Summary of Study ST001512
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 PR001019. The data can be accessed directly via it's Project DOI: 10.21228/M80408 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 | ST001512 |
| Study Title | Diel investments in phytoplankton metabolite production influenced by associated heterotrophic bacteria |
| Study Type | Incubation experiment |
| Study Summary | Organic substrate transfer between photoautotrophic and heterotrophic microbes in the surface ocean is a central but poorly understood process in the global carbon cycle. This study developed a co-culture system of marine diatom Thalassiosira pseudonana and heterotrophic bacterium Ruegeria pomeroyi, and addressed diel changes in phytoplankton endometabolite production using nuclear magnetic resonance (NMR) and bacterial metabolite consumption using gene expression. Here we deposit data for NMR analysis from the study. Samples were collected every 6 hours over two days under a diel light cycle. During the course of the study, we observed an increase in some phytoplankton endometabolites presumably due to the effects of the associated bacteria. We introduced an additional experiment and tested this possibility by comparing phytoplankton endometabolite accumulation between axenic treatments and bacteria coculture treatments. |
| Institute | University of Georgia |
| Department | Department of Marine Sciences; Complex Carbohydrate Research Center |
| Laboratory | Moran Lab; Edison Lab |
| Last Name | Uchimiya |
| First Name | Mario |
| Address | 315 Riverbend Rd, Athens, GA 30602 |
| mario.uchimiya@uga.edu | |
| Phone | (706) 542-8387 |
| Submit Date | 2020-10-18 |
| Raw Data Available | Yes |
| Analysis Type Detail | NMR |
| Release Date | 2020-11-02 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Sample Preparation:
| Sampleprep ID: | SP001594 |
| Sampleprep Summary: | Phytoplankton cells were removed from filters using a sonicator SLPe (Branson) in ultra-pure water (Millipore), concentrated by a lyophilizer (Labconco), and kept -80oC until further processing. The samples were mixed with 600 µL of 30 mmol L-1 sodium phosphate buffer (18 mmol L-1 NaHPO4, 12 mmol L-1, pH 7.4) and an internal standard of 2,2-dimethyl-2-silapentane-5-sulfonate-d6 (DSS, 1 mmol L-1), vortexed at 4oC for 5 minutes, and centrifuged at 20,800 rcf using an ultracentrifuge (Eppendorf) at 4oC for 10 minutes, and supernatants were transferred to 5-mm NMR tubes (Bruker). For the test of model prediction experiment, 300 µL of supernatants were further diluted with 250 µL of the buffer and transferred to NMR tubes. All the sample preparation steps were done on ice or in a cold room (4oC). |
| Sampleprep Protocol Filename: | uchimiya_20201018_4_Sample_preparation_protocol_UGA_phytoplankton_Oct2020.docx |
| Sampleprep Protocol Comments: | Sample preparation protocol is in 4_Sample preparation protocol_UGA_phytoplankton_Oct2020.docx |
| Processing Storage Conditions: | -80℃ |
| Extraction Method: | Water |
| Extract Enrichment: | Lyophilization |
| Extract Storage: | -80℃ |
| Sample Resuspension: | Sodium phosphate buffer |
