Previous studies showed that colllsionally activated gasphase carboxylate anlons of saturated fatty acids undergo losses of the elements of CH4, C2H6, C,H6, ... by way of a highly speclfk 1,4-eUmlnatbn of H, . These CnH2n+2 loses begln at the alkyl terminus and progress along the entire alkyl chaln. I n this paper we report that the presence of a substituent such as an alkyl branch, hydroxy group, cyclopropane rlng, cyclopropene ring, or epoxide rlng Interrupts this process in a characteristic fashlon that permits lndentlflcation of the substltuent and location of its position on the acid chaln. This method not only is useful for structural characterlzatlon of pure free fatty aclds but also Is applicable to the analysis of mixtures of carboxylic acids.Many lower forms of organisms such as bacteria, sponges, and certain plants possess the capability of producing a variety of structurally modified fatty acids. The structural modifications include branching, cyclopropane rings, cyclopropene rings, epoxy substituents, hydroxy and alkoxy groups, and unusual unsaturated acids. These acids are of interest because of their uniqueness and their utility for characterizing the organisms (1-5). Moreover, they may have substantial physiological implications for the organisms producing those substances and for organisms with which they come in contact.The problem of studying a specific fatty acid from a natural source is complicated because it must be isolated from a complex mixture of similar compounds. Classical methods of lipid analysis are described in several texts (4,6, 7). A wide range of techniques have been used for characterizing the purified compounds. They include comparison of chromatographic retention times with those of known compounds, degradative analysis, derivatization followed by analysis, synthesis of model compounds for comparison, and a variety of spectroscopic methods.Mass spectrometry has been especially useful for studying these compounds because pertinent structural information may be obtained from small samples, and gas chromatography/mass spectrometry (GC/MS) is an effective method for dealing with mixtures (8). The recent characterization of lipids of marine sponges by Djerassi and co-workers exemplifies the practical applicability of the method (ref 9 and 10 and references cited therein). Unfortunately, derivatization is necessary, as free acids are not amenable to GC/MS.A number of mass spectrometry methods have been applied to the study of structurally modified acids (11). Pioneering work in the field was done by Stenhagen and co-workers (12-16) who studied methyl esters of fatty acids by electron ionization (EI) mass spectrometry. Informative high mass ions are of low abundance and if double bonds are present, their location is obscured by rearrangments. Pyrrolidide (1 7-20) and more recently picolinyl derivatives of fatty acids (21-23) were established to be useful for locating the double bond position and other structural modifications. Chemical ionization (CI) mass spectrometry has been tip...