Summary of Study ST000572

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 PR000420. The data can be accessed directly via it's Project DOI: 10.21228/M8RS3S 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.

Perform statistical analysis  |  Show all samples  |  Show named metabolites  |  Download named metabolite data  |  Perform analysis on untargeted data  
Download mwTab file (text)   |  Download mwTab file(JSON)   |  Download data files (Contains raw data)
Study IDST000572
Study TitleMetabolomics of Shark Bay stromatolites
Study Typecomparison of two microbial mat types
Study Summarymicrobial mats were collected from Shark Bay, Western Australia and we want to compare two mat types from this site.
Institute
University of Florida
DepartmentSECIM
LaboratoryJamie foster
Last NameFoster
First NameJamie
AddressSpace Life Science Lab 505 Odyssey Way, merritt Island, FL 32953
Emailjfoster@ufl.edu
Phone321-525-1047
Submit Date2017-01-11
Num Groups3
Total Subjects30
Study Comments3 groups - three different microbial mat types 30 samples - 10 samples per group
Raw Data AvailableYes
Raw Data File Type(s)mzXML
Analysis Type DetailLC-MS
Release Date2019-01-22
Release Version1
Jamie Foster Jamie Foster
https://dx.doi.org/10.21228/M8RS3S
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR000420
Project DOI:doi: 10.21228/M8RS3S
Project Title:Metabolomics of Shark Bay stromatolites
Project Type:global metabolomics
Project Summary:screening two stromatolite forming mats for global profile of metabolites
Institute:University of Florida
Department:Microbiology and Cell Science
Laboratory:Jamie Foster
Last Name:Foster
First Name:Jamie
Address:Space Life Science Lab, 505 Odyssey Way, Merritt Island, FL 32953
Email:jfoster@ufl.edu
Phone:321-525-1047
Funding Source:NASA Astrobiology grant project 117514

Subject:

Subject ID:SU000594
Subject Type:bacterial microbial community
Subject Species:Mixed
Species Group:Microorganism

Factors:

Subject type: bacterial microbial community; Subject species: Mixed (Factor headings shown in green)

mb_sample_id local_sample_id microbial community type
SA029957SCM8colloform stromatolite forming mat
SA029958SCM10colloform stromatolite forming mat
SA029959SCM2colloform stromatolite forming mat
SA029960SCM1colloform stromatolite forming mat
SA029961SCM7colloform stromatolite forming mat
SA029962SCM9colloform stromatolite forming mat
SA029963SCM6colloform stromatolite forming mat
SA029964SCM4colloform stromatolite forming mat
SA029965SCM5colloform stromatolite forming mat
SA029966SCM3colloform stromatolite forming mat
SA029967SPM5pustular stromatolite forming mat
SA029968SPM4pustular stromatolite forming mat
SA029969SPM1pustular stromatolite forming mat
SA029970SPM6pustular stromatolite forming mat
SA029971SPM3pustular stromatolite forming mat
SA029972SPM2pustular stromatolite forming mat
SA029973SPM10pustular stromatolite forming mat
SA029974SPM9pustular stromatolite forming mat
SA029975SPM8pustular stromatolite forming mat
SA029976SPM7pustular stromatolite forming mat
SA029977SSM6smooth stromatolite forming mat
SA029978SSM3smooth stromatolite forming mat
SA029979SSM2smooth stromatolite forming mat
SA029980SSM1smooth stromatolite forming mat
SA029981SSM4smooth stromatolite forming mat
SA029982SSM5smooth stromatolite forming mat
SA029983SSM9smooth stromatolite forming mat
SA029984SSM8smooth stromatolite forming mat
SA029985SSM7smooth stromatolite forming mat
SA029986SSM10smooth stromatolite forming mat
Showing results 1 to 30 of 30

Collection:

Collection ID:CO000588
Collection Summary:field collected samples from Shark Bay, Australia
Collection Protocol Filename:Shark Bay microbial mats
Collection Protocol Comments:collected using sterile scalpel and placed immediatelyl into RNAlater - frozen at -20C in field (2 weeks) - back in lab stored at -80C
Sample Type:microbial community - biofilm
Collection Location:Hamelin Pool, Shark Bay Western Australia
Collection Time:12PM
Storage Conditions:RNALater
Collection Vials:nalgene container

Treatment:

Treatment ID:TR000608
Treatment Summary:no treatment; natural field collected samples

Sample Preparation:

Sampleprep ID:SP000601
Sampleprep Summary:None
Sampleprep Protocol Filename:Metabolomics_LCMSProtocol_plasma.pdf

Combined analysis:

Analysis ID AN000881 AN000882
Analysis type MS MS
Chromatography type Reversed phase Reversed phase
Chromatography system Thermo Scientific-Dionex Ultimate 3000 Thermo Scientific-Dionex Ultimate 3000
Column ACE Excel 2 C18-PFP (100 x 2.1mm, 2um) ACE Excel 2 C18-PFP (100 x 2.1mm, 2um)
MS Type ESI ESI
MS instrument type Orbitrap Orbitrap
MS instrument name Thermo Q Exactive Orbitrap Thermo Q Exactive Orbitrap
Ion Mode POSITIVE NEGATIVE
Units peak height peak height

Chromatography:

Chromatography ID:CH000625
Methods Filename:Metabolomics_LCMSProtocol_plasma.pdf
Instrument Name:Thermo Scientific-Dionex Ultimate 3000
Column Name:ACE Excel 2 C18-PFP (100 x 2.1mm, 2um)
Flow Rate:0.350mL/min-0.600mL/min
Solvent A:100% water; 0.1% formic acid
Solvent B:100% acetonitrile
Chromatography Type:Reversed phase

MS:

MS ID:MS000782
Analysis ID:AN000881
Instrument Name:Thermo Q Exactive Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
Ion Mode:POSITIVE
Analysis Protocol File:Metabolomics_LCMSProtocol_plasma.pdf
  
MS ID:MS000783
Analysis ID:AN000882
Instrument Name:Thermo Q Exactive Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
Ion Mode:NEGATIVE
Analysis Protocol File:Metabolomics_LCMSProtocol_plasma.pdf
  logo