Summary of study ST001321

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 PR000898. The data can be accessed directly via it's Project DOI: 10.21228/M8MD6W This work is supported by NIH grant, U2C- DK119886.

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Study IDST001321
Study TitleMetabolomics in Escherichia coli mutant strains
Study SummaryEscherichia coli mutant strains were prepared for metabolomics analysis.
Institute
Manchester Institute of Biotechnology, University of Manchester
DepartmentFaculty of Science, University of Cadiz
Last NameValle
First NameAntonio
AddressAvda. Republica Saharaui s/n
Emailantonio.valle@uca.es
Phone0034 686588926
Submit Date2019-07-09
Analysis Type DetailLC-MS
Release Date2020-03-02
Release Version1
Antonio Valle Antonio Valle
https://dx.doi.org/10.21228/M8MD6W
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:


Project:

Project ID:PR000898
Project DOI:doi: 10.21228/M8MD6W
Project Title:Escherichia coli for succinic acid
Project Summary:Succinic acid is a high-value product with industrial applications. This compound is produced by the bacteria Escherichia coli and its production has been increased by metabolic engineering strategies. In this work, metabolomics is used to analyze the effect of blocking of two competitive pathways of succinic acid to design new metabolic engineering strategies to improve succinic acid production.
Institute:Manchester Institute of Biotechnology, University of Manchester;University of Cadiz
Department:Faculty of Science, University of Cadiz
Last Name:Valle
First Name:Antonio
Address:Avda. Republica Saharaui s/n
Email:antonio.valle@uca.es
Phone:0034 956 012820

Subject:

Subject ID:SU001395
Subject Type:Bacteria
Subject Species:Escherichia coli
Taxonomy ID:562

Factors:

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

mb_sample_id local_sample_id Time
SA095502171213_QC08-
SA095503171213_QC07-
SA095504171212_Blank02-
SA095505171212_QC06-
SA095506171212_QC10-
SA095507171212_QC07-
SA095508171213_QC05-
SA095509171213_QC04-
SA095510171213_QC03-
SA095511171213_QC02-
SA095512171212_QC08-
SA095513171213_QC01-
SA095514171213_QC06-
SA095515171212_QC05-
SA095516171212_QC02-
SA095517171213_Blank01-
SA095518171213_Blank02-
SA095519171213_QC11-
SA095520171212_QC01-
SA095521171212_Blank01-
SA095522171212_QC03-
SA095523171212_QC04-
SA095524171213_QC09-
SA095525171212_QC09-
SA095526171213_QC10-
SA095527171212_QC11-
SA095528171213_3124 h
SA095529171213_2924 h
SA095530171213_4624 h
SA095531171213_5124 h
SA095532171213_5224 h
SA095533171213_5424 h
SA095534171213_4824 h
SA095535171213_4724 h
SA095536171213_3624 h
SA095537171213_3924 h
SA095538171213_3524 h
SA095539171213_2824 h
SA095540171212_1724 h
SA095541171212_1824 h
SA095542171212_2024 h
SA095543171212_1124 h
SA095544171212_1224 h
SA095545171212_1424 h
SA095546171212_2724 h
SA095547171212_0724 h
SA095548171212_0924 h
SA095549171212_0324 h
SA095550171212_2324 h
SA095551171212_0524 h
SA095552171212_0624 h
SA095553171212_2424 h
SA095554171212_0224 h
SA095555171212_0448 h
SA095556171212_1348 h
SA095557171213_4548 h
SA095558171212_1048 h
SA095559171212_0848 h
SA095560171213_4448 h
SA095561171213_5048 h
SA095562171213_4948 h
SA095563171213_5348 h
SA095564171213_4148 h
SA095565171213_3248 h
SA095566171213_3348 h
SA095567171212_2248 h
SA095568171213_3048 h
SA095569171212_2548 h
SA095570171212_0148 h
SA095571171212_2648 h
SA095572171213_3448 h
SA095573171212_2148 h
SA095574171213_4048 h
SA095575171213_4248 h
SA095576171212_1548 h
SA095577171212_1648 h
SA095578171213_3848 h
SA095579171212_1948 h
SA095580171213_3748 h
SA095581171213_4348 h
Showing results 1 to 80 of 80

Collection:

Collection ID:CO001390
Collection Summary:Biomass samples were withdrawn for quenching with 60% methanol.
Sample Type:Bacterial cells

Treatment:

Treatment ID:TR001410
Treatment Summary:The GC/MS data were firstly converted to mzXML format and imported into R. The data were then deconvolved by using eRah package. A total number of 612 features were detected and after removing features with over 20% RSD in the QCs.

Sample Preparation:

Sampleprep ID:SP001403
Sampleprep Summary:Metabolome were extracted from biomass snap-freezing in liquid nitrogen with 80% methanol and centrifuge at 15,000 x g -9, three times. The supernatant was dried with speed vacuum for 12 h and subsequently the samples were derivatized with methoxyamination followed by trimethylsylylation.

Combined analysis:

Analysis ID AN002197
Analysis type MS
Chromatography type
Chromatography system Agilent 7200
Column Agilent VF-5ms (30 m x 0.25 mm, 0.25 µm)
MS Type ESI
MS instrument type GC-TOF
MS instrument name Agilent 7890A
Ion Mode UNSPECIFIED
Units IU

Chromatography:

Chromatography ID:CH001611
Instrument Name:Agilent 7200
Column Name:Agilent VF-5ms (30 m x 0.25 mm, 0.25 µm)

MS:

MS ID:MS002043
Analysis ID:AN002197
Instrument Name:Agilent 7890A
Instrument Type:GC-TOF
MS Type:ESI
MS Comments:The mass spectrum was collected for the range of 50-550 m/z with an acquisition rate of 5 spectra/s and an acquisition time of 200 ms/spectrum
Ion Mode:UNSPECIFIED
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