#METABOLOMICS WORKBENCH sbhattacharya_20200309_125558 DATATRACK_ID:1938 STUDY_ID:ST001327 ANALYSIS_ID:AN002209 VERSION 1 CREATED_ON 02-08-2024 #PROJECT PR:PROJECT_TITLE Mitochondrial Lipid Profiles in Traumatic Optic Neuropathy PR:PROJECT_SUMMARY C57Bl/6J Mice were exposed to sonication to induce a traumatic optic neuropathy PR:PROJECT_SUMMARY model. Optic nerves were harvested and mitochondrial isolation was performed. PR:PROJECT_SUMMARY Lipids were then extracted from isolated mitochondria. Mass spectrometry was PR:PROJECT_SUMMARY used to analyze mitochondrial lipids. PR:INSTITUTE University of Miami PR:DEPARTMENT Bascom Palmer Eye Institute PR:LAST_NAME Bhattacharya PR:FIRST_NAME Sanjoy K PR:ADDRESS 1638 NW 10th Avenue, Suite 707A University of Miami Miami, FL, 33136 PR:EMAIL SBhattacharya@med.miami.edu PR:PHONE 305-482-4103 PR:DOI http://dx.doi.org/10.21228/M8Q69W #STUDY ST:STUDY_TITLE Mitochondrial Lipid Profiles in Traumatic Optic Neuropathy ST:STUDY_SUMMARY C57Bl/6J Mice were exposed to sonication to induce a traumatic optic neuropathy ST:STUDY_SUMMARY model. Optic nerves were harvested and mitochondrial isolation was performed. ST:STUDY_SUMMARY Lipids were then extracted from isolated mitochondria. Mass spectrometry was ST:STUDY_SUMMARY used to analyze mitochondrial lipids. ST:INSTITUTE University of Miami ST:DEPARTMENT Ophthalmology, Bascom Palmer Eye Institute ST:LAST_NAME Bhattacharya ST:FIRST_NAME Sanjoy K ST:ADDRESS 1638 NW 10th Avenue, Suite 707A University of Miami Miami, FL, 33136 ST:EMAIL SBhattacharya@med.miami.edu ST:PHONE 305-482-4103 ST:SUBMIT_DATE 2020-03-09 #SUBJECT SU:SUBJECT_TYPE Mammal SU:SUBJECT_SPECIES Mus musculus SU:TAXONOMY_ID 10090 SU:GENOTYPE_STRAIN C57BL/6J SU:AGE_OR_AGE_RANGE 2 Months SU:GENDER Male and female #SUBJECT_SAMPLE_FACTORS: SUBJECT(optional)[tab]SAMPLE[tab]FACTORS(NAME:VALUE pairs separated by |)[tab]Additional sample data SUBJECT_SAMPLE_FACTORS - C5 Exposure:No Exposure | Days Post Exposure:Control | Sex:F RAW_FILE_NAME=5_neg 5_neg2 5_Pos 5_Pos2 SUBJECT_SAMPLE_FACTORS - C6 Exposure:No Exposure | Days Post Exposure:Control | Sex:F RAW_FILE_NAME=6_neg 6_neg2 6_Pos 6_Pos2 SUBJECT_SAMPLE_FACTORS - C7 Exposure:No Exposure | Days Post Exposure:Control | Sex:F RAW_FILE_NAME=7_neg 7_neg2 7_Pos 7_Pos2 SUBJECT_SAMPLE_FACTORS - C8 Exposure:No Exposure | Days Post Exposure:Control | Sex:F RAW_FILE_NAME=8_neg 8_neg2 8_Pos 8_Pos2 SUBJECT_SAMPLE_FACTORS - C1 Exposure:No Exposure | Days Post Exposure:Control | Sex:M RAW_FILE_NAME=1_neg 1_neg2 1_Pos 1_Pos2 SUBJECT_SAMPLE_FACTORS - C2 Exposure:No Exposure | Days Post Exposure:Control | Sex:M RAW_FILE_NAME=2_neg 2_neg2 2_Pos 2_Pos2 SUBJECT_SAMPLE_FACTORS - C3 Exposure:No Exposure | Days Post Exposure:Control | Sex:M RAW_FILE_NAME=3_neg 3_neg2 3_Pos 3_Pos2 SUBJECT_SAMPLE_FACTORS - C4 Exposure:No Exposure | Days Post Exposure:Control | Sex:M RAW_FILE_NAME=4_neg 4_neg2 4_Pos 4_Pos2 SUBJECT_SAMPLE_FACTORS - D14_1 Exposure:Sonication | Days Post Exposure:Day Fourteen | Sex:F RAW_FILE_NAME=25_neg 25_neg2 25_Pos 25_Pos2 SUBJECT_SAMPLE_FACTORS - D14_2 Exposure:Sonication | Days Post Exposure:Day Fourteen | Sex:F RAW_FILE_NAME=26_neg 26_neg2 26_Pos 26_Pos2 SUBJECT_SAMPLE_FACTORS - D14_3 Exposure:Sonication | Days Post Exposure:Day Fourteen | Sex:F RAW_FILE_NAME=27_neg 27_neg2 27_Pos 27_Pos_20191217115221 SUBJECT_SAMPLE_FACTORS - D14_4 Exposure:Sonication | Days Post Exposure:Day Fourteen | Sex:F RAW_FILE_NAME=28_neg 28_neg2 28_Pos 28_Pos2 SUBJECT_SAMPLE_FACTORS - D14_5 Exposure:Sonication | Days Post Exposure:Day Fourteen | Sex:M RAW_FILE_NAME=29_neg 29_neg2 29_Pos 29_Pos2 SUBJECT_SAMPLE_FACTORS - D14_6 Exposure:Sonication | Days Post Exposure:Day Fourteen | Sex:M RAW_FILE_NAME=30_neg 30_neg2 30_Pos 30_Pos2 SUBJECT_SAMPLE_FACTORS - D14_7 Exposure:Sonication | Days Post Exposure:Day Fourteen | Sex:M RAW_FILE_NAME=31_neg 31_neg2 31_Pos 31_Pos2 SUBJECT_SAMPLE_FACTORS - D14_8 Exposure:Sonication | Days Post Exposure:Day Fourteen | Sex:M RAW_FILE_NAME=32_neg 32_neg2 32_Pos 32_Pos2 SUBJECT_SAMPLE_FACTORS - D1_5 Exposure:Sonication | Days Post Exposure:Day One | Sex:F RAW_FILE_NAME=13_neg 13_neg2 13_Pos 13_Pos2 SUBJECT_SAMPLE_FACTORS - D1_6 Exposure:Sonication | Days Post Exposure:Day One | Sex:F RAW_FILE_NAME=14_neg 14_neg2 14_Pos 14_Pos2 SUBJECT_SAMPLE_FACTORS - D1_7 Exposure:Sonication | Days Post Exposure:Day One | Sex:F RAW_FILE_NAME=15_neg 15_neg2 15_Pos 15_Pos2 SUBJECT_SAMPLE_FACTORS - D1_8 Exposure:Sonication | Days Post Exposure:Day One | Sex:F RAW_FILE_NAME=16_neg 16_neg2 16_Pos 16_Pos2 SUBJECT_SAMPLE_FACTORS - D1_1 Exposure:Sonication | Days Post Exposure:Day One | Sex:M RAW_FILE_NAME=9_neg 9_neg2 9_Pos 9_Pos2 SUBJECT_SAMPLE_FACTORS - D1_2 Exposure:Sonication | Days Post Exposure:Day One | Sex:M RAW_FILE_NAME=10_neg 10_neg2 10_Pos 10_Pos2 SUBJECT_SAMPLE_FACTORS - D1_3 Exposure:Sonication | Days Post Exposure:Day One | Sex:M RAW_FILE_NAME=11_neg 11_neg2 11_Pos 11_Pos2 SUBJECT_SAMPLE_FACTORS - D1_4 Exposure:Sonication | Days Post Exposure:Day One | Sex:M RAW_FILE_NAME=12_neg 12_neg2 12_Pos 12_Pos2 SUBJECT_SAMPLE_FACTORS - D7_1 Exposure:Sonication | Days Post Exposure:Day Seven | Sex:F RAW_FILE_NAME=17_neg 17_neg2 17_Pos 17_Pos2 SUBJECT_SAMPLE_FACTORS - D7_2 Exposure:Sonication | Days Post Exposure:Day Seven | Sex:F RAW_FILE_NAME=18_neg 18_neg2 18_Pos 18_Pos2 SUBJECT_SAMPLE_FACTORS - D7_3 Exposure:Sonication | Days Post Exposure:Day Seven | Sex:F RAW_FILE_NAME=19_neg 19_neg2 19_Pos 19_Pos2 SUBJECT_SAMPLE_FACTORS - D7_4 Exposure:Sonication | Days Post Exposure:Day Seven | Sex:F RAW_FILE_NAME=20_neg 20_neg2 20_Pos 20_Pos2 SUBJECT_SAMPLE_FACTORS - D7_5 Exposure:Sonication | Days Post Exposure:Day Seven | Sex:M RAW_FILE_NAME=21_neg 21_neg2 21_Pos 21_Pos2 SUBJECT_SAMPLE_FACTORS - D7_6 Exposure:Sonication | Days Post Exposure:Day Seven | Sex:M RAW_FILE_NAME=22_neg 22_neg2 22_Pos 22_Pos2 SUBJECT_SAMPLE_FACTORS - D7_7 Exposure:Sonication | Days Post Exposure:Day Seven | Sex:M RAW_FILE_NAME=23_neg 23_neg2 23_Pos 23_Pos2 SUBJECT_SAMPLE_FACTORS - D7_8 Exposure:Sonication | Days Post Exposure:Day Seven | Sex:M RAW_FILE_NAME=24_neg 24_neg2 24_Pos 24_Pos2 #COLLECTION CO:COLLECTION_SUMMARY 2 month old mice were exposed to sonication-induced trauma. Optic nerves were CO:COLLECTION_SUMMARY dissected from optic nerve head to optic chiasm. CO:SAMPLE_TYPE Neurons #TREATMENT TR:TREATMENT_SUMMARY 4 groups of 8 mice, 4 males and 4 females per group. Control group was TR:TREATMENT_SUMMARY euthanized at 2 months. Other three groups were exposed to sonication to induce TR:TREATMENT_SUMMARY traumatic optic neuropathy. Then groups were euthanized at one day, seven days, TR:TREATMENT_SUMMARY and fourteen days, respectively. #SAMPLEPREP SP:SAMPLEPREP_SUMMARY Samples were homogenized and mitochondria were isolated. Lipids were extracted SP:SAMPLEPREP_SUMMARY using butanol/methanol lipid extraction and run through mass spectrometer. #CHROMATOGRAPHY CH:INSTRUMENT_NAME Thermo Accela 600 CH:COLUMN_NAME Thermo Acclaim C18 (150 x 2.1mm,3m) CH:CHROMATOGRAPHY_TYPE Reversed phase #ANALYSIS AN:ANALYSIS_TYPE MS #MS MS:INSTRUMENT_NAME Thermo Q Exactive Orbitrap MS:INSTRUMENT_TYPE Orbitrap MS:MS_TYPE ESI MS:MS_COMMENTS HESI operated at a spray voltage of 4.4 kV, capillary temperature of 329.60 MS:MS_COMMENTS Celsius, sheath gas flow rate of 45.30, and an auxillary gas flow of 14.73. The MS:MS_COMMENTS scan range was set at 150-1500 m/z. MS:ION_MODE NEGATIVE #MS_METABOLITE_DATA MS_METABOLITE_DATA:UNITS Main area MS_METABOLITE_DATA_START Samples C5 C6 C7 C8 C1 C2 C3 C4 D14_1 D14_2 D14_3 D14_4 D14_5 D14_6 D14_7 D14_8 D1_5 D1_6 D1_7 D1_8 D1_1 D1_2 D1_3 D1_4 D7_1 D7_2 D7_3 D7_4 D7_5 D7_6 D7_7 D7_8 Factors Exposure:No Exposure | Days Post Exposure:Control | Sex:F Exposure:No Exposure | Days Post Exposure:Control | Sex:F Exposure:No Exposure | Days Post Exposure:Control | Sex:F Exposure:No Exposure | Days Post Exposure:Control | Sex:F Exposure:No Exposure | Days Post Exposure:Control | Sex:M Exposure:No Exposure | Days Post Exposure:Control | Sex:M Exposure:No Exposure | Days Post Exposure:Control | Sex:M Exposure:No Exposure | Days Post Exposure:Control | Sex:M Exposure:Sonication | Days Post Exposure:Day Fourteen | Sex:F Exposure:Sonication | Days Post Exposure:Day Fourteen | Sex:F Exposure:Sonication | Days Post Exposure:Day Fourteen | Sex:F Exposure:Sonication | Days Post Exposure:Day Fourteen | Sex:F Exposure:Sonication | Days Post Exposure:Day Fourteen | Sex:M Exposure:Sonication | Days Post Exposure:Day Fourteen | Sex:M Exposure:Sonication | Days Post Exposure:Day Fourteen | Sex:M Exposure:Sonication | Days Post Exposure:Day Fourteen | Sex:M Exposure:Sonication | Days Post Exposure:Day One | Sex:F Exposure:Sonication | Days Post Exposure:Day One | Sex:F Exposure:Sonication | Days Post Exposure:Day One | Sex:F Exposure:Sonication | Days Post Exposure:Day One | Sex:F Exposure:Sonication | Days Post Exposure:Day One | Sex:M Exposure:Sonication | Days Post Exposure:Day One | Sex:M Exposure:Sonication | Days Post Exposure:Day One | Sex:M Exposure:Sonication | Days Post Exposure:Day One | Sex:M Exposure:Sonication | Days Post Exposure:Day Seven | Sex:F Exposure:Sonication | Days Post Exposure:Day Seven | Sex:F Exposure:Sonication | Days Post Exposure:Day Seven | Sex:F Exposure:Sonication | Days Post Exposure:Day Seven | Sex:F Exposure:Sonication | Days Post Exposure:Day Seven | Sex:M Exposure:Sonication | Days Post Exposure:Day Seven | Sex:M Exposure:Sonication | Days Post Exposure:Day Seven | Sex:M Exposure:Sonication | Days Post Exposure:Day Seven | Sex:M BisMePA(18:2p/20:1) CerG1(d18:0+pO/22:1) CerG1(d18:0+pO/24:1) CerG1(d18:1/22:0+O) CerG1(d18:1/22:1) CerG1(d18:1/24:1) CerG1(d18:1/24:2) CerG1(d40:0+pO+O) CerG1(d42:1+pO) dMePE(34:2p) 126000.0000 76400.0000 179000.0000 185000.0000 124000.0000 423000.0000 209000.0000 83200.0000 183000.0000 155000.0000 162000.0000 42200.0000 27000.0000 17800.0000 141.0000 43400.0000 203000.0000 67900.0000 61800.0000 53800.0000 82600.0000 203000.0000 533000.0000 124000.0000 356000.0000 579000.0000 232000.0000 236000.0000 99600.0000 149000.0000 305000.0000 105000.0000 LPC(16:0) LPC(18:0) LPC(18:1) LPC(18:2) LPC(20:4) PA(16:0/18:1) 74100.0000 63600.0000 33000.0000 34400.0000 989000.0000 447000.0000 173000.0000 106000.0000 17200.0000 16000.0000 5130.0000 2810.0000 6000.0000 2370.0000 3100.0000 4900.0000 117000.0000 73300.0000 38500.0000 12500.0000 17600.0000 56100.0000 8670.0000 15100.0000 4140.0000 57400.0000 14800.0000 10100.0000 9050.0000 9030.0000 24100.0000 31300.0000 PA(18:0/18:1) 249000.0000 171000.0000 244000.0000 57700.0000 1200000.0000 2200000.0000 570000.0000 160000.0000 129000.0000 45100.0000 56400.0000 41900.0000 51500.0000 59600.0000 63200.0000 130000.0000 260000.0000 41500.0000 76500.0000 38900.0000 77100.0000 44900.0000 159000.0000 21800.0000 74800.0000 76000.0000 16300.0000 89400.0000 17800.0000 59600.0000 134000.0000 PC(16:0/18:1) 235000.0000 162000.0000 250000.0000 336000.0000 239000.0000 722000.0000 345000.0000 167000.0000 335000.0000 284000.0000 267000.0000 61500.0000 49500.0000 93000.0000 100000.0000 84500.0000 387000.0000 98400.0000 75800.0000 108000.0000 121000.0000 381000.0000 794000.0000 232000.0000 568000.0000 745000.0000 412000.0000 364000.0000 164000.0000 244000.0000 565000.0000 264000.0000 PC(18:0/18:1) 234000.0000 147000.0000 270000.0000 301000.0000 140000.0000 879000.0000 216000.0000 150000.0000 278000.0000 274000.0000 294000.0000 86000.0000 60100.0000 101000.0000 6100.0000 1940.0000 346000.0000 111000.0000 48700.0000 78400.0000 133000.0000 318000.0000 752000.0000 220000.0000 553000.0000 751000.0000 367000.0000 308000.0000 171000.0000 219000.0000 503000.0000 196000.0000 PC(32:0) PC(34:1) PC(36:1) PE(18:0/18:1) PE(18:0p/18:1) PE(18:0p/20:1) PE(18:1p/18:1) PEt(16:0/18:1) 249000.0000 171000.0000 244000.0000 57700.0000 1200000.0000 2200000.0000 570000.0000 160000.0000 129000.0000 45100.0000 56400.0000 41900.0000 51500.0000 59600.0000 63200.0000 130000.0000 260000.0000 41500.0000 76500.0000 38900.0000 77100.0000 44900.0000 159000.0000 21800.0000 74800.0000 76000.0000 16300.0000 89400.0000 17800.0000 59600.0000 134000.0000 PS(18:0/18:1) 350000.0000 395000.0000 354000.0000 333000.0000 1420000.0000 1010000.0000 428000.0000 348000.0000 598000.0000 536000.0000 396000.0000 426000.0000 416000.0000 912000.0000 952000.0000 745000.0000 714000.0000 335000.0000 223000.0000 181000.0000 182000.0000 430000.0000 683000.0000 413000.0000 533000.0000 890000.0000 429000.0000 363000.0000 426000.0000 362000.0000 973000.0000 305000.0000 PS(18:0/20:1) SM(d42:2) TG(16:0/16:0/18:1) TG(16:0/18:1/18:1) TG(16:0/18:1/18:2) TG(18:0/16:0/18:1) TG(18:1/18:1/18:1) TG(18:1/18:1/18:2) TG(18:1/18:2/18:2) MS_METABOLITE_DATA_END #METABOLITES METABOLITES_START metabolite_name pubchem_id inchi_key kegg_id other_id other_id_type ri ri_type moverz_quant BisMePA(18:2p/20:1) CerG1(d18:0+pO/22:1) CerG1(d18:0+pO/24:1) CerG1(d18:1/22:0+O) CerG1(d18:1/22:1) CerG1(d18:1/24:1) CerG1(d18:1/24:2) CerG1(d40:0+pO+O) CerG1(d42:1+pO) dMePE(34:2p) LPC(16:0) LPC(18:0) LPC(18:1) LPC(18:2) LPC(20:4) PA(16:0/18:1) PA(18:0/18:1) PC(16:0/18:1) PC(18:0/18:1) PC(32:0) PC(34:1) PC(36:1) PE(18:0/18:1) PE(18:0p/18:1) PE(18:0p/20:1) PE(18:1p/18:1) PEt(16:0/18:1) PS(18:0/18:1) PS(18:0/20:1) SM(d42:2) TG(16:0/16:0/18:1) TG(16:0/18:1/18:1) TG(16:0/18:1/18:2) TG(18:0/16:0/18:1) TG(18:1/18:1/18:1) TG(18:1/18:1/18:2) TG(18:1/18:2/18:2) METABOLITES_END #END