Summary of Study ST001395

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 PR000893. The data can be accessed directly via it's Project DOI: 10.21228/M8869V This work is supported by NIH grant, U2C- DK119886.

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Study IDST001395
Study TitleTime-course experiment of Microchloropsis gaditana cells supplemented with CO2 (part-II)
Study TypeTime-course experiment
Study SummaryExperiments were conducted with Microchloropsis gaditana supplemented with very-low CO2 and high CO2. Sampling was done on the following time points: Day 3, 6 and 9.
Institute
International Centre for Genetic Engineering and Biotechnology
DepartmentIntegrative Biology
LaboratoryOmics of Algae
Last NameJutur
First NamePannaga Pavan
Address2nd Floor, New Building, ICGEB, Aruna Asaf Ali Marg, New Delhi - 110067
Emailjppavan@icgeb.res.in
Phone+91 11 26741358
Submit Date2020-06-08
Study CommentsFormer name of species: Nannochloropsis gaditana Lubián
Raw Data AvailableYes
Raw Data File Type(s)mzdata.xml
Analysis Type DetailLC-MS
Release Date2020-07-05
Release Version1
Pannaga Pavan Jutur Pannaga Pavan Jutur
https://dx.doi.org/10.21228/M8869V
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR000893
Project DOI:doi: 10.21228/M8869V
Project Title:Carbon Partitioning Metabolomic Studies
Project Type:MS Qualitative Analysis
Project Summary:Qualitative metabolomic studies in response to very-low CO2 and high CO2 in Microchloropsis gaditana
Institute:International Centre for Genetic Engineering and Biotechnology
Department:Integrative Biology
Laboratory:Omics of Algae
Last Name:Jutur
First Name:Pannaga Pavan
Address:2nd Floor, New Building, ICGEB, Aruna Asaf Ali Marg, New Delhi - 110067
Email:jppavan@icgeb.res.in
Phone:+91 11 26741358
Project Comments:http://www.icgeb.res.in/

Subject:

Subject ID:SU001469
Subject Type:Other
Subject Species:Nannochloropsis gaditana
Taxonomy ID:72520
Genotype Strain:NIES 2587

Factors:

Subject type: Other; Subject species: Nannochloropsis gaditana (Factor headings shown in green)

mb_sample_id local_sample_id Condition Sample Collection (in Days)
SA113496VLC3_1Control 3
SA113499VLC3_2Control 3
SA113501VLC3_3Control 3
SA113497VLC6_3Control 6
SA113500VLC6_1Control 6
SA113502VLC6_2Control 6
SA113494VLC9_2Control 9
SA113495VLC9_3Control 9
SA113498VLC9_1Control 9
SA113507HC3_1Treatment 3
SA113508HC3_2Treatment 3
SA113509HC3_3Treatment 3
SA113506HC6_3Treatment 6
SA113510HC6_1Treatment 6
SA113511HC6_2Treatment 6
SA113503HC9_1Treatment 9
SA113504HC9_2Treatment 9
SA113505HC9_3Treatment 9
Showing results 1 to 18 of 18

Collection:

Collection ID:CO001464
Collection Summary:Marine microalgae Microchloropsis gaditana NIES 2587 is procured from Microbial Culture Collection, National Institute for Environmental Studies (NIES), Tsukuba, Japan. The strain was grown in minimal medium F/2 (Guillard and Ryther, 1962) under a light regime of 16:8 h and an illumination of 150 µmol m−2 s−1 photosynthetically active radiation (PAR) in a multi-cultivator MC 1000-OD (Photon Systems Instruments, Czech Republic) with a flow rate of 800 mL min-1 with continuous bubbling of air at 24 °C.
Sample Type:Algae

Treatment:

Treatment ID:TR001484
Treatment Summary:Microchloropsis gaditana cells were grown in a Multicultivator in the presence of very-low CO2 (300 ppm) and high CO2 (30,000 ppm) for 9 days with an illumination intensity of 150 uE.
Treatment Compound:CO2

Sample Preparation:

Sampleprep ID:SP001477
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.

Combined analysis:

Analysis ID AN002334
Analysis type MS
Chromatography type GC
Chromatography system Agilent 7890A
Column Agilent HP5-MS (30m x 0.25mm, 0.25 um)
MS Type EI
MS instrument type Triple quadrupole
MS instrument name Agilent 7890A
Ion Mode POSITIVE
Units area

Chromatography:

Chromatography ID:CH001710
Chromatography Summary:GC-triple quadrupole analysis was performed on an HP-5 gas chromatograph with standard liners containing glass wool in split mode (1:5) at 250°C injector temperature. The GC was operated at constant flow of 1 ml/min helium on a 30-m, 0.25-mm i.d., 0.25-μm HP-5 column, a start temperature of 60°C, 3 min isothermal, temperature ramping by 5°C/min to 180°C, 3 min isothermal and finally temperature ramping of 10°C/min to 310°C.
Instrument Name:Agilent 7890A
Column Name:Agilent HP5-MS (30m x 0.25mm, 0.25 um)
Chromatography Type:GC

MS:

MS ID:MS002176
Analysis ID:AN002334
Instrument Name:Agilent 7890A
Instrument Type:Triple quadrupole
MS Type:EI
MS Comments:NA
Ion Mode:POSITIVE
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