{
"METABOLOMICS WORKBENCH":{"STUDY_ID":"ST002215","ANALYSIS_ID":"AN003624","VERSION":"1","CREATED_ON":"July 11, 2022, 9:35 pm"},

"PROJECT":{"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"},

"STUDY":{"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","EMAIL":"jppavan@gmail.com","PHONE":"01126741358"},

"SUBJECT":{"SUBJECT_TYPE":"Other organism","SUBJECT_SPECIES":"Aurantiochytrium limacinum"},
"SUBJECT_SAMPLE_FACTORS":[
{
"Subject ID":"-",
"Sample ID":"D0_1",
"Factors":{"Treatment":"Glucose"},
"Additional sample data":{"RAW_FILE_NAME":"D0_1","Time point":"0 h"}
},
{
"Subject ID":"-",
"Sample ID":"D0_2",
"Factors":{"Treatment":"Glucose"},
"Additional sample data":{"RAW_FILE_NAME":"D0_2","Time point":"0 h"}
},
{
"Subject ID":"-",
"Sample ID":"D0_3",
"Factors":{"Treatment":"Glucose"},
"Additional sample data":{"RAW_FILE_NAME":"D0_3","Time point":"0 h"}
},
{
"Subject ID":"-",
"Sample ID":"D2_Glucose_1",
"Factors":{"Treatment":"Glucose"},
"Additional sample data":{"RAW_FILE_NAME":"D2_GLU_1","Time point":"48 h"}
},
{
"Subject ID":"-",
"Sample ID":"D2_Glucose_2",
"Factors":{"Treatment":"Glucose"},
"Additional sample data":{"RAW_FILE_NAME":"D2_GLU_2","Time point":"48 h"}
},
{
"Subject ID":"-",
"Sample ID":"D2_Glucose_3",
"Factors":{"Treatment":"Glucose"},
"Additional sample data":{"RAW_FILE_NAME":"D2_GLU_3","Time point":"48 h"}
},
{
"Subject ID":"-",
"Sample ID":"D2_Glycerol_1",
"Factors":{"Treatment":"Glycerol"},
"Additional sample data":{"RAW_FILE_NAME":"D2_GLY_1","Time point":"48 h"}
},
{
"Subject ID":"-",
"Sample ID":"D2_Glycerol_2",
"Factors":{"Treatment":"Glycerol"},
"Additional sample data":{"RAW_FILE_NAME":"D2_GLY_2","Time point":"48 h"}
},
{
"Subject ID":"-",
"Sample ID":"D2_Glycerol_3",
"Factors":{"Treatment":"Glycerol"},
"Additional sample data":{"RAW_FILE_NAME":"D2_GLY_3","Time point":"48 h"}
},
{
"Subject ID":"-",
"Sample ID":"D4_Glucose_1",
"Factors":{"Treatment":"Glucose"},
"Additional sample data":{"RAW_FILE_NAME":"D4_GLU_1","Time point":"96 h"}
},
{
"Subject ID":"-",
"Sample ID":"D4_Glucose_2",
"Factors":{"Treatment":"Glucose"},
"Additional sample data":{"RAW_FILE_NAME":"D4_GLU_2","Time point":"96 h"}
},
{
"Subject ID":"-",
"Sample ID":"D4_Glucose_3",
"Factors":{"Treatment":"Glucose"},
"Additional sample data":{"RAW_FILE_NAME":"D4_GLU_3","Time point":"96 h"}
},
{
"Subject ID":"-",
"Sample ID":"D4_Glycerol_1",
"Factors":{"Treatment":"Glycerol"},
"Additional sample data":{"RAW_FILE_NAME":"D4_GLY_1","Time point":"96 h"}
},
{
"Subject ID":"-",
"Sample ID":"D4_Glycerol_2",
"Factors":{"Treatment":"Glycerol"},
"Additional sample data":{"RAW_FILE_NAME":"D4_GLY_2","Time point":"96 h"}
},
{
"Subject ID":"-",
"Sample ID":"D4_Glycerol_3",
"Factors":{"Treatment":"Glycerol"},
"Additional sample data":{"RAW_FILE_NAME":"D4_GLY_3","Time point":"96 h"}
}
],
"COLLECTION":{"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_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"},

"SAMPLEPREP":{"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"},

"CHROMATOGRAPHY":{"CHROMATOGRAPHY_TYPE":"GC","INSTRUMENT_NAME":"Agilent 7890A","COLUMN_NAME":"Agilent DB5-MS (30m x 0.25mm, 0.25um)"},

"ANALYSIS":{"ANALYSIS_TYPE":"MS"},

"MS":{"INSTRUMENT_NAME":"Agilent 7890A","INSTRUMENT_TYPE":"Triple quadrupole","MS_TYPE":"ESI","ION_MODE":"POSITIVE","MS_COMMENTS":"Mass Hunter"},

"MS_METABOLITE_DATA":{
"Units":"Area",

"Data":[{"Metabolite":"L-Alanine","D0_1":"125584230.9","D0_2":"91734745.32","D0_3":"57885259.73","D2_Glucose_1":"1382455.341","D2_Glucose_2":"2626638.464","D2_Glucose_3":"","D2_Glycerol_1":"1244952.062","D2_Glycerol_2":"3228913.217","D2_Glycerol_3":"2236932.639","D4_Glucose_1":"","D4_Glucose_2":"4188827.146","D4_Glucose_3":"4188827.146","D4_Glycerol_1":"4094929.239","D4_Glycerol_2":"","D4_Glycerol_3":"1589219.155"},{"Metabolite":"L-Glycine","D0_1":"88090719.42","D0_2":"59750586.54","D0_3":"31410453.66","D2_Glucose_1":"605770.5","D2_Glucose_2":"2038907.639","D2_Glucose_3":"","D2_Glycerol_1":"702385.6813","D2_Glycerol_2":"498136.4816","D2_Glycerol_3":"600261.0814","D4_Glucose_1":"","D4_Glucose_2":"1742410.382","D4_Glucose_3":"188200.8927","D4_Glycerol_1":"1044998.1","D4_Glycerol_2":"","D4_Glycerol_3":"598763.5661"},{"Metabolite":"L-Valine","D0_1":"75521276.58","D0_2":"50716358.89","D0_3":"25911441.19","D2_Glucose_1":"8075194.273","D2_Glucose_2":"15305042.26","D2_Glucose_3":"","D2_Glycerol_1":"3240149.909","D2_Glycerol_2":"27329693.73","D2_Glycerol_3":"15284921.82","D4_Glucose_1":"","D4_Glucose_2":"989737.614","D4_Glucose_3":"989737.614","D4_Glycerol_1":"86405.66364","D4_Glycerol_2":"","D4_Glycerol_3":"224068.6007"},{"Metabolite":"L-Leucine","D0_1":"78449500.5","D0_2":"52778231.47","D0_3":"27106962.45","D2_Glucose_1":"579610.2955","D2_Glucose_2":"2490625.663","D2_Glucose_3":"","D2_Glycerol_1":"395243.8687","D2_Glycerol_2":"3472645.97","D2_Glycerol_3":"1933944.919","D4_Glucose_1":"","D4_Glucose_2":"1049757.27","D4_Glucose_3":"1049757.27","D4_Glycerol_1":"","D4_Glycerol_2":"","D4_Glycerol_3":""},{"Metabolite":"L-Proline","D0_1":"401234072.8","D0_2":"279133220.9","D0_3":"157032369","D2_Glucose_1":"15597033.27","D2_Glucose_2":"34996398.67","D2_Glucose_3":"","D2_Glycerol_1":"7712811.738","D2_Glycerol_2":"29865089.86","D2_Glycerol_3":"18788950.8","D4_Glucose_1":"","D4_Glucose_2":"1805109.995","D4_Glucose_3":"1805109.995","D4_Glycerol_1":"27034357.43","D4_Glycerol_2":"","D4_Glycerol_3":"11650607.82"},{"Metabolite":"L-Isoleucine","D0_1":"27207072.54","D0_2":"18304945.44","D0_3":"9402818.335","D2_Glucose_1":"","D2_Glucose_2":"","D2_Glucose_3":"","D2_Glycerol_1":"","D2_Glycerol_2":"","D2_Glycerol_3":"","D4_Glucose_1":"","D4_Glucose_2":"","D4_Glucose_3":"","D4_Glycerol_1":"","D4_Glycerol_2":"","D4_Glycerol_3":""},{"Metabolite":"L-Serine","D0_1":"15133808.11","D0_2":"9973457.471","D0_3":"4813106.833","D2_Glucose_1":"214328.4091","D2_Glucose_2":"136933.3183","D2_Glucose_3":"","D2_Glycerol_1":"131706.819","D2_Glycerol_2":"","D2_Glycerol_3":"","D4_Glucose_1":"","D4_Glucose_2":"","D4_Glucose_3":"","D4_Glycerol_1":"","D4_Glycerol_2":"","D4_Glycerol_3":""},{"Metabolite":"L-Threonine","D0_1":"71316512.99","D0_2":"47669495.77","D0_3":"24022478.56","D2_Glucose_1":"793121.6136","D2_Glucose_2":"999846.9987","D2_Glucose_3":"","D2_Glycerol_1":"","D2_Glycerol_2":"","D2_Glycerol_3":"","D4_Glucose_1":"","D4_Glucose_2":"","D4_Glucose_3":"","D4_Glycerol_1":"","D4_Glycerol_2":"","D4_Glycerol_3":""},{"Metabolite":"L-Methionine","D0_1":"","D0_2":"","D0_3":"1204881.242","D2_Glucose_1":"41925.36364","D2_Glucose_2":"","D2_Glucose_3":"","D2_Glycerol_1":"73848.11165","D2_Glycerol_2":"533386.3947","D2_Glycerol_3":"303617.2532","D4_Glucose_1":"","D4_Glucose_2":"","D4_Glucose_3":"","D4_Glycerol_1":"","D4_Glycerol_2":"","D4_Glycerol_3":""},{"Metabolite":"L-Phenylalanine","D0_1":"","D0_2":"","D0_3":"6524012.076","D2_Glucose_1":"122660.7273","D2_Glucose_2":"","D2_Glucose_3":"","D2_Glycerol_1":"","D2_Glycerol_2":"501949.1534","D2_Glycerol_3":"","D4_Glucose_1":"","D4_Glucose_2":"","D4_Glucose_3":"","D4_Glycerol_1":"125646.9449","D4_Glycerol_2":"","D4_Glycerol_3":""},{"Metabolite":"L-Aspartic 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}

}