Summary of Study ST001116
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 PR000747. The data can be accessed directly via it's Project DOI: 10.21228/M8469M 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 | ST001116 |
| Study Title | Variability in metabolomic profiles among unique genotypes of Acropora cervicornis |
| Study Type | intraspecific variability |
| Study Summary | We hypothesized that each of the three genotypes tested would have unique metabolomic profiles. These data increase our basic knowledge of the coral metabolome and represent an important step toward linking genotype, phenotype, and metabolome in reef-building corals. |
| Institute | University of Florida |
| Last Name | Patterson |
| First Name | Joshua |
| Address | Florida Aquarium Center for Conservation, 529 Estuary Shore Lane, Apollo Beach, FL 33572 |
| joshpatterson@ufl.edu | |
| Phone | 8134194917 |
| Submit Date | 2018-12-20 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | fid |
| Analysis Type Detail | NMR |
| Release Date | 2019-07-17 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR000747 |
| Project DOI: | doi: 10.21228/M8469M |
| Project Title: | Variability in metabolomic profiles among unique genotypes of Acropora cervicornis |
| Project Type: | intraspecific variability |
| Project Summary: | This project aims to identify differences in metabolomic profiles among known, unique genotypes of the threatened staghorn coral Acropora cervicornis. Previous studies have shown that the three genotypes selected for study possess unique phenotypes related to growth and thermotolerance. Improved understanding of metabolomic differences could aid in selection of A. cervicornis genotypes for use in restoration. |
| Institute: | University of Florida |
| Department: | Department of Fisheries and Aquatic Sciences |
| Last Name: | Patterson |
| First Name: | Joshua |
| Address: | Florida Aquarium Center for Conservation, 529 Estuary Shore Lane, Apollo Beach, FL 33572 |
| Email: | joshpatterson@ufl.edu |
| Phone: | 8134194917 |
Subject:
| Subject ID: | SU001162 |
| Subject Type: | Invertebrate |
| Subject Species: | Acropora cervicornis |
| Taxonomy ID: | 6130 |
| Genotype Strain: | U25, U41, U44 |
Factors:
Subject type: Invertebrate; Subject species: Acropora cervicornis (Factor headings shown in green)
| mb_sample_id | local_sample_id | Genotype |
|---|---|---|
| SA076201 | U25_B2b | U25 |
| SA076202 | U25_A1b | U25 |
| SA076203 | U25_B1b | U25 |
| SA076204 | U25_A3b | U25 |
| SA076205 | U25_A2b | U25 |
| SA076206 | U41_B1b | U41 |
| SA076207 | U41_B2b | U41 |
| SA076208 | U41_A4b | U41 |
| SA076209 | U41_A3b | U41 |
| SA076210 | U41_A1b | U41 |
| SA076211 | U41_A2b | U41 |
| SA076212 | U44_B2b | U44 |
| SA076213 | U44_B1b | U44 |
| SA076214 | U44_A2b | U44 |
| SA076215 | U44_A1b | U44 |
| SA076216 | U44_A3b | U44 |
| Showing results 1 to 16 of 16 |
Collection:
| Collection ID: | CO001156 |
| Collection Summary: | Coral colonies were brought to the surface intact, and ~3 cm nubbins were clipped from actively growing branch tips. Nubbins were placed in 20 mL scintillation vials containing 10 mL of 100% methanol spiked with a 0.005 mM aminoanthracene standard and immedately placed on ice. Samples were stored in a -20°C freezer overnight, then transported back to the laboratory n ice and again stored in a 20°C freezer overnight prior to extraction. The next day, samples were agitated for 5 minutes, then allowed to settle for one hour in the -20°C freezer. One mL of the sample extract was transferred to clean 1.5 mL microcentrifuge tubes and centrifuged at 20,000 g for 5 minutes. The supernatant was then transferred to a new 1.5 mL microcentrifuge tube and stored in a -80°C freezer until processing. |
| Sample Type: | Tissue and skeleton |
| Storage Conditions: | -80℃ |
Treatment:
| Treatment ID: | TR001176 |
| Treatment Summary: | No treatment was applied; study was conducted on natural metabolomic variation among genotypes |
Sample Preparation:
| Sampleprep ID: | SP001169 |
| Sampleprep Summary: | Corol holobiont extract (in methonol) was added to double distilled water (1:2 v/v of sample to water), then flash freeze lyophilized (Labconco) until dry. Lyophilized dry powder was re-suspended in phosphate buffer in deuterium oxide at pH 7. The final volume for the 1H-NMR samples was 60 μL (in a 1.5 mm O.D. tube) with 90 % (v/v) of deuterated 50 mM sodium phosphate buffer (pH 7) with 2 mM of ethylene diamine tetra-acetic acid (EDTA). The remaining 10 % (v/v) was occupied by an internal standard [5 mM D6-4,4-dimethyl-4-silapentane-1-sulfonic acid (DSS-D6) and 0.2% sodium azide in deuterated environment; Chenomx, Inc.]. |
| Processing Method: | Lyophilization |
| Processing Storage Conditions: | -80℃ |
| Extract Storage: | -80℃ |
Analysis:
| Analysis ID: | AN001812 |
| Laboratory Name: | AMRIS |
| Analysis Type: | NMR |
| Acquisition Date: | 6/27/2017 |
| Software Version: | Topspin 3.2 |
| Operator Name: | Ram Khattri |
| Detector Type: | NMR |
| Num Factors: | 3 |
NMR:
