate Research Center
Analysis Type:NMR
Acquisition Date:jan-4-2019
Software Version:Bruker - Topspin 4.0.6
Operator Name:Goncalo Gouveia
Detector Type:FT-NMR
Data Format:bruker
Num Factors:24
Num Metabolites:49
Units:peak height

NMR:

NMR ID:NM000201
Analysis ID:AN002811
Instrument Name:800Mhz Avance III HD
Instrument Type:FT-NMR
NMR Experiment Type:1D-1H
NMR Comments:processing parameter and acquisition can be found on the data
Spectrometer Frequency:800
NMR Probe:TCI - cryo-probe
NMR Solvent:D2O
NMR Tube Size:1.7 mm
Shimming Method:TopShim
Pulse Sequence:noesypr1d
Water Suppression:presat
Number Of Scans:128
Dummy Scans:8
Spectral Width:20 ppm
Line Broadening:2
Apodization:Exponential
Baseline Correction Method:Polynomial order 1
Chemical Shift Ref Std:0.00 ppm DSS
Binned Increment:na
Binned Data Protocol File:na
Binned Data Excluded Range:na
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