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MB Sample ID: SA014979

Local Sample ID:9798
Subject ID:SU000355
Subject Type:Animal
Subject Species:Bos taurus
Taxonomy ID:9913
Species Group:Mammal

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Subject:

Subject ID:SU000355
Subject Type:Animal
Subject Species:Bos taurus
Taxonomy ID:9913
Species Group:Mammal

Factors:

Local Sample IDMB Sample IDFactor Level IDLevel ValueFactor Name
9798SA014979FL0033553Main factor (1 to 5)

Collection:

Collection ID:CO000349
Collection Summary:On day 15 after insemination, the uterine horn ipsilateral to the corpus luteum was flushed by transcervical catheterization and infusion of 20 mL of phosphate buffered solution with 0.1% of polyvinyl acetate. The solution was infused using a 60 mL dosing plastic syringe connected in a 20 to 24 French silicone coated latex Foley catheter. The fluid infused was recovery into the same syringe used for infusion and then examined in a petri dish under stereoscope for location of conceptus tissue. The uterine fluid recovered was placed in conical tubes in ice and later centrifuged at 2,000 × g at 4ᵒC. The supernatant was collect, aliquoted and stored at -80ᵒC for later analyses of fluid composition.
Sample Type:Uterus

Treatment:

Treatment ID:TR000369
Treatment Summary:No treatments were administered on the subjects. The factors of interest are pregnant status (pregnant vs. nonpregnant) and stage of conceptus development (ovoid vs. tubular vs. filamentous), which was evaluated base on the shape and length of the conceptus. Thus, cows were classified as nonpregnant (no conceptus recovered), pregnant with an ovoid conceptus (1-4 mm), pregnant with a tubular conceptus (5-19 mm), or pregnant with a filamentous conceptus (20-80 mm). The fifth group is part of a preliminary study comparing a different reproductive physiology condition prior enrollment. Cows in the fifth group are all pregnant with a filamentous conceptus. Interferon-tau, a type-I interferon secreted by exclusively by trophectoderm cells of ruminants conceptuses, was measured in all uterine flushing. Nonpregnant status was confirmed only for those that had no signal of interferon-tau in the uterine flushing. Samples were arranged in 6 blocks of 5 samples each. Within each block, all 5 groups are represented. For each group, samples were selected randomly from the population in the study. All investigators, except for the study administrator, and collaborators should be blind to factors of interest.

Sample Preparation:

Sampleprep ID:SP000363
Sampleprep Summary:None
Sampleprep Protocol Filename:Metabolomics_LCMSProtocol_plasma.pdf
Appendix A - Internal Standard Prep GLCMS.pdf

Combined analysis:

Analysis ID AN000540 AN000541
Analysis type MS MS
Chromatography type Reversed phase Reversed phase
Chromatography system Thermo Scientific-Dionex Ultimate 3000 Thermo Scientific-Dionex Ultimate 3000
Column ACE Excel 2 C18-PFP (100 x 2.1mm, 2um) ACE Excel 2 C18-PFP (100 x 2.1mm, 2um)
MS Type ESI ESI
MS instrument type Orbitrap Orbitrap
MS instrument name Thermo Q Exactive Orbitrap Thermo Q Exactive Orbitrap
Ion Mode POSITIVE NEGATIVE
Units peak area peak area

Chromatography:

Chromatography ID:CH000378
Chromatography Summary:None
Methods Filename:Metabolomics_LCMSProtocol_plasma.pdf
Instrument Name:Thermo Scientific-Dionex Ultimate 3000
Column Name:ACE Excel 2 C18-PFP (100 x 2.1mm, 2um)
Flow Rate:0.350mL/min-0.600mL/min
Solvent A:100% water; 0.1% formic acid
Solvent B:100% acetonitrile
Chromatography Type:Reversed phase

MS:

MS ID:MS000476
Analysis ID:AN000540
Instrument Name:Thermo Q Exactive Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
Ion Mode:POSITIVE
  
MS ID:MS000477
Analysis ID:AN000541
Instrument Name:Thermo Q Exactive Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
Ion Mode:NEGATIVE
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