I am trying to determine the short chain fatty acids in fecal sample from mice using GC. I read some papers, some of them just homogenize the fecal and filter, some of the papers do a derivatization before analysis. Kind of confusing right now
It depends on the type of column you have in your GC. For some columns derivatization is the only way you will be able to detect SCFA, but it is not always necessary depending on the column you use.
Caroline is correct - depends on the column - I would add that in general fatty acids will 'behave' better if derivatized. You also need to better define 'short chain' - to some that would mean butyric (C4) propanic (C5) and the like but in mice you might be talking about decanoic (C10) and lauric (C12) as short chain. I would suggest freeze drying the fecal pellets, grinding them finely and then boiling in methanolic HCl to derivatize to methyl esters - these should chromatograph well on a non-polar GC column such as a DB5 or HP-1. Let me know if you would like more details on the methods.
Yes, dirivatize will give the clear results, however, it is depend with column and fatty acid , you target to analyse
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