The application of modern mass spectrometry methods (SI-CID-MS/MS; MSn) in
the disclosure of new and recurrent microbial metabolites is discussed. Spr
ay ion (SI) sources coupled to different kinds of mass analyzers enable the
determination of molecular weights and chemical formulas of given samples
even in mixtures. Diagnostic fragment formation by collision-induced dissoc
iation (CID-MS/MS) and MSn experiments using ion trap mass analyzers are sh
own as another indispensable source of structural information. Due to the d
evelopment of benchtop-type mass spectrometers coupled to high-performance
liquid chromatography (HPLC), MS can be practised in almost every laborator
y as a powerful tool in natural product analysis. Examples are given for sp
ecial MS applications in identification of bioactive metabolites from scree
ning strains.