Highly elevated urinary acylcarnitine levels (range: 27.1-1314.0; normal: <30 mmol/mol creatinine) combined with a generalized, severe decrease of free carnitine before treatment in six patients of two families with an isolated biotin-unresponsive deficiency of 3-methylcrotonyl CoA:carboxylase (3-methylcrotonyl-CoA:carbon dioxide ligase; EC 6.4.1.4) prompted the study to specify the acyl moities attached to the carrier molecule carnitine. Only traces of 3-methylcrotonyl carnitine (1.3-2.2% of total ester concentration) were found by high performance liquid chromatography, whereas the prominent species determined by fast-atom bombardment/tandem mass spectrometry and gas chromatography-mass spectrometry corresponded to a hydroxy five-carbon-acylcarnitine. Crude urine samples were derivatized directly and the resulting N-demethylcarinitine-propylester and trimethylsilylesters/ethers of intact acylcarnitines analyzed by gas chromatography-mass spectrometry. Mass spectra acquired by both chemical ionization and electron impact gave both the molecular weight and fragmentation patterns consistent with that expected for 3-hydroxyisovaleryl carnitine. In addition, acylcarnitines were extracted from urine, hydrolyzed and the trimethylsilyl-derivatives of the organic acids analyzed by gas chromatography-mass spectrometry. Free 3-hydroxyisovaleric acid found in the hydrolyzed sample and not in an unhydrolyzed one confirmed the suggested acyl group.