#METABOLOMICS WORKBENCH laura_lorenzorebenaque_20220830_080140 DATATRACK_ID:3438 STUDY_ID:ST002275 ANALYSIS_ID:AN003717 PROJECT_ID:PR001456 VERSION 1 CREATED_ON August 30, 2022, 1:46 pm #PROJECT PR:PROJECT_TITLE Gut-brain axis: Insights from hippocampal neurogenesis and brain tumor PR:PROJECT_TITLE development in a mouse model of experimental colitis induced by dextran sodium PR:PROJECT_TITLE sulfate PR:PROJECT_SUMMARY We here reported investigations on a model of chemically induced experimental PR:PROJECT_SUMMARY colitis by oral administration of sodium dextran sulfate (DSS) in C57BL/6 mice. PR:PROJECT_SUMMARY We investigated, in vivo, the crosstalk between the intestine and the brain, PR:PROJECT_SUMMARY evaluating the consequences of intestinal inflamma-tion on neuroinflammation and PR:PROJECT_SUMMARY hippocampal adult neurogenesis. By using different DSS admin-istration PR:PROJECT_SUMMARY strategies, we were able to induce acute or chronic colitis simulating clinical PR:PROJECT_SUMMARY character-istics observed in IBD patients PR:INSTITUTE Agenzia Nazionale per le Nuove Tecnologie, l'Energia e lo Sviluppo Economico PR:INSTITUTE Sostenibile PR:LAST_NAME Lorenzo Rebenaque PR:FIRST_NAME Laura PR:ADDRESS calle seminari sn Alfara del Patriarca PR:EMAIL laura.lorenzorebenaque@uchceu.es PR:PHONE 615056012 #STUDY ST:STUDY_TITLE Insights from hippocampal neurogenesis and brain tumor development in a mouse ST:STUDY_TITLE model of experimental colitis induced by dextran sodium sulfate ST:STUDY_SUMMARY We here reported investigations on a model of chemically induced experimental ST:STUDY_SUMMARY colitis by oral administration of sodium dextran sulfate (DSS) in C57BL/6 mice. ST:STUDY_SUMMARY We investigated, in vivo, the crosstalk between the intestine and the brain, ST:STUDY_SUMMARY evaluating the consequences of intestinal inflamma-tion on neuroinflammation and ST:STUDY_SUMMARY hippocampal adult neurogenesis. By using different DSS admin-istration ST:STUDY_SUMMARY strategies, we were able to induce acute or chronic colitis simulating clinical ST:STUDY_SUMMARY character-istics observed in IBD patients ST:INSTITUTE Agenzia Nazionale per le Nuove Tecnologie, l'Energia e lo Sviluppo Economico ST:INSTITUTE Sostenibile ST:LAST_NAME Lorenzo Rebenaque ST:FIRST_NAME Laura ST:ADDRESS calle seminari sn Alfara del Patriarca ST:EMAIL laura.lorenzorebenaque@uchceu.es ST:PHONE 615056012 #SUBJECT SU:SUBJECT_TYPE Mammal SU:SUBJECT_SPECIES Mus musculus SU:TAXONOMY_ID 10090 #FACTORS #SUBJECT_SAMPLE_FACTORS: SUBJECT(optional)[tab]SAMPLE[tab]FACTORS(NAME:VALUE pairs separated by |)[tab]Raw file names and additional sample data SUBJECT_SAMPLE_FACTORS - UN A WK1 1 Group:UN | Moment:7 ACUTE RAW_FILE_NAME=UN A WK1 1.raw SUBJECT_SAMPLE_FACTORS - UN A WK1 2 Group:UN | Moment:7 ACUTE RAW_FILE_NAME=UN A WK1 2.raw SUBJECT_SAMPLE_FACTORS - UN A WK1 3 Group:UN | Moment:7 ACUTE RAW_FILE_NAME=UN A WK1 3.raw SUBJECT_SAMPLE_FACTORS - UN A WK1 4 Group:UN | Moment:7 ACUTE RAW_FILE_NAME=UN A WK1 4.raw SUBJECT_SAMPLE_FACTORS - UN A WK1 5 Group:UN | Moment:7 ACUTE RAW_FILE_NAME=UN A WK1 5.raw SUBJECT_SAMPLE_FACTORS - DSS A WK1 1 Group:DSS | Moment:7 ACUTE RAW_FILE_NAME=DSS A WK1 1.raw SUBJECT_SAMPLE_FACTORS - DSS A WK1 2 Group:DSS | Moment:7 ACUTE RAW_FILE_NAME=DSS A WK1 2.raw SUBJECT_SAMPLE_FACTORS - DSS A WK1 3 Group:DSS | Moment:7 ACUTE RAW_FILE_NAME=DSS A WK1 3.raw SUBJECT_SAMPLE_FACTORS - DSS A WK1 4 Group:DSS | Moment:7 ACUTE RAW_FILE_NAME=DSS A WK1 4.raw SUBJECT_SAMPLE_FACTORS - DSS A WK1 5 Group:DSS | Moment:7 ACUTE RAW_FILE_NAME=DSS A WK1 5.raw SUBJECT_SAMPLE_FACTORS - UN A WK2 1 Group:UN | Moment:14 ACUTE RAW_FILE_NAME=UN A WK2 1.raw SUBJECT_SAMPLE_FACTORS - UN A WK2 2 Group:UN | Moment:14 ACUTE RAW_FILE_NAME=UN A WK2 2.raw SUBJECT_SAMPLE_FACTORS - DSS A WK2 1 Group:DSS | Moment:14 ACUTE RAW_FILE_NAME=DSS A WK2 1.raw SUBJECT_SAMPLE_FACTORS - DSS A WK2 2 Group:DSS | Moment:14 ACUTE RAW_FILE_NAME=DSS A WK2 2.raw SUBJECT_SAMPLE_FACTORS - DSS A WK2 3 Group:DSS | Moment:14 ACUTE RAW_FILE_NAME=DSS A WK2 3.raw SUBJECT_SAMPLE_FACTORS - DSS A WK2 4 Group:DSS | Moment:14 ACUTE RAW_FILE_NAME=DSS A WK2 4.raw SUBJECT_SAMPLE_FACTORS - DSS A WK2 5 Group:DSS | Moment:14 ACUTE RAW_FILE_NAME=DSS A WK2 5.raw SUBJECT_SAMPLE_FACTORS - UN C 1 Group:UN | Moment:CRONICA RAW_FILE_NAME=UN C 1.raw SUBJECT_SAMPLE_FACTORS - UN C 2 Group:UN | Moment:CRONICA RAW_FILE_NAME=UN C 2.raw SUBJECT_SAMPLE_FACTORS - UN C 3 Group:UN | Moment:CRONICA RAW_FILE_NAME=UN C 3.raw SUBJECT_SAMPLE_FACTORS - UN C 4 Group:UN | Moment:CRONICA RAW_FILE_NAME=UN C 4.raw SUBJECT_SAMPLE_FACTORS - UN C 5 Group:UN | Moment:CRONICA RAW_FILE_NAME=UN C 5.raw SUBJECT_SAMPLE_FACTORS - UN C 6 Group:UN | Moment:CRONICA RAW_FILE_NAME=UN C 6.raw SUBJECT_SAMPLE_FACTORS - UN C 7 Group:UN | Moment:CRONICA RAW_FILE_NAME=UN C 7.raw SUBJECT_SAMPLE_FACTORS - DSS C1 Group:DSS | Moment:CRONICA RAW_FILE_NAME=DSS C1.raw SUBJECT_SAMPLE_FACTORS - DSS C2 Group:DSS | Moment:CRONICA RAW_FILE_NAME=DSS C2.raw SUBJECT_SAMPLE_FACTORS - DSS C3 Group:DSS | Moment:CRONICA RAW_FILE_NAME=DSS C3.raw SUBJECT_SAMPLE_FACTORS - DSS C4 Group:DSS | Moment:CRONICA RAW_FILE_NAME=DSS C4.raw SUBJECT_SAMPLE_FACTORS - DSS C5 Group:DSS | Moment:CRONICA RAW_FILE_NAME=DSS C5.raw SUBJECT_SAMPLE_FACTORS - DSS C6 Group:DSS | Moment:CRONICA RAW_FILE_NAME=DSS C6.raw SUBJECT_SAMPLE_FACTORS - DSS C7 Group:DSS | Moment:CRONICA RAW_FILE_NAME=DSS C7.raw SUBJECT_SAMPLE_FACTORS - DSS C8 Group:DSS | Moment:CRONICA RAW_FILE_NAME=DSS C8.raw #COLLECTION CO:COLLECTION_SUMMARY Fecal sample were collected and immediately snap frozen for metabolomics CO:COLLECTION_SUMMARY analysis at the end of experiment CO:SAMPLE_TYPE Colon #TREATMENT TR:TREATMENT_SUMMARY For induction of acute colitis, male mice of 8 weeks of age were administered TR:TREATMENT_SUMMARY with a single cycle of 0.7% (w/v) DSS for 7 days followed by 3 or 7 days of TR:TREATMENT_SUMMARY DSS-free drinking water. For induction of chronic colitis, male mice of 8 weeks TR:TREATMENT_SUMMARY of age were treated with 3 repeated DSS cycles of 7 days each followed by a TR:TREATMENT_SUMMARY recovery period of 14 days with DSS-free drinking water. #SAMPLEPREP SP:SAMPLEPREP_SUMMARY A pool of 2 frozen stool samples from 2 independent mice (total dry weigh SP:SAMPLEPREP_SUMMARY 15-25mg) from the different experimental groups [UN-Acute n=5; UN-Chronic n= 7; SP:SAMPLEPREP_SUMMARY DSS-acute, at the end (n=5) or one week after DSS treatment (n=5) and SP:SAMPLEPREP_SUMMARY DSS-chronic (n=8)] were mixed and shacked for two times in 750 l of aqueous SP:SAMPLEPREP_SUMMARY solution with 75% of methanol, 0.1% of formic acid and 1ug/ml of formonetin as SP:SAMPLEPREP_SUMMARY internal control for 20 min at room temperature. The mixture was then vortexed SP:SAMPLEPREP_SUMMARY for 3 min followed by centrifugation at 15 000g for 15 min. The suspension SP:SAMPLEPREP_SUMMARY (600μL) was used for metabolic profiling. For the LC-ESI-MS analysis, samples SP:SAMPLEPREP_SUMMARY were transferred to HPLC tubes and an aliquot of 3 μL was injected for the SP:SAMPLEPREP_SUMMARY analysis. Liquid chromatography coupled to high-resolution mass spectrometry SP:SAMPLEPREP_SUMMARY conditions were as pre-viously reported SP:SAMPLEPREP_SUMMARY https://www.mdpi.com/1422-0067/22/18/9716. #CHROMATOGRAPHY CH:CHROMATOGRAPHY_TYPE Reversed phase CH:INSTRUMENT_NAME Q-Exactive CH:COLUMN_NAME C18 #ANALYSIS AN:ANALYSIS_TYPE MS #MS MS:INSTRUMENT_NAME Thermo Q Exactive Orbitrap MS:INSTRUMENT_TYPE Orbitrap MS:MS_TYPE ESI MS:ION_MODE POSITIVE MS:MS_COMMENTS ESI/APCI. Untargeted metabolomics was performed using the Compound Discovered MS:MS_COMMENTS software (Thermofisher Scientific), which performs chromatogram alignment, peak MS:MS_COMMENTS picking, and public database (e.g., ChemSpider, KEGG, Metabolika) querying based MS:MS_COMMENTS on accurate masses (m/z). MS:MS_RESULTS_FILE ST002275_AN003717_Results.txt UNITS:m/z ratio Has m/z:Yes Has RT:Yes RT units:Minutes #END