Summary of Study ST002807

This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench,, where it has been assigned Project ID PR001754. The data can be accessed directly via it's Project DOI: 10.21228/M8071P This work is supported by NIH grant, U2C- DK119886.


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.

Show all samples  
Download mwTab file (text)   |  Download mwTab file(JSON)   |  Download data files (Contains raw data)
Study IDST002807
Study TitleMetabolomic response of river biofilm to cobalt
Study SummaryMetabolites are low molecular-weight molecules produced during cellular metabolism. The global expression of the (meta-)metabolome could thus potentially be used to characterize the exposure of an organism or a community to a specific stressor. Here, the meta-metabolomic fingerprints of mature biofilms were examined after 1, 3 and 7 days of exposure to five concentrations of cobalt (0, 10-7, 10-6, 5 x 10-6 and 10-5 M) in aquatic microcosms. The global changes in meta-metabolomic fingerprints were in plain agreement with those of the other biological parameters studied (cobalt bioaccumulation, biomass, chlorophyll). To better understand the dose-responses of the biofilm meta-metabolome, the untargeted LC-HRMS metabolomic data were further processed using DRomics to build dose-response model curves and to calculate benchmark doses to be aggregated into an empirical cumulative density function. A trend analysis of the dose-response curves suggests the presence of homeostasis (0 - 4.7 x 10-7 M), defense (4.7 x 10-7 – 2.7 x 10-6 M) and damage (higher than 2.7 x 10-6 M) response ranges in biofilms exposed to various cobalt concentrations. The present study demonstrates that the use of untargerted meta-metabolomics represents a promising approach for environmental risk assessment of metals by relating molecular defense and damage mechanisms to contaminant concentration.
Muséum Nationale d'Histoire Naturelle
Last NameMarie
First NameBenjamin
Address12 rue Buffon 75005 Paris
Submit Date2023-08-02
Raw Data AvailableYes
Raw Data File Type(s)mzXML
Analysis Type DetailLC-MS
Release Date2023-08-27
Release Version1
Benjamin Marie Benjamin Marie application/zip

Select appropriate tab below to view additional metadata details:

Sample Preparation:

Sampleprep ID:SP002920
Sampleprep Summary:Briefly, freeze-dried biofilms (1 mg) were diluted in 10 µL of cold 75% methanol acidified with 0.1% formic acid and sonicated on ice during 30 s, at 80 % of the maximum intensity (SONICS Vibra Cell, Newton, CT, USA; 130 Watts, 20 kHz). The homogenates were then centrifuged at 4°C (12,000 g: 10 min). The supernatants were then collected and stored in the dark at -20°C.
Processing Storage Conditions:-20℃