{
"METABOLOMICS WORKBENCH":{"STUDY_ID":"ST002059","ANALYSIS_ID":"AN003352","VERSION":"1","CREATED_ON":"January 12, 2022, 1:28 pm"},

"PROJECT":{"PROJECT_TITLE":"Unchecked oxidative stress is an insurmountable barrier for tumour cells that disseminate to skeletal muscle","PROJECT_SUMMARY":"Skeletal muscle has been recognized as an inhospitable site for disseminated tumour cells (DTCs) for decades, yet its antimetastatic nature has eluded a thorough mechanistic description. Here, we show that DTCs traffic to and persist within skeletal muscle, raising the question as to how this tissue suppresses colonization. We employed mouse and organotypic culture models along with metabolomic profiling and ultimately find that oxidative stress is a principal suppressor of DTC proliferation in skeletal muscle. DTCs bypassed this oxidative constraint upon colonization of more fertile sites, but were unable to in muscle. Functional studies demonstrated that disrupting redox homeostasis via chemogenetic induction of reactive oxygen species slowed proliferation in lung. Conversely, enhancing antioxidant potential of tumour cells via ectopic expression of catalase allowed robust colonization of skeletal muscle. These findings reveal a profound metabolic bottleneck imposed on DTCs and sustained by skeletal muscle. Understanding this biology could reveal novel DTC vulnerabilities.","INSTITUTE":"University of Colorado Anschutz Medical Campus","LAST_NAME":"Nemkov","FIRST_NAME":"Travis","ADDRESS":"12801 E 17th Avenue, RC-1 South, Rm 9121, Aurora, CO, 80045, USA","EMAIL":"travis.nemkov@cuanschutz.edu","PHONE":"303-724-3253"},

"STUDY":{"STUDY_TITLE":"4T1 and SkM cells","STUDY_SUMMARY":"4T1-parental and 4T1-SkM cells were analyzed by metabolomics","INSTITUTE":"University of Colorado Anschutz Medical Campus","LAST_NAME":"Nemkov","FIRST_NAME":"Travis","ADDRESS":"12801 E 17th Avenue, RC-1 South, Rm 9403G, Aurora, CO, 80045, USA","EMAIL":"travis.nemkov@cuanschutz.edu","PHONE":"303-724-3253"},

"SUBJECT":{"SUBJECT_TYPE":"Cultured cells","SUBJECT_SPECIES":"Homo sapiens","TAXONOMY_ID":"9606"},
"SUBJECT_SAMPLE_FACTORS":[
{
"Subject ID":"-",
"Sample ID":"P1-50K_R14+",
"Factors":{"Genotype":"4T1-Parental"},
"Additional sample data":{"RAW_FILE_NAME":"P1-50K_R14+.mzxml"}
},
{
"Subject ID":"-",
"Sample ID":"P2-50K_R6+",
"Factors":{"Genotype":"4T1-Parental"},
"Additional sample data":{"RAW_FILE_NAME":"P2-50K_R6+.mzxml"}
},
{
"Subject ID":"-",
"Sample ID":"P3-50K_R7+",
"Factors":{"Genotype":"4T1-Parental"},
"Additional sample data":{"RAW_FILE_NAME":"P3-50K_R7+.mzxml"}
},
{
"Subject ID":"-",
"Sample ID":"SK1-50K_R15+",
"Factors":{"Genotype":"4T1-SkM"},
"Additional sample data":{"RAW_FILE_NAME":"SK1-50K_R15+.mzxml"}
},
{
"Subject ID":"-",
"Sample ID":"SK2-50K_R10+",
"Factors":{"Genotype":"4T1-SkM"},
"Additional sample data":{"RAW_FILE_NAME":"SK2-50K_R10+.mzxml"}
},
{
"Subject ID":"-",
"Sample ID":"SK3-50K_R5+",
"Factors":{"Genotype":"4T1-SkM"},
"Additional sample data":{"RAW_FILE_NAME":"SK3-50K_R5+.mzxml"}
},
{
"Subject ID":"-",
"Sample ID":"P1-50K_R14-",
"Factors":{"Genotype":"4T1-Parental"},
"Additional sample data":{"RAW_FILE_NAME":"P1-50K_R14-.mzxml"}
},
{
"Subject ID":"-",
"Sample ID":"P2-50K_R6-",
"Factors":{"Genotype":"4T1-Parental"},
"Additional sample data":{"RAW_FILE_NAME":"P2-50K_R6-.mzxml"}
},
{
"Subject ID":"-",
"Sample ID":"P3-50K_R7-",
"Factors":{"Genotype":"4T1-Parental"},
"Additional sample data":{"RAW_FILE_NAME":"P3-50K_R7-.mzxml"}
},
{
"Subject ID":"-",
"Sample ID":"SK1-50K_R15-",
"Factors":{"Genotype":"4T1-SkM"},
"Additional sample data":{"RAW_FILE_NAME":"SK1-50K_R15-.mzxml"}
},
{
"Subject ID":"-",
"Sample ID":"SK2-50K_R10-",
"Factors":{"Genotype":"4T1-SkM"},
"Additional sample data":{"RAW_FILE_NAME":"SK2-50K_R10-.mzxml"}
},
{
"Subject ID":"-",
"Sample ID":"SK3-50K_R5-",
"Factors":{"Genotype":"4T1-SkM"},
"Additional sample data":{"RAW_FILE_NAME":"SK3-50K_R5-.mzxml"}
}
],
"COLLECTION":{"COLLECTION_SUMMARY":". 4T1-parental and 4T1-SkM cells were plated in 6-well plates at an initial density of 50,000 cells/well and collected 48h later (final density ~275,000 cells/well). Wells were washed twice with 1x PBS and cells were scraped into 1.5 mL microcentrifuge tubes and spun at 16,000 x g for 3 minutes. Samples were then flash frozen and stored at -80°C until ready to process.","SAMPLE_TYPE":"Breast cancer cells"},

"TREATMENT":{"TREATMENT_SUMMARY":"A 4T1 subline derived from a rare skeletal muscle metastasis cells was serially passaged through Balb/c mice to achieve a 4T1 derivative that effectively colonized skeletal muscle (termed “4T1-SkM”)"},

"SAMPLEPREP":{"SAMPLEPREP_SUMMARY":"Prior to LC-MS analysis, tissue samples were weighed and resuspended in pre-chilled (-20°C) methanol:acetonitrile:water (5:3:2, v:v) to a final concentration of 30 mg/ml, cell samples were placed on ice and re-suspended with methanol:acetonitrile:water (5:3:2, v:v) at a concentration of 2x106 cells/mL, and media samples were extracted with the same solution at a dilution of 1:25 (v/v). Suspensions were vortexed continuously for 30 min at 4°C. Insoluble material was removed by centrifugation at 18,000 g for 10 min at 4°C and supernatants were isolated for metabolomics analysis by UHPLC-MS."},

"CHROMATOGRAPHY":{"CHROMATOGRAPHY_TYPE":"Reversed phase","INSTRUMENT_NAME":"Thermo Vanquish","COLUMN_NAME":"Phenomenex Kinetex C18 (150 x 2.1mm, 2.6 um)"},

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

"MS":{"INSTRUMENT_NAME":"Thermo Q Exactive Orbitrap","INSTRUMENT_TYPE":"Orbitrap","MS_TYPE":"ESI","ION_MODE":"POSITIVE","MS_COMMENTS":"The Q Exactive mass spectrometer (ThermoFisher) was operated independently in positive or negative ion mode, scanning in Full MS mode (2 scans) from 60 to 900 m/z at 70,000 resolution, with 4 kV spray voltage, 45 sheath gas, 15 auxiliary gas. Calibration was performed prior to analysis using the PierceTM Positive and Negative Ion Calibration Solutions (ThermoFisher). Acquired data was then converted from raw to mzXML file format using Mass Matrix (Cleveland, OH). Samples were analyzed in randomized order with a technical mixture injected periodically through analysis to qualify instrument performance. Metabolite assignments, isotopologue distributions, and correction for expected natural abundances of deuterium, 13C, and 15N isotopes were performed using MAVEN (Princeton, NJ)"},

"MS_METABOLITE_DATA":{
"Units":"AU",

"Data":[{"Metabolite":"L-alanine","P1-50K_R14+":"1.67E+05","P2-50K_R6+":"3.52E+05","P3-50K_R7+":"1.70E+05","SK1-50K_R15+":"3.52E+05","SK2-50K_R10+":"3.78E+05","SK3-50K_R5+":"5.19E+05"},{"Metabolite":"L-arginine","P1-50K_R14+":"1.02E+05","P2-50K_R6+":"2.12E+05","P3-50K_R7+":"1.95E+05","SK1-50K_R15+":"4.38E+05","SK2-50K_R10+":"1.53E+06","SK3-50K_R5+":"6.12E+05"},{"Metabolite":"L-asparagine","P1-50K_R14+":"9.76E+03","P2-50K_R6+":"6.88E+03","P3-50K_R7+":"1.46E+04","SK1-50K_R15+":"7.10E+03","SK2-50K_R10+":"2.73E+04","SK3-50K_R5+":"8.59E+03"},{"Metabolite":"L-aspartate","P1-50K_R14+":"8.88E+04","P2-50K_R6+":"1.43E+05","P3-50K_R7+":"9.42E+04","SK1-50K_R15+":"8.46E+04","SK2-50K_R10+":"1.09E+05","SK3-50K_R5+":"1.05E+05"},{"Metabolite":"L-cysteine","P1-50K_R14+":"1.03E+04","P2-50K_R6+":"2.16E+04","P3-50K_R7+":"1.49E+04","SK1-50K_R15+":"2.66E+04","SK2-50K_R10+":"3.49E+04","SK3-50K_R5+":"3.98E+04"},{"Metabolite":"L-glutamate","P1-50K_R14+":"9.38E+05","P2-50K_R6+":"1.17E+06","P3-50K_R7+":"8.68E+05","SK1-50K_R15+":"1.60E+06","SK2-50K_R10+":"1.06E+06","SK3-50K_R5+":"2.35E+06"},{"Metabolite":"glycine","P1-50K_R14+":"2.09E+06","P2-50K_R6+":"1.92E+06","P3-50K_R7+":"2.15E+06","SK1-50K_R15+":"1.83E+06","SK2-50K_R10+":"2.06E+06","SK3-50K_R5+":"2.07E+06"},{"Metabolite":"L-histidine","P1-50K_R14+":"1.10E+05","P2-50K_R6+":"1.57E+05","P3-50K_R7+":"1.08E+05","SK1-50K_R15+":"2.86E+05","SK2-50K_R10+":"3.16E+05","SK3-50K_R5+":"4.61E+05"},{"Metabolite":"L-leucine","P1-50K_R14+":"2.06E+07","P2-50K_R6+":"3.26E+07","P3-50K_R7+":"1.94E+07","SK1-50K_R15+":"3.74E+07","SK2-50K_R10+":"4.69E+07","SK3-50K_R5+":"7.71E+07"},{"Metabolite":"L-isoleucine","P1-50K_R14+":"1.24E+07","P2-50K_R6+":"2.04E+07","P3-50K_R7+":"1.23E+07","SK1-50K_R15+":"2.42E+07","SK2-50K_R10+":"1.34E+07","SK3-50K_R5+":"4.35E+07"},{"Metabolite":"L-lysine","P1-50K_R14+":"1.56E+05","P2-50K_R6+":"3.87E+05","P3-50K_R7+":"2.00E+05","SK1-50K_R15+":"3.37E+05","SK2-50K_R10+":"6.55E+05","SK3-50K_R5+":"5.21E+05"},{"Metabolite":"L-methionine","P1-50K_R14+":"3.56E+06","P2-50K_R6+":"6.77E+06","P3-50K_R7+":"3.98E+06","SK1-50K_R15+":"9.64E+06","SK2-50K_R10+":"1.19E+07","SK3-50K_R5+":"1.95E+07"},{"Metabolite":"L-phenylalanine","P1-50K_R14+":"9.71E+06","P2-50K_R6+":"1.99E+07","P3-50K_R7+":"8.89E+06","SK1-50K_R15+":"1.98E+07","SK2-50K_R10+":"1.51E+07","SK3-50K_R5+":"2.99E+07"},{"Metabolite":"L-proline","P1-50K_R14+":"7.63E+05","P2-50K_R6+":"1.55E+06","P3-50K_R7+":"8.87E+05","SK1-50K_R15+":"8.22E+05","SK2-50K_R10+":"8.00E+05","SK3-50K_R5+":"1.41E+06"},{"Metabolite":"L-serine","P1-50K_R14+":"1.91E+04","P2-50K_R6+":"1.04E+05","P3-50K_R7+":"2.49E+04","SK1-50K_R15+":"2.66E+04","SK2-50K_R10+":"5.06E+04","SK3-50K_R5+":"5.86E+04"},{"Metabolite":"L-threonine","P1-50K_R14+":"1.01E+05","P2-50K_R6+":"2.03E+05","P3-50K_R7+":"1.08E+05","SK1-50K_R15+":"1.98E+05","SK2-50K_R10+":"2.04E+05","SK3-50K_R5+":"2.99E+05"},{"Metabolite":"L-tryptophan","P1-50K_R14+":"2.23E+06","P2-50K_R6+":"5.60E+06","P3-50K_R7+":"2.29E+06","SK1-50K_R15+":"4.33E+06","SK2-50K_R10+":"2.80E+06","SK3-50K_R5+":"5.61E+06"},{"Metabolite":"L-tyrosine","P1-50K_R14+":"6.48E+06","P2-50K_R6+":"1.08E+07","P3-50K_R7+":"6.05E+06","SK1-50K_R15+":"1.13E+07","SK2-50K_R10+":"8.79E+06","SK3-50K_R5+":"2.11E+07"},{"Metabolite":"L-valine","P1-50K_R14+":"5.73E+06","P2-50K_R6+":"1.16E+07","P3-50K_R7+":"6.67E+06","SK1-50K_R15+":"1.11E+07","SK2-50K_R10+":"7.03E+06","SK3-50K_R5+":"2.08E+07"},{"Metabolite":"Adenosine","P1-50K_R14+":"1.91E+06","P2-50K_R6+":"1.67E+06","P3-50K_R7+":"1.48E+06","SK1-50K_R15+":"6.09E+06","SK2-50K_R10+":"3.09E+06","SK3-50K_R5+":"4.96E+06"},{"Metabolite":"Adenine","P1-50K_R14+":"2.18E+05","P2-50K_R6+":"2.54E+05","P3-50K_R7+":"2.64E+05","SK1-50K_R15+":"1.33E+06","SK2-50K_R10+":"9.97E+05","SK3-50K_R5+":"1.15E+06"},{"Metabolite":"Guanosine","P1-50K_R14+":"2.04E+06","P2-50K_R6+":"2.90E+06","P3-50K_R7+":"1.65E+06","SK1-50K_R15+":"1.21E+06","SK2-50K_R10+":"2.67E+06","SK3-50K_R5+":"2.05E+06"},{"Metabolite":"Guanine","P1-50K_R14+":"8.16E+06","P2-50K_R6+":"1.20E+07","P3-50K_R7+":"7.08E+06","SK1-50K_R15+":"3.89E+06","SK2-50K_R10+":"4.82E+06","SK3-50K_R5+":"7.37E+06"},{"Metabolite":"Cytidine","P1-50K_R14+":"2.51E+06","P2-50K_R6+":"3.47E+06","P3-50K_R7+":"1.65E+06","SK1-50K_R15+":"1.50E+06","SK2-50K_R10+":"2.58E+06","SK3-50K_R5+":"2.08E+06"},{"Metabolite":"Cytosine","P1-50K_R14+":"1.01E+06","P2-50K_R6+":"1.37E+06","P3-50K_R7+":"6.73E+05","SK1-50K_R15+":"5.69E+05","SK2-50K_R10+":"1.00E+06","SK3-50K_R5+":"8.80E+05"},{"Metabolite":"Thymine","P1-50K_R14+":"6.07E+04","P2-50K_R6+":"9.17E+04","P3-50K_R7+":"6.16E+04","SK1-50K_R15+":"5.89E+04","SK2-50K_R10+":"8.31E+04","SK3-50K_R5+":"8.83E+04"},{"Metabolite":"Uracil","P1-50K_R14+":"1.38E+06","P2-50K_R6+":"1.95E+06","P3-50K_R7+":"1.23E+06","SK1-50K_R15+":"8.78E+05","SK2-50K_R10+":"2.32E+06","SK3-50K_R5+":"1.76E+06"},{"Metabolite":"Inosine","P1-50K_R14+":"4.90E+06","P2-50K_R6+":"6.40E+06","P3-50K_R7+":"4.88E+06","SK1-50K_R15+":"4.31E+06","SK2-50K_R10+":"6.47E+06","SK3-50K_R5+":"5.64E+06"},{"Metabolite":"Hypoxanthine","P1-50K_R14+":"4.51E+07","P2-50K_R6+":"6.04E+07","P3-50K_R7+":"4.04E+07","SK1-50K_R15+":"1.81E+07","SK2-50K_R10+":"2.76E+07","SK3-50K_R5+":"4.15E+07"},{"Metabolite":"Xanthosine","P1-50K_R14+":"9.99E+03","P2-50K_R6+":"6.64E+03","P3-50K_R7+":"3.00E+03","SK1-50K_R15+":"8.93E+03","SK2-50K_R10+":"9.79E+03","SK3-50K_R5+":"9.21E+03"},{"Metabolite":"Xanthine","P1-50K_R14+":"6.05E+04","P2-50K_R6+":"1.15E+05","P3-50K_R7+":"5.42E+04","SK1-50K_R15+":"8.31E+04","SK2-50K_R10+":"6.25E+04","SK3-50K_R5+":"1.50E+05"},{"Metabolite":"3',5'-Cyclic 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}

}