Summary of Study ST002807

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 PR001754. The data can be accessed directly via it's Project DOI: 10.21228/M8071P 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.

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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.
Institute
Muséum Nationale d'Histoire Naturelle
Last NameMarie
First NameBenjamin
Address12 rue Buffon 75005 Paris
Emailbmarie@mnhn.fr
Phone+33140793212
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
https://dx.doi.org/10.21228/M8071P
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Factors:

Subject type: Other organism; Subject species: Biofilm microbial community (Factor headings shown in green)

mb_sample_id local_sample_id Sampling day Experimental group Cobalt concentration
SA30095120220202_C_M1a_1_1_5820 a control
SA30095220220202_C_M3b_6_1_5870 a control
SA30095320220202_C_M3a_5_1_5860 a control
SA30095420220202_C_M1b_2_1_5830 a control
SA30095520220202_C_M2a_3_1_5840 a control
SA30095620220202_C_M2b_4_1_5850 a control
SA30095720220202_B3_1j_M2_12_1_5941 b 0
SA30095820220202_B3_1j_M1_11_1_5931 b 0
SA30095920220202_B2_1j_M1_9_1_5911 b 0
SA30096020220202_B2_1j_M2_10_1_5921 b 0
SA30096120220202_B1_1j_M1_7_1_5891 b 0
SA30096220220202_B1_1j_M2_8_1_5901 b 0
SA30096320220202_B4_1j_M1_13_1_5961 e 1 x 10-7
SA30096420220202_B5_1j_M1_15_1_5981 e 1 x 10-7
SA30096520220202_B6_1j_M2_18_1_6011 e 1 x 10-7
SA30096620220202_B6_1j_M1_17_1_6001 e 1 x 10-7
SA30096720220202_B5_1j_M2_16_1_5991 e 1 x 10-7
SA30096820220202_B4_1j_M2_14_1_5971 e 1 x 10-7
SA30096920220202_B7_1j_M1_19_1_6031 h 1 x 10-6
SA30097020220202_B7_1j_M2_20_1_6041 h 1 x 10-6
SA30097120220202_B9_1j_M2_24_1_6081 h 1 x 10-6
SA30097220220202_B9_1j_M1_23_1_6071 h 1 x 10-6
SA30097320220202_B8_1j_M1_21_1_6051 h 1 x 10-6
SA30097420220202_B8_1j_M2_22_1_6061 h 1 x 10-6
SA30097520220202_B12_1j_M1_29_1_6141 k 5 x 10-6
SA30097620220202_B11_1j_M2_28_1_6131 k 5 x 10-6
SA30097720220202_B11_1j_M1_27_1_6121 k 5 x 10-6
SA30097820220202_B12_1j_M2_30_1_6151 k 5 x 10-6
SA30097920220202_B10_1j_M1_25_1_6101 k 5 x 10-6
SA30098020220202_B10_1j_M2_26_1_6111 k 5 x 10-6
SA30098120220202_B15_1j_M1_35_1_6211 n 1 x 10-5
SA30098220220202_B13_1j_M1_31_1_6171 n 1 x 10-5
SA30098320220202_B15_1j_M2_36_1_6221 n 1 x 10-5
SA30098420220202_B14_1j_M1_33_1_6191 n 1 x 10-5
SA30098520220202_B13_1j_M2_32_1_6181 n 1 x 10-5
SA30098620220202_B14_1j_M2_34_1_6201 n 1 x 10-5
SA30098720220202_B1_3j_M1_37_1_6243 c 0
SA30098820220202_B3_3j_M2_42_1_6293 c 0
SA30098920220202_B3_3j_M1_41_1_6283 c 0
SA30099020220202_B2_3j_M2_40_1_6273 c 0
SA30099120220202_B2_3j_M1_39_1_6263 c 0
SA30099220220202_B1_3j_M2_38_1_6253 c 0
SA30099320220202_B6_3j_M1_47_1_6353 f 1 x 10-7
SA30099420220202_B4_3j_M1_43_1_6313 f 1 x 10-7
SA30099520220202_B6_3j_M2_48_1_6363 f 1 x 10-7
SA30099620220202_B4_3j_M2_44_1_6323 f 1 x 10-7
SA30099720220202_B5_3j_M1_45_1_6333 f 1 x 10-7
SA30099820220202_B5_3j_M2_46_1_6343 f 1 x 10-7
SA30099920220202_B9_3j_M2_54_1_6433 i 1 x 10-6
SA30100020220202_B9_3j_M1_53_1_6423 i 1 x 10-6
SA30100120220202_B7_3j_M1_49_1_6383 i 1 x 10-6
SA30100220220202_B7_3j_M2_50_1_6393 i 1 x 10-6
SA30100320220202_B8_3j_M2_52_1_6413 i 1 x 10-6
SA30100420220202_B8_3j_M1_51_1_6403 i 1 x 10-6
SA30100520220202_B10_3j_M1_55_1_6453 l 5 x 10-6
SA30100620220202_B10_3j_M2_56_1_6463 l 5 x 10-6
SA30100720220202_B12_3j_M2_60_1_6503 l 5 x 10-6
SA30100820220202_B12_3j_M1_59_1_6493 l 5 x 10-6
SA30100920220202_B11_3j_M2_58_1_6483 l 5 x 10-6
SA30101020220202_B11_3j_M1_57_1_6473 l 5 x 10-6
SA30101120220202_B14_3j_M1_63_1_6543 o 1 x 10-5
SA30101220220202_B15_3j_M2_66_1_6573 o 1 x 10-5
SA30101320220202_B14_3j_M2_64_1_6553 o 1 x 10-5
SA30101420220202_B15_3j_M1_65_1_6563 o 1 x 10-5
SA30101520220202_B13_3j_M1_61_1_6523 o 1 x 10-5
SA30101620220202_B13_3j_M2_62_1_6533 o 1 x 10-5
SA30101720220202_B3_7j_M1_71_1_6637 d 0
SA30101820220202_B1_7j_M2_68_1_6607 d 0
SA30101920220202_B2_7j_M1_69_1_6617 d 0
SA30102020220202_B2_7j_M2_70_1_6627 d 0
SA30102120220202_B3_7j_M2_72_1_6647 d 0
SA30102220220202_B1_7j_M1_67_1_6597 d 0
SA30102320220202_B4_7j_M2_74_1_6677 g 1 x 10-7
SA30102420220202_B5_7j_M1_75_1_6687 g 1 x 10-7
SA30102520220202_B5_7j_M2_76_1_6697 g 1 x 10-7
SA30102620220202_B6_7j_M1_77_1_6707 g 1 x 10-7
SA30102720220202_B6_7j_M2_78_1_6717 g 1 x 10-7
SA30102820220202_B4_7j_M1_73_1_6667 g 1 x 10-7
SA30102920220202_B7_7j_M2_80_1_6747 j 1 x 10-6
SA30103020220202_B7_7j_M1_79_1_6737 j 1 x 10-6
SA30103120220202_B8_7j_M1_81_1_6757 j 1 x 10-6
SA30103220220202_B8_7j_M2_82_1_6767 j 1 x 10-6
SA30103320220202_B9_7j_M2_84_1_6787 j 1 x 10-6
SA30103420220202_B9_7j_M1_83_1_6777 j 1 x 10-6
SA30103520220202_B11_7j_M1_87_1_6827 m 5 x 10-6
SA30103620220202_B12_7j_M2_90_1_6857 m 5 x 10-6
SA30103720220202_B10_7j_M1_85_1_6807 m 5 x 10-6
SA30103820220202_B10_7j_M2_86_1_6817 m 5 x 10-6
SA30103920220202_B12_7j_M1_89_1_6847 m 5 x 10-6
SA30104020220202_B11_7j_M2_88_1_6837 m 5 x 10-6
SA30104120220202_B15_7j_M2_96_1_6927 p 1 x 10-5
SA30104220220202_B15_7j_M1_95_1_6917 p 1 x 10-5
SA30104320220202_B13_7j_M2_92_1_6887 p 1 x 10-5
SA30104420220202_B13_7j_M1_91_1_6877 p 1 x 10-5
SA30104520220202_B14_7j_M1_93_1_6897 p 1 x 10-5
SA30104620220202_B14_7j_M2_94_1_6907 p 1 x 10-5
Showing results 1 to 96 of 96
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