Summary of Study ST002215
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 PR001415. The data can be accessed directly via it's Project DOI: 10.21228/M8TD74 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 | ST002215 |
| Study Title | Time course GCMS based untargeted metabolomics in the presence of glucose and glycerol |
| Study Summary | Our preliminary analysis identifies that glycerol enhanced DHA accumulation in native isolate Aurantiochytrium limacinum. To evaluate temporal changes in the presence of glycerol, time-course metabolite profiling was done in the presence of glycerol and glucose at three different time-points i.e., 0, 48 and 96 h using GC-MS. We identified nearly 40 metabolites, among which metabolites belonging to pentose phosphate pathway, TCA cycle and amino acid metabolism were significantly differentially regulated which suggests its role in glycerol induced DHA accumulation. |
| Institute | International Centre for Genetic Engineering and Biotechnology |
| Last Name | Jutur |
| First Name | Pannaga Pavan |
| Address | Omics of Algae Lab, 2nd Floor, New Building, ICGEB, Aruna Asaf Ali Marg, New Delhi |
| jppavan@gmail.com | |
| Phone | 01126741358 |
| Submit Date | 2022-06-22 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | mzdata.xml |
| Analysis Type Detail | LC-MS |
| Release Date | 2023-06-27 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR001415 |
| Project DOI: | doi: 10.21228/M8TD74 |
| Project Title: | Multi-omics analysis of Aurantiochytrium limacinum |
| Project Type: | Time course GCMS based untargeted metabolomics in the presence of glucose and glycerol |
| Project Summary: | To evaluate temporal changes in the presence of glycerol, time-course metabolite profiling was done in the presence of glycerol and glucose at three different time-points i.e., 0, 48 and 96 h using GCMS. |
| Institute: | International Centre for Genetic Engineering and Biotechnology |
| Department: | Omics of Algae |
| Last Name: | Jutur |
| First Name: | Pannaga Pavan |
| Address: | Omics of Algae Group, ICGEB campus, Aruna Asaf Ali Marg, New Delhi, Delhi, 110070, India |
| Email: | jppavan@icgeb.res.in |
| Phone: | 26781358 |
Subject:
| Subject ID: | SU002301 |
| Subject Type: | Other organism |
| Subject Species: | Aurantiochytrium limacinum |
Factors:
Subject type: Other organism; Subject species: Aurantiochytrium limacinum (Factor headings shown in green)
| mb_sample_id | local_sample_id | Treatment |
|---|---|---|
| SA211884 | D0_1 | Glucose |
| SA211885 | D4_Glucose_1 | Glucose |
| SA211886 | D4_Glucose_2 | Glucose |
| SA211887 | D4_Glucose_3 | Glucose |
| SA211888 | D2_Glucose_3 | Glucose |
| SA211889 | D2_Glucose_1 | Glucose |
| SA211890 | D0_2 | Glucose |
| SA211891 | D2_Glucose_2 | Glucose |
| SA211892 | D0_3 | Glucose |
| SA211893 | D4_Glycerol_3 | Glycerol |
| SA211894 | D4_Glycerol_2 | Glycerol |
| SA211895 | D2_Glycerol_2 | Glycerol |
| SA211896 | D2_Glycerol_1 | Glycerol |
| SA211897 | D2_Glycerol_3 | Glycerol |
| SA211898 | D4_Glycerol_1 | Glycerol |
| Showing results 1 to 15 of 15 |
Collection:
| Collection ID: | CO002294 |
| Collection Summary: | Marine thraustochytrid Aurantiochytrium limacinum was a native isolate obtained as a generous gift from ICT-Mumbai, India. It was cultivated in YPD medium with the optimized concentration of 3% (w/v) glucose and glycerol at 20 C for a duration of 96 h. |
| Sample Type: | Cultured cells |
Treatment:
| Treatment ID: | TR002313 |
| Treatment Summary: | It was cultivated in YPD medium with the optimized concentration of 3% (w/v) glucose and glycerol at 20 C for a duration of 96 h. |
| Treatment: | Glucose and Glycerol |
Sample Preparation:
| Sampleprep ID: | SP002307 |
| Sampleprep Summary: | Quenched cells were resuspended in 1 mL of ice-cold methanol/ethanol/chloroform(2:6:2), followed by sonication of resuspended cells in sonication bath for 15 min. Later, these samples were centrifuged at 10,000×g for 15 min at 4 °C to get rid of cell debris. The supernatant was filtered using a 0.2-µm filter. One hundred microlitres of supernatant was taken and dried under nitrogen stream. The dried leftover was dissolved in 10 µL of freshly prepared methoxyamine hydrochloride solution (40 mg mL−1 in pyridine) and incubated at 30 °C for 90 min with shaking. To the above solution, 90 µL of N-methyl-N-(trimethylsilyl)trifluoroacetamide was added and incubated at 37 °C for 30 min. The samples were centrifuged at 14,000×g for 3 min, and the supernatant was taken for the GC-MS/MS analysis. |
| Processing Storage Conditions: | Described in summary |
| Sample Derivatization: | MSTFA |
| Sample Spiking: | Nonadecanoic acid |
Combined analysis:
| Analysis ID | AN003624 |
|---|---|
| Analysis type | MS |
| Chromatography type | GC |
| Chromatography system | Agilent 7890A |
| Column | Agilent DB5-MS (30m x 0.25mm, 0.25um) |
| MS Type | EI |
| MS instrument type | Triple quadrupole |
| MS instrument name | Agilent 7890A |
| Ion Mode | POSITIVE |
| Units | Area |
Chromatography:
| Chromatography ID: | CH002679 |
| Instrument Name: | Agilent 7890A |
| Column Name: | Agilent DB5-MS (30m x 0.25mm, 0.25um) |
| Chromatography Type: | GC |
MS:
| MS ID: | MS003375 |
| Analysis ID: | AN003624 |
| Instrument Name: | Agilent 7890A |
| Instrument Type: | Triple quadrupole |
| MS Type: | EI |
| MS Comments: | Mass Hunter |
| Ion Mode: | POSITIVE |
