Summary of Study ST003295
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 PR002047. The data can be accessed directly via it's Project DOI: 10.21228/M8152P 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 | ST003295 |
| Study Title | Tracing diversion of waste derived carbon to omega fatty acid: a comparative metabolomics approach |
| Study Type | Untargeted GC-MS metabolomics |
| Study Summary | Thraustochytrids are leading producers of docosahexaenoic acid (DHA); an essential ω-3 fatty acid with several health benefits. In this study, we evaluated the potential of Schizochytrium limacinum SR21 to convert waste streams such as biodiesel derived glycerol, volatile fatty acid, and waste cooking oil (WCO) into DHA. Maximum DHA was obtained for SR21 when cultivated in combination of glucose, glycerol, and acetic acid (AA). Further, GC-MS based comparative metabolomics was performed for twelve combinations of carbon substrates to understand the participating precursors. |
| Institute | Lulea University of Technology |
| Department | Civil, Environment and Natural Research |
| Laboratory | Biochemical Process Engineering Group |
| Last Name | Mariam |
| First Name | Iqra |
| Address | Lulea |
| iqra.mariam@associated.ltu.se | |
| Phone | +46-0730621610 |
| Submit Date | 2024-05-14 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | mzML |
| Analysis Type Detail | GC-MS |
| Release Date | 2025-05-14 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR002047 |
| Project DOI: | doi: 10.21228/M8152P |
| Project Title: | Tracing diversion of waste derived carbon to omega fatty acid: a comparative metabolomics approach |
| Project Type: | Untargeted metabolomics using GC-MS |
| Project Summary: | Thraustochytrids are leading producers of docosahexaenoic acid (DHA); an essential ω-3 fatty acid with several health benefits. In this study, we evaluated the potential of Schizochytrium limacinum SR21 to convert waste streams such as biodiesel derived glycerol, volatile fatty acid, and waste cooking oil into DHA. Maximum DHA was obtained for SR21 when cultivated in combination of glucose, glycerol, and acetic acid. Further, GC-MS based comparative metabolomics was performed for twelve combinations of carbon substrates to understand the participating precursors. |
| Institute: | Lulea University of Technology |
| Department: | Civil, Environment and Natural Research |
| Laboratory: | Biochemical Process Engineering Group |
| Last Name: | Mariam |
| First Name: | Iqra |
| Address: | Lulea |
| Email: | iqra.mariam@associated.ltu.se, alok.kumar.patel@ltu.se |
| Phone: | +46-0730621610 |
| Funding Source: | FORMAS |
| Project Comments: | Funding secured by Dr. Alok Patel. Iqra Mariam is working with him as Postdoctoral Researcher |
| Contributors: | Project Incharge : Dr. Alok Patel |
Subject:
| Subject ID: | SU003415 |
| Subject Type: | Other organism |
| Subject Species: | Aurantiochytrium limacinum |
| Taxonomy ID: | 87102 |
| Species Group: | Other |
Factors:
Subject type: Other organism; Subject species: Aurantiochytrium limacinum (Factor headings shown in green)
| mb_sample_id | local_sample_id | Treatment |
|---|---|---|
| SA357412 | AA_3 | AA |
| SA357413 | AA_2 | AA |
| SA357414 | AA_1 | AA |
| SA357415 | Glu_2 | Glucose |
| SA357416 | Glu_1 | Glucose |
| SA357417 | Glu_3 | Glucose |
| SA357418 | GlcAA_1 | GlucoseAA |
| SA357419 | GlcAA_3 | GlucoseAA |
| SA357420 | GlcAA_2 | GlucoseAA |
| SA357421 | GG_2 | GlucoseGlycerol |
| SA357422 | GG_1 | GlucoseGlycerol |
| SA357423 | GG_3 | GlucoseGlycerol |
| SA357424 | GGAA_2 | GlucoseGlycerolAA |
| SA357425 | GGAA_3 | GlucoseGlycerolAA |
| SA357426 | GGAA_1 | GlucoseGlycerolAA |
| SA357427 | GGWCO_1 | GlucoseGlycerolWCO |
| SA357428 | GGWCO_2 | GlucoseGlycerolWCO |
| SA357429 | GGWCO_3 | GlucoseGlycerolWCO |
| SA357430 | GlcWCO_3 | GlucoseWCO |
| SA357431 | GlcWCO_2 | GlucoseWCO |
| SA357432 | GlcWCO_1 | GlucoseWCO |
| SA357433 | Gly_2 | Glycerol |
| SA357434 | Gly_1 | Glycerol |
| SA357435 | Gly_3 | Glycerol |
| SA357436 | GlyAA_2 | GlycerolAA |
| SA357437 | GlyAA_3 | GlycerolAA |
| SA357438 | GlyAA_1 | GlycerolAA |
| SA357439 | GlyAAWCO_1 | GlycerolAcetateWCO |
| SA357440 | GlyAAWCO_2 | GlycerolAcetateWCO |
| SA357441 | GlyAAWCO_3 | GlycerolAcetateWCO |
| SA357442 | GlyWCO_1 | GlycerolWCO |
| SA357443 | GlyWCO_2 | GlycerolWCO |
| SA357444 | GlyWCO_3 | GlycerolWCO |
| SA357445 | WCO_3 | WCO |
| SA357446 | WCO_2 | WCO |
| SA357447 | WCO_1 | WCO |
| Showing results 1 to 36 of 36 |
Collection:
| Collection ID: | CO003408 |
| Collection Summary: | Cells were harvested after 72 h of cultivation in respective media. Approximately 50 mg of cells were centrifuged at 8000 x g for 10 minutes at 4 ˚C. After centrifugation, supernatant was completely removed from the pellet and cells were immediately quenched in liquid nitrogen. |
| Sample Type: | Cultured cells |
Treatment:
| Treatment ID: | TR003424 |
| Treatment Summary: | Cells were cultivated in 20 g/L of different carbon compositions for 72 h. The C/N ratio was maintained at 10 using yeast extract. |
Sample Preparation:
| Sampleprep ID: | SP003422 |
| Sampleprep Summary: | For extraction of metabolites, the quenched pellets were resuspended in 1 mL of ice-cold solution of methanol/chloroform/water (ratio of 10:3:1) and the cells were disrupted using a sonication bath for 15 minutes[55]. After sonication, the cells were immediately centrifuged at 10,000 x g for 15 minutes at 4 ˚C to eliminate the cell debris. Following centrifugation, the supernatant (~1 mL) was carefully removed and filtered using a 0.2-µm filter, this filtered supernatant was then dried in a continuous nitrogen stream. Eventually, the residue that formed after drying was instantly dissolved in 10 µL of freshly prepared methoxyamine hydrochloride solution (40 mg of methoxyamine hydrochloride salt in 1 mL of pyridine). For the internal standard, we added 13C Sorbitol (50 µg). The samples were then incubated at 30 ˚C for 90 minutes and subsequently, for derivatization of the samples we added 90 µL of N-methyl-N-(trimethylsilyl) trifluoroacetamide in the samples and incubated at 37 ˚C for 30 minutes. Finally, the samples were centrifuged at 14,000 x g for 3 minutes and the supernatant was carefully transferred in glass vials for GC-MS analysis. |
Chromatography:
| Chromatography ID: | CH004091 |
| Instrument Name: | PerkinElmer Clarus 690 GC |
| Column Name: | PerkinElmer Elite-5MS (30m × 0.25mm × 0.25um) |
| Column Temperature: | 250 |
| Flow Gradient: | NA |
| Flow Rate: | NA |
| Solvent A: | NA |
| Solvent B: | NA |
| Chromatography Type: | GC |
Analysis:
| Analysis ID: | AN005396 |
| Analysis Type: | MS |
| Chromatography ID: | CH004091 |
| Num Factors: | 12 |
| Num Metabolites: | 141 |
| Units: | Peak area |
