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MB Sample ID: SA174990
Local Sample ID: | Copepodamide 1 |
Subject ID: | SU001958 |
Subject Type: | Other organism |
Subject Species: | Alexandrium minutum |
Taxonomy ID: | 39455 |
Genotype Strain: | CCMP 113 |
Gender: | Not applicable |
Select appropriate tab below to view additional metadata details:
Subject:
Subject ID: | SU001958 |
Subject Type: | Other organism |
Subject Species: | Alexandrium minutum |
Taxonomy ID: | 39455 |
Genotype Strain: | CCMP 113 |
Gender: | Not applicable |
Factors:
Local Sample ID | MB Sample ID | Factor Level ID | Level Value | Factor Name |
---|---|---|---|---|
Copepodamide 1 | SA174990 | FL021503 | Copepodamide | Treatment |
Collection:
Collection ID: | CO001951 |
Collection Summary: | Alexandrium minutum cells were collected by vacuum filtration onto GF/F filters and quenched with liquid nitrogen. Frozen cells with filters were stored in foil (previously muffled for 3 h at 450 °C) at -80 °C until extraction. |
Collection Protocol ID: | Predator Cues Target Signaling Pathways in Toxic Algal Metabolome_protocol.pdf |
Sample Type: | Algae |
Collection Method: | Filtration and Freeze |
Storage Conditions: | -80℃ |
Treatment:
Treatment ID: | TR001970 |
Treatment Summary: | Twice, first at the start of the experiment and again 24 h later, 1.5 mL of either 0.2 µM copepodamides (copepod cue) in DMSO (treatment, n=20) or DMSO alone (control, n=20) were added aseptically to 300 mL cultures of Alexandrium minutum resulting in a final concentration of 1 nM copepodamides. |
Treatment Protocol Filename: | Predator_Cues_Target_Signaling_Pathways_in_Toxic_Algal_Metabolome_protocol.pdf |
Sample Preparation:
Sampleprep ID: | SP001964 |
Sampleprep Summary: | Non-polar extracts were dissolved at a concentration equivalent to 2.27 x 10^7 A. minutum cells mL-1 in dimethyl sulfoxide d6 (99.9% atom d6-DMSO; Cambridge Isotope Labs) containing 0.1% trimethylsilane (TMS), as internal standard. The media blank extract was prepared in the smallest volume of solvent possible (175 µL). The non-polar extracts were transferred to 3 mm NMR tubes, and analyzed using a Bruker Avance IIIHD 800 MHz NMR spectrometer equipped with a 3 mm triple resonance broadband cryoprobe. Spectra of non-polar extracts were acquired using a simple 1H NMR experiment (Bruker zg30 pulse sequence) with a spectral width of 9.6 kHz centered at 4400.00 Hz over 320 scans. One treatment replicate was lost and therefore its spectrum was not acquired. |
Sampleprep Protocol Filename: | Predator Cues Target Signaling Pathways in Toxic Algal Metabolome_protocol.pdf |
Extract Storage: | -80℃ |
Analysis:
MB Sample ID: | SA174990 |
Analysis ID: | AN003041 |
Analysis Type: | NMR |
Results File: | Preprocessed_binned_nonpolar_NMRmetabolomics.txt |
Units: | area under the curve |
NMR:
NMR ID: | NM000210 |
Analysis ID: | AN003041 |
Instrument Name: | Bruker Avance IIIHD |
Instrument Type: | FT-NMR |
NMR Experiment Type: | 1D-1H |
Spectrometer Frequency: | 800 MHz |
NMR Probe: | 3 mm triple resonance broadband cryoprobe |
NMR Solvent: | Dimethyl sulfoxide d6 (99.9% atom d6-DMSO; Cambridge Isotope Labs) containing 0.1% trimethylsilane |
NMR Tube Size: | 3 mm |
Pulse Sequence: | zg30 |
Number Of Scans: | 320 |
Spectral Width: | 9.6 kHz |
Baseline Correction Method: | Spline |
Binned Increment: | 0.005 ppm |