Summary of Study ST002265

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 PR001447. The data can be accessed directly via it's Project DOI: 10.21228/M8PH7X This work is supported by NIH grant, U2C- DK119886.

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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 IDST002265
Study TitleMulti-omic analysis reveals bacteria may have a role in dental erosion
Study TypeResearch Study
Study SummaryNMR was performed on 11 saliva samples; 5 from participants classified as having dental erosion and 6 from healthy control participants with no dental erosion to assess the differences in metabolome between the two groups. NMR analysis alone revealed no significant differences between the dental erosion and healthy controls. However, bacterial mRNA sequencing of the oral microbiome from the same saliva samples was performed and the bacterial gene expression profiles was correlated to metabolite concentrations in the groups. The dental erosion group had strong correlations between metabolites associated with protein degradation and amino acid fermentation (formate, butyrate, propionate, 5-aminopentanoate, acetate, glycine, phenylalanine, dimethyl sulfone) and increased activity of species including 4 Prevotella species, Actinomyces graevenitzii, Tannerella species, and 2 Selenomas species, to name a few. Whereas in the healthy control group, the only positive correlations between metabolite concentrations and bacterial activity was for urea and 5-aminopentanoate; urea was positively correlated with Aggregatibacter actinomycetecomytans, Lysinibacillus fusiformis, and Veillonella tobetsuensis, and 5-aminopentanoate was positively correlated with 3 different Leptotrichia species, Streptococcus parasanguinis, and 2 Prevotella species.
Institute
King's College London
Last NameCleaver
First NameLeanne
AddressFloor 17, Tower Wing, Guy's Hospital, King's College London, Great Maze Pond
Emailleanne.cleaver@kcl.ac.uk
Phone07464626438
Submit Date2022-08-02
Num Groups2
Total Subjects11
Raw Data AvailableYes
Raw Data File Type(s)fid
Analysis Type DetailNMR
Release Date2022-09-05
Release Version1
Leanne Cleaver Leanne Cleaver
https://dx.doi.org/10.21228/M8PH7X
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR001447
Project DOI:doi: 10.21228/M8PH7X
Project Title:Multi-omic analysis reveals bacteria may have a role in dental erosion
Project Type:Research Study
Project Summary:NMR was performed on 11 saliva samples; 5 from participants classified as having dental erosion and 6 from healthy control participants with no dental erosion to assess the differences in metabolome between the two groups. NMR analysis alone revealed no significant differences between the dental erosion and healthy controls. However, bacterial mRNA sequencing of the oral microbiome from the same saliva samples was performed and the bacterial gene expression profiles was correlated to metabolite concentrations in the groups. The dental erosion group had strong correlations between metabolites associated with protein degradation and amino acid fermentation (formate, butyrate, propionate, 5-aminopentanoate, acetate, glycine, phenylalanine, dimethyl sulfone) and increased activity of species including 4 Prevotella species, Actinomyces graevenitzii, Tannerella species, and 2 Selenomas species, to name a few. Whereas in the healthy control group, the only positive correlations between metabolite concentrations and bacterial activity was for urea and 5-aminopentanoate; urea was positively correlated with Aggregatibacter actinomycetecomytans, Lysinibacillus fusiformis, and Veillonella tobetsuensis, and 5-aminopentanoate was positively correlated with 3 different Leptotrichia species, Streptococcus parasanguinis, and 2 Prevotella species.
Institute:King's College London
Department:Centre for Host Microbiome Interactions
Last Name:Cleaver
First Name:Leanne
Address:Floor 17, Tower Wing, Guy's Hospital, King's College London, Great Maze Pond
Email:leanne.cleaver@kcl.ac.uk
Phone:07464626438

Subject:

Subject ID:SU002351
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
SA217469SE1 2Erosion 1
SA217470SE1 3Erosion 1
SA217471SE1 1Erosion 1
SA217472SE2 3Erosion 2
SA217473SE2 2Erosion 2
SA217474SE2 1Erosion 2
SA217475SE3 3Erosion 3
SA217476SE3 2Erosion 3
SA217477SE3 1Erosion 3
SA217478SE4 2Erosion 4
SA217479SE4 3Erosion 4
SA217480SE4 1Erosion 4
SA217481SE5 3Erosion 5
SA217482SE5 2Erosion 5
SA217483SE5 1Erosion 5
SA217484SH1 3Healthy 1
SA217485SH1 2Healthy 1
SA217486SH1 1Healthy 1
SA217487SH2 2Healthy 2
SA217488SH2 3Healthy 2
SA217489SH2 1Healthy 2
SA217490SH3 3Healthy 3
SA217491SH3 2Healthy 3
SA217492SH3 1Healthy 3
SA217493SH4 3Healthy 4
SA217494SH4 2Healthy 4
SA217495SH4 1Healthy 4
SA217496SH5 2Healthy 5
SA217497SH5 3Healthy 5
SA217498SH5 1Healthy 5
SA217499SH6 3Healthy 6
SA217500SH6 2Healthy 6
SA217501SH6 1Healthy 6
SA217502Sterile SalivaSterile Saliva
Showing results 1 to 34 of 34

Collection:

Collection ID:CO002344
Collection Summary:Participants were asked to chew on a piece of sterile parafilm and expectorate stimulated saliva into a sterile universal tube until approximately 6mls was collected.
Sample Type:Saliva
Storage Conditions:-20℃

Treatment:

Treatment ID:TR002363
Treatment Summary:No treatment

Sample Preparation:

Sampleprep ID:SP002357
Sampleprep Summary:nuclear magnetic resonance (NMR) analysis on thawed saliva aliquots (500 l, n=3 per participant) was performed using a previously published method 11. Briefly, samples were centrifuged for 5 minutes at 13,000 RPM to remove cell debris. The supernatant was removed for NMR analysis and mixed at a ratio of 4:1 with sodium trimethylsilyl propionate (TSP) buffer and added to a 5mm NMR tube (Bruker, Coventry, UK). Spectra were acquired on a 600 MHz NMR spectrophotometer (Bruker). The spectra were processed on TopSpin (Bruker) to correct the phase and baseline, and to calibrate the TSP peak to 0 ppm. The identity of metabolites were assigned and the concentration (mM) obtained from spectra using Chenomx NMR Suite version 8.5 (Chenomix Ltd, Canada).
Processing Storage Conditions:On ice

Analysis:

Analysis ID:AN003700
Laboratory Name:NMR Centre, KCL
Analysis Type:NMR
Num Factors:12
Num Metabolites:16
Units:mM

NMR:

NMR ID:NM000246
Analysis ID:AN003700
Instrument Name:Bruker AVANCE III HD 600 MHz NMR spectrometer
Instrument Type:FT-NMR
NMR Experiment Type:1D-1H
Spectrometer Frequency:600MHz
NMR Probe:TCI (1H/19F)/13C/15N Prodigy Cryoprobe
NMR Solvent:TSP
NMR Tube Size:5mm
Pulse Sequence:PROJECT
Temperature:298K
Number Of Scans:128
Acquisition Time:2.62 s
Relaxation Delay:4 s
Spectral Width:20.8 ppm
Real Data Points:65536 points
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