Summary of Study ST001166
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 PR000727. The data can be accessed directly via it's Project DOI: 10.21228/M8Q38G This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
Study ID | ST001166 |
Study Title | Physiological and metabolic response of pteropods to ocean acidification (part IV) |
Study Summary | The objective of the study was to examine the physiological and metabolic response of pteropods to ocean acidification treatment. Four treatments were used:high pH, high DO (dissolved oxygen); high pH, low DO; low pH, high DO; low pH, low DO |
Institute | NOAA NWFSC |
Department | CB Division |
Last Name | Nichols |
First Name | Krista |
Address | 1315 East-West Highway Silver Spring, MD 20910 |
krista.nichols@noaa.gov | |
Phone | 206-302-2470 |
Submit Date | 2019-04-05 |
Num Groups | 4 |
Total Subjects | 60 |
Analysis Type Detail | LC-MS |
Release Date | 2019-05-15 |
Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
Project ID: | PR000727 |
Project DOI: | doi: 10.21228/M8Q38G |
Project Title: | GC analysis of crab megalopae and juveniles in response to ocean acidification |
Project Summary: | The objective of the study was to examine the physiological and metabolic response of crab megalopae and juveniles to ocean acidification treatment. |
Institute: | University of California, Davis |
Department: | Genome and Biomedical Sciences Facility |
Laboratory: | WCMC Metabolomics Core |
Last Name: | Fiehn |
First Name: | Oliver |
Address: | 1315 Genome and Biomedical Sciences Facility, 451 Health Sciences Drive, Davis, CA 95616 |
Email: | ofiehn@ucdavis.edu |
Phone: | (530) 754-8258 |
Subject:
Subject ID: | SU001231 |
Subject Type: | Invertebrate |
Subject Species: | Metacarcinus magister |
Taxonomy ID: | 29965 |
Species Group: | Invertebrates |
Factors:
Subject type: Invertebrate; Subject species: Metacarcinus magister (Factor headings shown in green)
mb_sample_id | local_sample_id | pH Treatment | DO Treatment |
---|---|---|---|
SA080628 | M3A2 | High | High |
SA080629 | M3B3 | High | High |
SA080630 | M13A7 | High | High |
SA080631 | M13C2 | High | High |
SA080632 | M13B5 | High | High |
SA080633 | M3D4 | High | High |
SA080634 | M13D4 | High | High |
SA080635 | M3A3 | High | High |
SA080636 | M7D6 | High | High |
SA080637 | M7C5 | High | High |
SA080638 | M7C2 | High | High |
SA080639 | M7B2 | High | High |
SA080640 | M7A6 | High | High |
SA080641 | M13A2 | High | High |
SA080642 | M3C1 | High | High |
SA080643 | M6C6 | High | Low |
SA080644 | M12A1 | High | Low |
SA080645 | M6A1 | High | Low |
SA080646 | M6A2 | High | Low |
SA080647 | M6D4 | High | Low |
SA080648 | M6B3 | High | Low |
SA080649 | M6B7 | High | Low |
SA080650 | M6C7 | High | Low |
SA080651 | M12B2 | High | Low |
SA080652 | M12A2 | High | Low |
SA080653 | M12B3 | High | Low |
SA080654 | M12C2 | High | Low |
SA080655 | M12D4 | High | Low |
SA080656 | M12C6 | High | Low |
SA080657 | M6D2 | High | Low |
SA080658 | M5C1 | Low | High |
SA080659 | M5D1 | Low | High |
SA080660 | M8B1 | Low | High |
SA080661 | M8D4 | Low | High |
SA080662 | M8D6 | Low | High |
SA080663 | M8C1 | Low | High |
SA080664 | M5B6 | Low | High |
SA080665 | M8A5 | Low | High |
SA080666 | M10A6 | Low | High |
SA080667 | M5A1 | Low | High |
SA080668 | M10C3 | Low | High |
SA080669 | M5B5 | Low | High |
SA080670 | M10B1 | Low | High |
SA080671 | M10B4 | Low | High |
SA080672 | M10D7 | Low | High |
SA080673 | M11A2 | Low | Low |
SA080674 | M4A3 | Low | Low |
SA080675 | M11A4 | Low | Low |
SA080676 | M11B2 | Low | Low |
SA080677 | M11D7 | Low | Low |
SA080678 | M11D3 | Low | Low |
SA080679 | M1A7 | Low | Low |
SA080680 | M1C5 | Low | Low |
SA080681 | M4C3 | Low | Low |
SA080682 | M4B6 | Low | Low |
SA080683 | M4D1 | Low | Low |
SA080684 | M4D7 | Low | Low |
SA080685 | M1C7 | Low | Low |
SA080686 | M1D6 | Low | Low |
SA080687 | M4A2 | Low | Low |
Showing results 1 to 60 of 60 |
Collection:
Collection ID: | CO001225 |
Collection Summary: | After completing the required treatment time of 30-33 days, each crab was frozen at -80C and shipped to the West Coast Metabolomics Center. |
Sample Type: | Muscle Tissue |
Treatment:
Treatment ID: | TR001246 |
Treatment Summary: | Four treatments were used:high pH, high DO (dissolved oxygen); high pH, low DO; low pH, high DO; low pH, low DO. |
Sample Preparation:
Sampleprep ID: | SP001239 |
Sampleprep Summary: | Crabs were removed from -80°C. 15 mg of muscle tissue was removed from each crab and placed in a 2 mL eppendorph tube. 2 x 3mm grinding beads were added to each sample. 225 µL of methanol with quality control standards were added to each sample. Samples were ground for 30 seconds at 1500 rpm using a GenoGrinder. 750 µL of methyl-tertbutyl ether (MTBE) was added to each sample. Samples were vortexed for 10 seconds and then shaked at 4°C for 6 minutes. 188 µL of LC-MS grade water was added to each sample. Samples were vortexed for 10 seconds and then centrifuged for 2 minutes at 14,000 rcf. The top, organic layer was split into two 350 µL aliquots, one submitted to lipidomics analysis and one saved for backup. The bottom layer was split into two 125 µL aliquots, one submitted to GC analysis and one saved as a backup. |
Combined analysis:
Analysis ID | AN001928 |
---|---|
Analysis type | MS |
Chromatography type | GC |
Chromatography system | Agilent 7890A |
Column | Restek Rtx-5Sil (30m x 0.25mm,0.25um) |
MS Type | EI |
MS instrument type | GC-TOF |
MS instrument name | Leco Pegasus HT TOF |
Ion Mode | POSITIVE |
Units | Peak Height |
Chromatography:
Chromatography ID: | CH001399 |
Instrument Name: | Agilent 7890A |
Column Name: | Restek Rtx-5Sil (30m x 0.25mm,0.25um) |
Column Temperature: | 50-330 |
Flow Rate: | 1 mL/min |
Injection Temperature: | 50°C ramped to 250°C by 12°C s-1 |
Sample Injection: | 0.5 uL |
Oven Temperature: | 50°C for 1 min, then ramped at 20°C min-1 to 330°C, held constant for 5 min |
Chromatography Type: | GC |
MS:
MS ID: | MS001784 |
Analysis ID: | AN001928 |
Instrument Name: | Leco Pegasus HT TOF |
Instrument Type: | GC-TOF |
MS Type: | EI |
MS Comments: | N/A |
Ion Mode: | POSITIVE |
Ion Source Temperature: | 250°C |
Ionization Energy: | -70 eV |
Dataformat: | .peg, .txt, .cdf |
Resolution Setting: | 17 spectra/sec |
Scanning Range: | 80-500 Da |