Summary of Study ST002456
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 PR001584. The data can be accessed directly via it's Project DOI: 10.21228/M8Z71C 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 | ST002456 |
| Study Title | 1H NMR metabolomics applied to assess the metabolic response of Ruditapes philippinarum clams to sea warming and 17-α-ethinylestradiol exposure |
| Study Type | 1H NMR metabolomics to study the effects of warming conditions and exposure to 17-α-ethinylestradiol (EE2) on the polar metabolome of Ruditapes philippinarum clams |
| Study Summary | In this study, a comprehensive untargeted 1H NMR metabolomics strategy was applied to measure the metabolic impact of sea warming, in tandem with exposure to EE2, on Ruditapes philippinarum clams. The clams were exposed to five different EE2 concentrations: 0 (control group), 5, 25, 125 and 625 ng/L; either at 17 °C as control temperature or at 21 °C (representing a 4 °C increase, which corresponds to the worst-case warming scenario). The obtained data added important knowledge, unveiling individual metabolic effects of temperature rise and synergetic effects upon EE2 exposure, and paving the way for the definition of new metabolic markers for the monitoring of environmental stressors. |
| Institute | University of Aveiro |
| Department | CICECO – Aveiro Institute of Materials, Department of Chemistry |
| Laboratory | Metabolomics Group- CICECO |
| Last Name | Rodrigues |
| First Name | Joao A. |
| Address | University of Aveiro, Campus Universitario de Santiago, 3810-193 Aveiro, Portugal |
| joao.e.a.rodrigues@gmail.com | |
| Phone | 00351963481841 |
| Submit Date | 2023-01-26 |
| Num Groups | 10 |
| Total Subjects | 103 |
| Study Comments | This work was developed within the CICECO-Aveiro Institute of Materials project (UIDB/50011/2020, UIDP/50011/2020 & LA/P/0006/2020) financed by national funds through the FCT/MEC (PIDDAC). We are also grateful to the Portuguese National NMR Network (PTNMR), supported by FCT funds as the NMR spectrometer used is part of PTNMR and partially supported by Infrastructure Project No. 022161 (co-financed by FEDER through COMPETE 2020, POCI and PORL, and the FCT through PIDDAC). This work was also financially supported by the project BISPECIAl: BIvalveS under Polluted Environment and ClImate chAnge (POCI-01-0145-FEDER- 028425) funded by FEDER, through COMPETE2020 - Programa Operacional Competitividade e Internacionalização (POCI), and by national funds (OE), through FCT/MCTES. Mónica G. Silva benefited from Research Grant (MSc) (BI/CESAM/0043_2019/POCI-01-0145-FEDER-028425) under the project BISPECIAl: BIvalveS under Polluted Environment and ClImate change PTDC/CTA-AMB/28425/2017 (POCI-01-0145-FEDER-028425). |
| Raw Data Available | Yes |
| Raw Data File Type(s) | fid |
| Analysis Type Detail | NMR |
| Release Date | 2023-10-02 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Sample Preparation:
| Sampleprep ID: | SP002551 |
| Sampleprep Summary: | Metabolite extraction was performed using a water/methanol/chloroform method, as described in (Hines, Oladiran, Bignell et al., 2007). Briefly, the clams´ soft tissue (0.15 g per sample) was ground with a pestle and mortar, in liquid nitrogen, and then transferred to a microtube, followed by the addition of cold methanol (600 µL), ultrapure water (128 µL) and chloroform (300 µL). The mixture was vortexed, left in ice for 10 min and centrifuged (2,500 g, 4 °C, 10 min). The top layer was transferred into a microtube to which chloroform (300 µL) and water (300 µL) were added. The mixture was vortexed and centrifuged (2,500 g, 4 °C, 10 min). The upper layer (aqueous) was transferred into vials, dried in a centrifugal vacuum concentrator (UNIVAP 100H) and stored at −80 °C until NMR analysis. |
| Sampleprep Protocol Filename: | Bivalves_Experimental_Procedure.docx |
| Processing Storage Conditions: | -80℃ |
| Extraction Method: | Water/methanol/chloroform method, as described in (Hines, Oladiran, Bignell et al., 2007) |
| Extract Storage: | -80℃ |
| Sample Resuspension: | The dried polar extracts of clam samples were resuspended in 600 μL of sodium phosphate buffer (0.1 M in D2O, 99.96% D, pH 7.4, containing 0.5 mM sodium salt of 3-(trimethylsilyl)propionic-2,2,3,3-d4 acid, TSP-d4, chemical shift referencing). The mixture was vortexed and centrifuged (16,000 g, 10 min, room temperature) and 550 μL were transferred into 5 mm NMR tubes. |
| Sample Spiking: | 0.5 mM sodium salt of 3-(trimethylsilyl)propionic-2,2,3,3-d4 acid (TSP-d4), as a chemical shift reference. |
