Dinoflagellates are an extremely diverse group of unicellular eukaryotes that represent an important part of marine plankton communities. Amongst other secondary metabolites, these microorganisms are known to produce potent toxins such as the saxitoxins, which can affect marine fauna and ultimately humans who consume seafood in which these toxins have accumulated. The extreme biodiversity of dinoflagellates undoubtedly mirrors an inexhaustible reservoir of compounds, yet the chemodiversity of dinoflagellates is still poorly studied, due in part to constraints linked to the difficulty of isolating and cultivated these organisms. Nevertheless, a number of new dinoflagellate secondary metabolites have been described in recent years. Here we review these new advances in the isolation and characterization of bioactive metabolites from dinoflagellates, some of which might be of therapeutic interest in human health applications.