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MB Sample ID: SA174771
Local Sample ID: | ST9 |
Subject ID: | SU001949 |
Subject Type: | Mammal |
Subject Species: | Mus musculus |
Taxonomy ID: | 10090 |
Genotype Strain: | C57BL/6 mice (Wild-type) |
Age Or Age Range: | six weeks old |
Gender: | Female |
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Subject:
Subject ID: | SU001949 |
Subject Type: | Mammal |
Subject Species: | Mus musculus |
Taxonomy ID: | 10090 |
Genotype Strain: | C57BL/6 mice (Wild-type) |
Age Or Age Range: | six weeks old |
Gender: | Female |
Factors:
Local Sample ID | MB Sample ID | Factor Level ID | Level Value | Factor Name |
---|---|---|---|---|
ST9 | SA174771 | FL021460 | TCDD | Experimental factor |
Collection:
Collection ID: | CO001942 |
Collection Summary: | Six-week-old female wildtype (WT) C57BL/6 mice acquired from Jackson Laboratories (Bar Harbor, ME) were housed in an AAALAC-accredited specific-pathogen-free animal facility located at the grounds of the University of South Carolina School of Medicine for the entirety of all experiments. Mice within the facility were housed within polycarbonate cages containing cellulose fiber chips as bedding in a temperature and humidity-controlled environment. After a 2-week acclimatization period, the mice were divided randomly into two groups that would be administered a single 100µl intraperitoneal injection containing sterile corn oil (VEH group) or an intraperitoneal injection of 10µg/kg TCDD suspended within sterile corn oil (TCDD group). At the 72h time point following TCDD or VEH exposure, the mice were humanely euthanized by an overdose of inhaled isoflurane. Cecal content and blood sera were collected at the time of necropsy. |
Sample Type: | Blood (serum) |
Treatment:
Treatment ID: | TR001961 |
Treatment Summary: | Six-week-old female wildtype (WT) C57BL/6 mice acquired from Jackson Laboratories (Bar Harbor, ME) were housed in an AAALAC-accredited specific-pathogen-free animal facility located at the grounds of the University of South Carolina School of Medicine for the entirety of all experiments. Mice within the facility were housed within polycarbonate cages containing cellulose fiber chips as bedding in a temperature and humidity-controlled environment. After a 2-week acclimatization period, the mice were divided randomly into two groups that would be administered a single 100µl intraperitoneal injection containing sterile corn oil (VEH group) or an intraperitoneal injection of 10µg/kg TCDD suspended within sterile corn oil (TCDD group). At the 72h time point following TCDD or VEH exposure, the mice were humanely euthanized by an overdose of inhaled isoflurane. Cecal content and blood sera were collected at the time of necropsy. |
Sample Preparation:
Sampleprep ID: | SP001955 |
Sampleprep Summary: | Cecal content and serum samples were processed according to previously described methods for the metabolomic profiling using liquid chromatography-mass spectrometry (LC-MS) with slight modifications. For cecal content, ~25 mg was aliquoted into 1.5-mL Eppendorf tubes (Hamburg, Germany) containing ~20 mg acid washed glass beads (Sigma-Aldrich, St. Louis, MO), extracted into ice-cold MeOH:water (1:1, v/v) on a Qiagen TissueLyzer at 50 Hz for 10 min (Hilden, Germany), and centrifuged at 12,000 rpm for 10 min. For blood sera, 20 µL aliquots were extracted by adding 180 µL cold MeOH, briefly vortexed, and incubated at -20 ºC for 30 min for protein precipitation. The supernatants of both matrices were dried in a CentriVap vacuum concentrator (Labconco, MO) and resuspended in ACN:water (2:98, v/v) upon analysis. |
Combined analysis:
Analysis ID | AN003034 |
---|---|
Analysis type | MS |
Chromatography type | Reversed phase |
Chromatography system | Thermo Vanquish |
Column | Waters Acquity BEH HSS T3 (100 x 2.1mm,1.8um) |
MS Type | ESI |
MS instrument type | Orbitrap |
MS instrument name | Thermo Q Exactive Orbitrap |
Ion Mode | POSITIVE |
Units | m/z |
Chromatography:
Chromatography ID: | CH002247 |
Instrument Name: | Thermo Vanquish |
Column Name: | Waters Acquity BEH HSS T3 (100 x 2.1mm,1.8um) |
Chromatography Type: | Reversed phase |
MS:
MS ID: | MS002821 |
Analysis ID: | AN003034 |
Instrument Name: | Thermo Q Exactive Orbitrap |
Instrument Type: | Orbitrap |
MS Type: | ESI |
MS Comments: | fullscan *.raw data acquired by Thermo XCalibur software |
Ion Mode: | POSITIVE |