Summary of Study ST002954

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 PR001837. The data can be accessed directly via it's Project DOI: 10.21228/M88B0T 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.

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Study IDST002954
Study TitleMetabolite flux from temperature-acclimated diatom strains (drawdown experiment)
Study SummaryThe temperature increase occurring in the surface ocean has fundamental implications for physiological rates and processes of marine microbes. Here we asked whether the temperature at which a marine diatom strain is acclimated affects carbon transfer to a co-cultured heterotrophic bacterium. Model systems were established in which the diatom Thalassiosira pseudonana was acclimated for three months at temperatures below (14°C), equal to (20°C), and above (28°C) the temperature of optimal growth, and then inoculated with the heterotrophic bacterium Ruegeria pomeroyi. This deposition is for results obtained from a drawdown experiment of phytoplankton metabolites using R. pomeroyi conducted during this study.
Institute
University of Georgia
LaboratoryMoran Lab, Edison Lab
Last NameUchimiya
First NameMario
Address315 Riverbend Rd, Athens, GA, 30602, USA
Emailmario.uchimiya@uga.edu
Phone‭(706) 542-8387‬
Submit Date2023-10-29
Raw Data AvailableYes
Raw Data File Type(s)fid
Analysis Type DetailNMR
Release Date2023-11-22
Release Version1
Mario Uchimiya Mario Uchimiya
https://dx.doi.org/10.21228/M88B0T
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR001837
Project DOI:doi: 10.21228/M88B0T
Project Title:Metabolite flux from temperature-acclimated diatom strains
Project Summary:The temperature increase occurring in the surface ocean has fundamental implications for physiological rates and processes of marine microbes. Here we asked whether the temperature at which a marine diatom strain is acclimated affects carbon transfer to a co-cultured heterotrophic bacterium. Model systems were established in which the diatom Thalassiosira pseudonana was acclimated for three months at temperatures below (14°C), equal to (20°C), and above (28°C) the temperature of optimal growth, and then inoculated with the heterotrophic bacterium Ruegeria pomeroyi. This Project contains results obtained from main and drawdown experiments.
Institute:University of Georgia
Last Name:Uchimiya
First Name:Mario
Address:315 Riverbend Rd, Athens, GA, 30602, USA
Email:mario.uchimiya@uga.edu
Phone:‭(706) 542-8387‬
Project Comments:See also Metabolomics Workbench_UGA_temp_Oct2023_drawdown.docx for details about this deposition.

Subject:

Subject ID:SU003067
Subject Type:Plant
Subject Species:Thalassiosira pseudonana
Taxonomy ID:296543
Species Group:Plankton

Factors:

Subject type: Plant; Subject species: Thalassiosira pseudonana (Factor headings shown in green)

mb_sample_id local_sample_id Temperature Time point
SA32183214_T0_214 0
SA32183314_T0_114 0
SA32183414_T0_414 0
SA32183514_T0_314 0
SA32183614_T10_314 10
SA32183714_T10_214 10
SA32183814_T10_414 10
SA32183914_T10_114 10
SA32184020_T0_420 0
SA32184120_T0_120 0
SA32184220_T0_220 0
SA32184320_T0_320 0
SA32184420_T10_120 10
SA32184520_T10_220 10
SA32184620_T10_420 10
SA32184720_T10_320 10
SA32184828_T0_428 0
SA32184928_T0_128 0
SA32185028_T0_328 0
SA32185128_T0_228 0
SA32185228_T10_428 10
SA32185328_T10_128 10
SA32185428_T10_328 10
Showing results 1 to 23 of 23

Collection:

Collection ID:CO003060
Collection Summary:1 mL of subsamples were collected in 1.5-mL tubes at the incubation periods of 0 and 10 hours for NMR analyses.
Collection Protocol Filename:2_Collection protocol_UGA_temp_Oct2023_drawdown.docx
Sample Type:Algae
Storage Conditions:-80℃

Treatment:

Treatment ID:TR003076
Treatment Summary:Axenic cultures (1 L in L1 media, 35 ppt) of the diatom Thalassiosira pseudonana CCMP1335 were grown at different temperatures of 14, 20, and 28°C under 120 µmol photons m-2 s-1 (ULM-500 Light Meter, Walz) and a 16:8 h light:dark cycle (four replicates for each treatment). They were harvested in late exponential growth phase by filtration onto 2.0 µm Isopore filters (1 L) and stored at -20°C for later experimentation. Diatom cells were rinsed from filters into 10 mL sterile L1 media, sonicated to lyse cells for 20 min, and passed through a pre-combusted GF/F filter. R. pomeroyi was inoculated into 2.7 mL of the endometabolome samples (3 x 107 cells mL-1) and grown for 10 h.
Treatment Protocol Filename:3_Treatment protocol_UGA_temp_Oct2023_drawdown.docx

Sample Preparation:

Sampleprep ID:SP003073
Sampleprep Summary:540-µL of subsamples were mixed with 60-µL of a phosphate buffer (30 mmol L-1 phosphate in deuterated water; pH 7.4; 1 mmol L-1 internal standard 2,2-dimethyl-2-silapentane-5-sulfonate) and transferred to NMR tubes. One media-blank sample was also included.
Sampleprep Protocol Filename:4_Sample preparation protocol_UGA_temp_Oct2023_drawdown.docx

Analysis:

Analysis ID:AN004851
Analysis Type:NMR
Analysis Protocol File:5_Analysis protocol_UGA_temp_Oct2023_drawdown.docx
Software Version:TopSpin version 3.5
Num Factors:6
Num Metabolites:16
Units:Intensity

NMR:

NMR ID:NM000268
Analysis ID:AN004851
Instrument Name:AVANCE III HD instrument (Bruker)
Instrument Type:FT-NMR
NMR Experiment Type:2D-1H-13C
Spectrometer Frequency:600 MHz
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