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.
Study ID | ST000572 |
Study Title | Metabolomics of Shark Bay stromatolites |
Study Type | comparison of two microbial mat types |
Study Summary | microbial mats were collected from Shark Bay, Western Australia and we want to compare two mat types from this site. |
Institute | University of Florida |
Department | SECIM |
Laboratory | Jamie foster |
Last Name | Foster |
First Name | Jamie |
Address | Space Life Science Lab 505 Odyssey Way, merritt Island, FL 32953 |
jfoster@ufl.edu | |
Phone | 321-525-1047 |
Submit Date | 2017-01-11 |
Num Groups | 3 |
Total Subjects | 30 |
Study Comments | 3 groups - three different microbial mat types 30 samples - 10 samples per group |
Raw Data Available | Yes |
Raw Data File Type(s) | mzXML |
Analysis Type Detail | LC-MS |
Release Date | 2019-01-22 |
Release Version | 1 |
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: | Other |
Factors:
Subject type: bacterial microbial community; Subject species: Mixed (Factor headings shown in green)
mb_sample_id | local_sample_id | microbial community type |
---|---|---|
SA029957 | SCM8 | colloform stromatolite forming mat |
SA029958 | SCM10 | colloform stromatolite forming mat |
SA029959 | SCM2 | colloform stromatolite forming mat |
SA029960 | SCM1 | colloform stromatolite forming mat |
SA029961 | SCM7 | colloform stromatolite forming mat |
SA029962 | SCM9 | colloform stromatolite forming mat |
SA029963 | SCM6 | colloform stromatolite forming mat |
SA029964 | SCM4 | colloform stromatolite forming mat |
SA029965 | SCM5 | colloform stromatolite forming mat |
SA029966 | SCM3 | colloform stromatolite forming mat |
SA029967 | SPM5 | pustular stromatolite forming mat |
SA029968 | SPM4 | pustular stromatolite forming mat |
SA029969 | SPM1 | pustular stromatolite forming mat |
SA029970 | SPM6 | pustular stromatolite forming mat |
SA029971 | SPM3 | pustular stromatolite forming mat |
SA029972 | SPM2 | pustular stromatolite forming mat |
SA029973 | SPM10 | pustular stromatolite forming mat |
SA029974 | SPM9 | pustular stromatolite forming mat |
SA029975 | SPM8 | pustular stromatolite forming mat |
SA029976 | SPM7 | pustular stromatolite forming mat |
SA029977 | SSM6 | smooth stromatolite forming mat |
SA029978 | SSM3 | smooth stromatolite forming mat |
SA029979 | SSM2 | smooth stromatolite forming mat |
SA029980 | SSM1 | smooth stromatolite forming mat |
SA029981 | SSM4 | smooth stromatolite forming mat |
SA029982 | SSM5 | smooth stromatolite forming mat |
SA029983 | SSM9 | smooth stromatolite forming mat |
SA029984 | SSM8 | smooth stromatolite forming mat |
SA029985 | SSM7 | smooth stromatolite forming mat |
SA029986 | SSM10 | smooth 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 |