#METABOLOMICS WORKBENCH araskind_20150607_9912061_mwtab.txt DATATRACK_ID:283 STUDY_ID:ST000279 ANALYSIS_ID:AN000445 PROJECT_ID:PR000222 VERSION 1 CREATED_ON 01-15-2019 #PROJECT PR:PROJECT_TITLE Viral Effect on Metabolism PR:PROJECT_TYPE Glycolysis/TCA/Nucleotide analysis (tissue/cells) PR:PROJECT_SUMMARY Global Metabolic profiling of infection by respiratory virus PR:INSTITUTE University of Texas Medical Branch PR:DEPARTMENT Department of Pediatrics PR:LABORATORY Casola Lab PR:LAST_NAME Casola PR:FIRST_NAME Antonella PR:ADDRESS Galveston, TX PR:EMAIL yazhao1@utmb.edu PR:PHONE 409-772-2798 PR:DOI http://dx.doi.org/10.21228/M8TP4R #STUDY ST:STUDY_TITLE Viral Effect on Metabolism (part II) ST:STUDY_TYPE Glycolysis/TCA/Nucleotide analysis (tissue/cells) ST:STUDY_SUMMARY Small airway epithelial cell (SAEC) (Lonza Walkersville, Inc., MD) were grown ST:STUDY_SUMMARY according to the manufacturer's instructions in growth medium (SAGM) containing ST:STUDY_SUMMARY 0.03 mg/ml bovine pituitary extract (BPE), 0.5 µg/ml hydrocortisone, 0.5 ng/ml ST:STUDY_SUMMARY hEGF, 0.5 µg/ml epinephrine, 10 µg/ml transferrin, 5 µg/ml insulin, 0.1 ng/ml ST:STUDY_SUMMARY retinoic acid, 6.5ng/ml triiodothyronine, 50 µg/ml gentamicin and 50ng/ml ST:STUDY_SUMMARY Amphotericin-B, and 0.5 mg/ml bovine serum albumin (BSA, fatty acid free). When ST:STUDY_SUMMARY SAE grew to around 80 to 90% confluence, the cells were put into basal medium ST:STUDY_SUMMARY not supplemented with growth factors 3hours. Then the cell monolayers were ST:STUDY_SUMMARY infected with naïve hMPV at multiplicity of infection (MOI) of 3 to certain ST:STUDY_SUMMARY time. The supernatant was saved and cells were harvested and stored exactly ST:STUDY_SUMMARY according to the protocol provided by University of Michigan Metabolomics Core ST:STUDY_SUMMARY Facility for metabolomics analysis. 50mM ammonium acetate in water was used for ST:STUDY_SUMMARY rinse buffer. ST:INSTITUTE University of Michigan ST:DEPARTMENT Department of Pediatrics ST:LABORATORY Casola Lab (University of Texas Medical Branch) ST:LAST_NAME Zhao ST:FIRST_NAME Yanhua ST:ADDRESS Galveston, TX ST:EMAIL yazhao1@utmb.edu ST:PHONE 409-443-1461 #SUBJECT SU:SUBJECT_TYPE Human SU:SUBJECT_SPECIES Homo sapiens SU:TAXONOMY_ID 9606 SU:SPECIES_GROUP Human #SUBJECT_SAMPLE_FACTORS: SUBJECT(optional)[tab]SAMPLE[tab]FACTORS(NAME:VALUE pairs separated by |)[tab]Additional sample data SUBJECT_SAMPLE_FACTORS - S00017199 Time:Naïve hMPV | Diseased:0hr SUBJECT_SAMPLE_FACTORS - S00017200 Time:Naïve hMPV | Diseased:0hr SUBJECT_SAMPLE_FACTORS - S00017201 Time:Naïve hMPV | Diseased:0hr SUBJECT_SAMPLE_FACTORS - S00017205 Time:Naïve hMPV | Diseased:15hrs SUBJECT_SAMPLE_FACTORS - S00017206 Time:Naïve hMPV | Diseased:15hrs SUBJECT_SAMPLE_FACTORS - S00017207 Time:Naïve hMPV | Diseased:15hrs SUBJECT_SAMPLE_FACTORS - S00017208 Time:Naïve hMPV | Diseased:24hrs SUBJECT_SAMPLE_FACTORS - S00017209 Time:Naïve hMPV | Diseased:24hrs SUBJECT_SAMPLE_FACTORS - S00017210 Time:Naïve hMPV | Diseased:24hrs SUBJECT_SAMPLE_FACTORS - S00017202 Time:Naïve hMPV | Diseased:6hrs SUBJECT_SAMPLE_FACTORS - S00017203 Time:Naïve hMPV | Diseased:6hrs SUBJECT_SAMPLE_FACTORS - S00017204 Time:Naïve hMPV | Diseased:6hrs SUBJECT_SAMPLE_FACTORS - S00017187 Time:RSV | Diseased:0hr SUBJECT_SAMPLE_FACTORS - S00017188 Time:RSV | Diseased:0hr SUBJECT_SAMPLE_FACTORS - S00017189 Time:RSV | Diseased:0hr SUBJECT_SAMPLE_FACTORS - S00017193 Time:RSV | Diseased:15hrs SUBJECT_SAMPLE_FACTORS - S00017194 Time:RSV | Diseased:15hrs SUBJECT_SAMPLE_FACTORS - S00017195 Time:RSV | Diseased:15hrs SUBJECT_SAMPLE_FACTORS - S00017196 Time:RSV | Diseased:24hrs SUBJECT_SAMPLE_FACTORS - S00017197 Time:RSV | Diseased:24hrs SUBJECT_SAMPLE_FACTORS - S00017198 Time:RSV | Diseased:24hrs SUBJECT_SAMPLE_FACTORS - S00017190 Time:RSV | Diseased:6hrs SUBJECT_SAMPLE_FACTORS - S00017191 Time:RSV | Diseased:6hrs SUBJECT_SAMPLE_FACTORS - S00017192 Time:RSV | Diseased:6hrs #COLLECTION CO:SAMPLE_TYPE Cells, Cultured CO:COLLECTION_SUMMARY - #TREATMENT TR:TREATMENT_SUMMARY - #SAMPLEPREP SP:SAMPLEPREP_PROTOCOL_FILENAME Gly-TCA-nucleotides_analysis_protocol-2015-03-09.docx SP:SAMPLEPREP_SUMMARY - #CHROMATOGRAPHY CH:METHODS_ID AQM020 CH:METHODS_FILENAME QTOF-002-HILIC-35min-1mm-No_Insert.m CH:INSTRUMENT_NAME Agilent 1260 CH:COLUMN_NAME Phenomenex Luna NH2 (150 x 1mm, 3um) CH:CHROMATOGRAPHY_TYPE HILIC #ANALYSIS AN:LABORATORY_NAME MRC2 (University of Michigan) AN:ANALYSIS_TYPE MS AN:ACQUISITION_PARAMETERS_FILE QTOF-002-HILIC-35min-1mm-No_Insert.m #MS MS:MS_COMMENTS - MS:INSTRUMENT_NAME Agilent 6530 QTOF MS:INSTRUMENT_TYPE QTOF MS:MS_TYPE ESI MS:ION_MODE NEGATIVE #MS_METABOLITE_DATA MS_METABOLITE_DATA:UNITS pmol/µg protein MS_METABOLITE_DATA_START Samples S00017199 S00017200 S00017201 S00017205 S00017206 S00017207 S00017208 S00017209 S00017210 S00017202 S00017203 S00017204 S00017187 S00017188 S00017189 S00017193 S00017194 S00017195 S00017196 S00017197 S00017198 S00017190 S00017191 S00017192 Factors Time:Naïve hMPV | Diseased:0hr Time:Naïve hMPV | Diseased:0hr Time:Naïve hMPV | Diseased:0hr Time:Naïve hMPV | Diseased:15hrs Time:Naïve hMPV | Diseased:15hrs Time:Naïve hMPV | Diseased:15hrs Time:Naïve hMPV | Diseased:24hrs Time:Naïve hMPV | Diseased:24hrs Time:Naïve hMPV | Diseased:24hrs Time:Naïve hMPV | Diseased:6hrs Time:Naïve hMPV | Diseased:6hrs Time:Naïve hMPV | Diseased:6hrs Time:RSV | Diseased:0hr Time:RSV | Diseased:0hr Time:RSV | Diseased:0hr Time:RSV | Diseased:15hrs Time:RSV | Diseased:15hrs Time:RSV | Diseased:15hrs Time:RSV | Diseased:24hrs Time:RSV | Diseased:24hrs Time:RSV | Diseased:24hrs Time:RSV | Diseased:6hrs Time:RSV | Diseased:6hrs Time:RSV | Diseased:6hrs 2 or 3-phosphoglycerate_2PG/3PG 3.0300 5.4715 3.9140 3.6314 3.5102 1.6687 2.7495 3.5634 3.2931 3.8788 4.4251 3.1348 3.2089 1.3745 3.2108 1.7846 2.3568 1.8794 3.4603 4.6491 4.1465 7.1894 6.7714 4.9152 6-Phosphogluconate 11.2016 6.9106 7.9103 8.3289 9.8612 8.3304 5.1610 7.8513 6.7206 4.2251 7.0076 10.4958 5.4017 2.6461 5.1609 2.7782 5.5029 3.8079 2.1807 2.8040 2.2602 6.3570 4.4971 5.9374 Acetyl-CoA 2.0885 2.4832 2.1906 2.2873 2.0760 1.8607 0.5350 0.8296 1.3399 1.2945 2.5515 1.9818 1.6383 0.6995 1.5705 4.4657 4.3742 5.0509 3.4607 4.4356 3.9344 3.5173 3.4994 3.1345 ADP 156.9476 94.3725 76.4735 146.7061 121.4355 157.0258 68.2238 72.7214 61.0428 95.3284 118.9152 121.5772 68.8920 27.2780 64.7285 144.7680 140.5737 139.1232 70.9224 74.6783 73.0232 56.4323 62.0778 81.9420 AMP 1013.9323 195.3187 128.7634 1001.8170 504.2473 1200.3625 476.9515 389.8142 156.9215 408.2648 409.3769 526.3854 170.9564 65.9886 210.6911 2087.0643 1988.0352 2699.3845 1895.3751 2385.7660 1928.7641 68.8622 74.4723 147.2613 ATP 520.2769 891.0719 833.5854 471.1378 473.3308 411.7341 151.5543 244.8801 327.8363 491.8458 623.7565 460.9522 722.4480 277.5184 588.2159 123.2453 143.4473 115.8510 65.1435 76.3267 71.2992 1086.3231 870.6704 283.5875 Citrate or Isocitrate 19.8156 25.6571 21.2174 32.9692 30.6935 36.0956 17.8032 22.0665 22.8061 15.0191 19.4379 14.9865 19.7685 7.6025 19.3274 22.8480 23.1566 28.1139 12.5244 13.8489 11.8740 18.8842 15.9767 16.5737 Erythrose 4-phosphate 33.7402 26.1983 26.2469 35.6549 40.9327 32.0901 29.0113 13.6360 34.5854 32.4340 35.6971 29.6916 28.4341 9.6746 25.7083 16.6929 20.1388 19.4057 23.8711 14.5543 23.3222 29.2177 14.7612 29.3856 flavin adenine dinucleotide 0.6511 0.7326 0.7093 0.8179 0.7441 0.8495 0.4957 0.4954 0.5468 0.7318 0.8209 0.6944 0.6466 0.2268 0.4967 0.8298 0.8192 0.9400 0.8548 0.8068 0.8694 0.9247 0.8010 0.6494 Fructose 1_6-bisphosphate 45.2090 85.5564 82.3507 26.9921 22.5788 18.4754 16.4796 24.5820 27.7648 43.8481 57.6367 56.5934 46.8487 20.3622 57.0509 16.7323 25.4952 21.5286 22.0464 39.9983 43.8452 147.8405 131.1691 94.7269 Glucose 6-phosphate or fructose-6-phosphate 35.0492 27.1784 22.4700 65.5903 53.9854 59.6978 49.4604 37.8590 34.0526 32.8442 42.3670 31.5440 31.7386 11.3993 30.4676 27.5218 28.8893 24.7298 19.6649 22.8095 19.8898 23.7801 19.6896 24.8745 Malate 58.4253 71.9577 56.2756 67.4665 57.8685 65.1530 46.4288 59.3166 57.2419 68.1135 73.3895 56.8575 58.5618 20.5604 51.0829 72.1114 83.4297 93.2154 56.5770 64.8125 58.1530 84.4214 66.0436 76.2643 Nicotinamide Adenine Dinucleotide oxidized 19.8095 27.1996 21.0416 21.9719 20.1667 22.6767 12.1419 14.4904 15.1871 22.9528 26.4703 21.9052 18.4673 6.2626 16.6286 19.4022 21.8996 24.6445 14.8864 16.4953 14.9003 30.1234 23.5648 25.3027 nicotinamide adenine dinucleotide phosphate oxidized 3.5198 5.5322 5.3970 2.5397 2.5059 1.4448 1.5613 1.8880 2.0055 1.5534 2.0581 3.2427 1.3624 0.6680 1.3088 1.4790 1.5163 1.5189 1.3536 1.4970 1.3361 3.0789 4.0192 2.7437 nicotinamide adenine dinucleotide phosphate reduced 10.6056 8.0767 6.2390 2.7090 2.6029 9.1028 0.6922 19.6481 22.1884 10.3575 18.8808 6.6410 17.0540 5.0951 6.3317 5.7507 1.2540 27.2657 15.3741 13.5275 Nicotinamide Adenine Dinucleotide reduced 43.7542 34.3515 34.1199 40.7022 31.8218 30.1386 10.8743 12.1345 13.7749 93.7257 80.1129 68.5581 79.4575 28.7480 66.7433 77.5181 79.4167 75.6926 101.4091 128.2782 116.1678 104.2243 61.9185 78.3299 Phosphoenolpyruvate 7.9949 4.7296 4.3713 5.6974 6.5495 4.8010 3.4416 1.7023 4.4648 2.5391 2.6348 7.8831 11.2386 7.5974 10.2154 4.3632 Ribose-5-phosphate or xylulose 5-phosphate 13.0827 9.9636 7.1437 15.5960 18.2411 13.2531 18.6881 10.9257 12.5797 12.7129 15.7034 13.5468 11.5622 4.9760 12.3311 22.6139 21.6020 22.4172 30.7762 33.0507 33.8291 10.5946 8.8118 13.6197 Sedoheptulose 7-phosphate 9.1243 7.3298 6.2979 10.7133 8.9785 11.4845 9.3430 5.6806 5.7692 8.7814 10.9505 7.7231 5.9658 2.1710 5.4145 13.3929 12.6234 12.2528 12.9555 14.0485 14.5414 10.0836 7.2228 7.4353 Sucrose 4.2274 4.1683 1.7222 2.6639 2.1311 3.1732 2.1182 2.0213 0.6399 2.5950 3.4461 1.9254 2.1833 0.7031 2.4312 1.6727 2.2318 2.5756 4.8353 3.7254 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 2 or 3-phosphoglycerate_2PG/3PG 724 C00597 2PG/3PG UM_Target_ID 6-Phosphogluconate 91493 C00345 6PG UM_Target_ID Acetyl-CoA 444493 C00024 aCoA UM_Target_ID ADP 6022 C00008 ADP UM_Target_ID AMP 6083 C00020 AMP UM_Target_ID ATP 5957 C00002 ATP UM_Target_ID Citrate or Isocitrate 311 C00158 CIT/ICIT UM_Target_ID Erythrose 4-phosphate 122357 C00279 E4P UM_Target_ID flavin adenine dinucleotide 643975 C00016 FAD UM_Target_ID Fructose 1,6-bisphosphate 172313 C00354 FBP UM_Target_ID Glucose 6-phosphate or fructose-6-phosphate 5958 C00092 G6P/F6P UM_Target_ID Malate 222656 C00149 MAL UM_Target_ID Nicotinamide Adenine Dinucleotide oxidized 10897651 C00003 NAD UM_Target_ID nicotinamide adenine dinucleotide phosphate oxidized 5886 C00006 NADP UM_Target_ID nicotinamide adenine dinucleotide phosphate reduced 5886 C00006 NADPH UM_Target_ID Nicotinamide Adenine Dinucleotide reduced 439153 C00004 NADH UM_Target_ID Phosphoenolpyruvate 1005 C00074 PEP UM_Target_ID Ribose-5-phosphate or xylulose 5-phosphate 77982 C00117 R5P/X5P UM_Target_ID Sedoheptulose 7-phosphate 165007 C05382 S7P UM_Target_ID Sucrose 5988 C00089 SUC UM_Target_ID METABOLITES_END #END