{
"METABOLOMICS WORKBENCH":{"STUDY_ID":"ST000073","ANALYSIS_ID":"AN000115","VERSION":"1","CREATED_ON":"2016-09-17"},
"PROJECT":{"PROJECT_TITLE":"Effect of diet and age on ovarian metabolome","PROJECT_TYPE":"Effects of Western diet on female reproductive function and aging, including associated with oxidative stress pathways","PROJECT_SUMMARY":"The long-term goal of this research is to understand the effects of the Western on female reproductive function and aging, to characterize the resultant health and to determine the value of dietary intervention. In the past 100 years, patterns in Western societies have changed remarkably. The consumption of fatty acids (SFA), omega-6 (n-6) unsaturated fatty acids and refined has risen sharply, whereas consumption of fruits, vegetables and omega-3 fatty (n-3) has declined. This dietary pattern is associated with post-prandial stress and inflammation, both of which are implicated in numerous disease The key rationale for this pilot grant application stems from studies reporting decline in reproductive function in women that is coincident with changing of Western diet, observations of Western diet-associated infertility in and adverse effects of diet on ovarian reserve in monkeys. Recently, profiling has been used to characterize oxidative and inflammatory pathways in non-diseased ovary. Using this technology, it has also been reported that aging and those with reduced ovarian reserve, have altered follicular fluid levels of and reproductive hormones compared to normal ovarian reserve women. Therefore, methodology is ideal for determining differences in global metabolomic profiles ovaries derived from subjects of differing nutritional backgrounds. The study will compare the effects of chronic exposure to a typical Western diet a prudent diet on ovarian metabolome and metabolites associated with oxidative pathways. The central hypothesis is that ovaries from monkeys exposed to divergent nutritional backgrounds will differentiate from each other with to their metabolome and with respect to metabolites indicative of oxidative We will address this with three Specific Aims designed to: 1) determine whether metabolome of ovarian tissue from cynomolgus monkeys (Macaca fascicularis) by nutritional background; 2) determine if metabolomic profiles of ovarian will differentiate by age in pedigreed, known-age domestic vervet monkeys aethiops sabaeus) and 3) investigate whether the effects of diet or age on tissue metabolome is reflected by changes in serum metabolites. Archived tissue from two well-established nonhuman primate models of womens health fascicularis and Chlorocebus aethiops sabaeus) will be used for this study.","INSTITUTE":"Wake Forest University","DEPARTMENT":"Department of Pathology","LAST_NAME":"Appt","FIRST_NAME":"Susan","ADDRESS":"Medical Center Blvd., Winston-Salem, NC 27157","EMAIL":"sappt@wakehealth.edu","PHONE":"336-716-1637"},
"STUDY":{"STUDY_TITLE":"Effect of diet and age on ovarian metabolome (serum metabolome compared to","STUDY_TYPE":"Metabolomics analysis on the serum metabolome for comparison against the metabolome","STUDY_SUMMARY":"Serum samples from twenty-one adult, female Cynomolgus monkeys were studied, of which were fed the Western #907 diet, and 13 of which were fed the Prudent diet. HPLC-MS data were acquired for the 21 samples.","INSTITUTE":"RTI International","DEPARTMENT":"Discovery and Analytical Sciences (DAS)","LABORATORY":"RTI Regional Comprehensive Metabolomics Resource Core (RTI RCMRC)","LAST_NAME":"Sumner","FIRST_NAME":"Susan","ADDRESS":"3040 East Cornwallis Road, Research Triangle Park, NC 27709, USA","EMAIL":"ssumner@rti.org","PHONE":"919-541-7479","NUM_GROUPS":"2","TOTAL_SUBJECTS":"21"},
"SUBJECT":{"SUBJECT_TYPE":"Animal","SUBJECT_SPECIES":"Macaca fascicularis","TAXONOMY_ID":"9541","AGE_OR_AGE_RANGE":"7.5-18.17","GENDER":"Female","ANIMAL_HOUSING":"pen","ANIMAL_FEED":"Prudent #611 or Wester #907","SPECIES_GROUP":"Mammal"},
"SUBJECT_SAMPLE_FACTORS":[
{
"Subject ID":"-",
"Sample ID":"Pooled All_1",
"Factors":{"Diet":"--"},
"Additional sample data":{"Age":"--"}
},
{
"Subject ID":"-",
"Sample ID":"Pooled All_2",
"Factors":{"Diet":"--"},
"Additional sample data":{"Age":"--"}
},
{
"Subject ID":"-",
"Sample ID":"Pooled All_3",
"Factors":{"Diet":"--"},
"Additional sample data":{"Age":"--"}
},
{
"Subject ID":"-",
"Sample ID":"Pooled Prudent_1",
"Factors":{"Diet":"Prudent_#611"},
"Additional sample data":{"Age":"--"}
},
{
"Subject ID":"-",
"Sample ID":"Pooled Prudent_2",
"Factors":{"Diet":"Prudent_#611"},
"Additional sample data":{"Age":"--"}
},
{
"Subject ID":"-",
"Sample ID":"Pooled Prudent_3",
"Factors":{"Diet":"Prudent_#611"},
"Additional sample data":{"Age":"--"}
},
{
"Subject ID":"-",
"Sample ID":"6634",
"Factors":{"Diet":"Prudent_#611"},
"Additional sample data":{"Age":"13.17"}
},
{
"Subject ID":"-",
"Sample ID":"6641",
"Factors":{"Diet":"Prudent_#611"},
"Additional sample data":{"Age":"13.17"}
},
{
"Subject ID":"-",
"Sample ID":"6643",
"Factors":{"Diet":"Prudent_#611"},
"Additional sample data":{"Age":"13.17"}
},
{
"Subject ID":"-",
"Sample ID":"6644",
"Factors":{"Diet":"Prudent_#611"},
"Additional sample data":{"Age":"13.17"}
},
{
"Subject ID":"-",
"Sample ID":"6653",
"Factors":{"Diet":"Prudent_#611"},
"Additional sample data":{"Age":"13.17"}
},
{
"Subject ID":"-",
"Sample ID":"6638",
"Factors":{"Diet":"Prudent_#611"},
"Additional sample data":{"Age":"14.17"}
},
{
"Subject ID":"-",
"Sample ID":"6652",
"Factors":{"Diet":"Prudent_#611"},
"Additional sample data":{"Age":"14.17"}
},
{
"Subject ID":"-",
"Sample ID":"6655",
"Factors":{"Diet":"Prudent_#611"},
"Additional sample data":{"Age":"14.17"}
},
{
"Subject ID":"-",
"Sample ID":"6651",
"Factors":{"Diet":"Prudent_#611"},
"Additional sample data":{"Age":"15.17"}
},
{
"Subject ID":"-",
"Sample ID":"6659",
"Factors":{"Diet":"Prudent_#611"},
"Additional sample data":{"Age":"18.17"}
},
{
"Subject ID":"-",
"Sample ID":"6703",
"Factors":{"Diet":"Prudent_#611"},
"Additional sample data":{"Age":"7.5"}
},
{
"Subject ID":"-",
"Sample ID":"6704",
"Factors":{"Diet":"Prudent_#611"},
"Additional sample data":{"Age":"7.5"}
},
{
"Subject ID":"-",
"Sample ID":"6648",
"Factors":{"Diet":"Prudent_#611"},
"Additional sample data":{"Age":"9.17"}
},
{
"Subject ID":"-",
"Sample ID":"7236",
"Factors":{"Diet":"Western_#907"},
"Additional sample data":{"Age":"10.2"}
},
{
"Subject ID":"-",
"Sample ID":"Pooled Western_1",
"Factors":{"Diet":"Western_#907"},
"Additional sample data":{"Age":"--"}
},
{
"Subject ID":"-",
"Sample ID":"Pooled Western_2",
"Factors":{"Diet":"Western_#907"},
"Additional sample data":{"Age":"--"}
},
{
"Subject ID":"-",
"Sample ID":"Pooled Western_3",
"Factors":{"Diet":"Western_#907"},
"Additional sample data":{"Age":"--"}
},
{
"Subject ID":"-",
"Sample ID":"7279",
"Factors":{"Diet":"Western_#907"},
"Additional sample data":{"Age":"10.09"}
},
{
"Subject ID":"-",
"Sample ID":"7295",
"Factors":{"Diet":"Western_#907"},
"Additional sample data":{"Age":"10.21"}
},
{
"Subject ID":"-",
"Sample ID":"7284",
"Factors":{"Diet":"Western_#907"},
"Additional sample data":{"Age":"13.07"}
},
{
"Subject ID":"-",
"Sample ID":"7287",
"Factors":{"Diet":"Western_#907"},
"Additional sample data":{"Age":"14.09"}
},
{
"Subject ID":"-",
"Sample ID":"7275",
"Factors":{"Diet":"Western_#907"},
"Additional sample data":{"Age":"17.06"}
},
{
"Subject ID":"-",
"Sample ID":"7017",
"Factors":{"Diet":"Western_#907"},
"Additional sample data":{"Age":"17.84"}
},
{
"Subject ID":"-",
"Sample ID":"7018",
"Factors":{"Diet":"Western_#907"},
"Additional sample data":{"Age":"7.82"}
}
],
"COLLECTION":{"COLLECTION_SUMMARY":"-","COLLECTION_PROTOCOL_COMMENTS":"Snap frozen in liquid nitrogen","SAMPLE_TYPE":"Ovary tissue","VOLUMEORAMOUNT_COLLECTED":"128-597mg","STORAGE_CONDITIONS":"-80C"},
"TREATMENT":{"TREATMENT_SUMMARY":"-"},
"SAMPLEPREP":{"SAMPLEPREP_SUMMARY":"Ovary samples were extracted using acetonitrile protein precipitation. Samples then dried and reconstituted for LC-MS analysis in 95:5 water:methanol.","SAMPLEPREP_PROTOCOL_FILENAME":"RTI_APPT-SERUM_Metabolomics_Procedure.docx","PROCESSING_METHOD":"Homogenization","EXTRACTION_METHOD":"Acetonitrile","EXTRACT_STORAGE":"-80 C","SAMPLE_RESUSPENSION":"95:5 Water:Methanol","SAMPLE_SPIKING":"L-Tryptophan-d5","ORGAN":"Ovary"},
"CHROMATOGRAPHY":{"CHROMATOGRAPHY_TYPE":"Reversed phase","INSTRUMENT_NAME":"Waters Acquity","COLUMN_NAME":"Waters Acquity HSS T3 (100 x 2.1mm, 1.8um)","COLUMN_PRESSURE":"6000-10000","COLUMN_TEMPERATURE":"50 C","FLOW_GRADIENT":"Time(min) Flow Rate %A %B Curve 1. Initial 0.400 100.0 0.0 2. 0.400 100.0 0.0 6 3. 16.00 0.400 0.0 100.0 6 4. 20.00 0.400 0.0 100.0 5. 22.00 0.400 100.0 0.0 6","FLOW_RATE":"0.4 mL/min","INJECTION_TEMPERATURE":"8 C","INTERNAL_STANDARD":"L-Tryptophan-d5","SOLVENT_A":"Water w/ 0.1% formic acid","SOLVENT_B":"Methanol w/ 0.1% formic acid","ANALYTICAL_TIME":"22 min","WEAK_WASH_SOLVENT_NAME":"5%MeOH","WEAK_WASH_VOLUME":"1000 uL","STRONG_WASH_SOLVENT_NAME":"80%MeOH","STRONG_WASH_VOLUME":"1000 uL","TARGET_SAMPLE_TEMPERATURE":"8 C","SAMPLE_LOOP_SIZE":"10 uL","SAMPLE_SYRINGE_SIZE":"100 uL","RANDOMIZATION_ORDER":"Yes"},
"ANALYSIS":{"ANALYSIS_TYPE":"MS","LABORATORY_NAME":"RTI","ACQUISITION_DATE":"41656","SOFTWARE_VERSION":"MassLynx 4.1","OPERATOR_NAME":"Suraj Dhungana, Darya Cheng","DETECTOR_TYPE":"TOF +ive"},
"MS":{"MS_COMMENTS":"-","INSTRUMENT_NAME":"Waters Synapt G2 QTOF","INSTRUMENT_TYPE":"QTOF","MS_TYPE":"ESI","ION_MODE":"POSITIVE","CAPILLARY_TEMPERATURE":"110 C","CAPILLARY_VOLTAGE":"3.2 kV","COLLISION_ENERGY":"4","FRAGMENTATION_METHOD":"CID","HELIUM_FLOW":"180","IONIZATION":"ES+","MASS_ACCURACY":"10 ppm","SOURCE_TEMPERATURE":"110 C","DATAFORMAT":"Continuum","DESOLVATION_GAS_FLOW":"400 L/Hr","DESOLVATION_TEMPERATURE":"400 C","RESOLUTION_SETTING":"18000","SCAN_RANGE_MOVERZ":"50-1000 m/s","SCANNING_CYCLE":"1 s","TUBE_LENS_VOLTAGE":"75"},
"MS_METABOLITE_DATA":{
"Units":"Normalized abundance",
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