20 páginas, 3 figuras, 6 tablasMost photosynthetic dinoflagellates contain a chloroplast with peridinin as the major carotenoid. Chloroplasts from other algal lineages have been reported, suggesting multiple plastid losses and replacements through endosymbiotic events. The pigment composition of 64 dinoflagellate species (122 strains) was analysed by using high-performance liquid chromatography. In addition to chlorophyll (chl) a, both chl c2 and divinyl protochlorophyllide occurred in chl c-containing species. Chl c1 co-occurred with chl c2 in some peridinin-containing (e.g. Gambierdiscus spp.) and fucoxanthin-containing dinoflagellates (e.g. Kryptoperidinium foliaceum). Chl c3 occurred in dinoflagellates whose plastids contained 19’-acyloxyfucoxanthins (e.g. Karenia mikimotoi). Chl b was present in green dinoflagellates (Lepidodinium chlorophorum). Based on unique combinations of chlorophylls and carotenoids, 6 pigment-based chloroplast types were defined: Type 1: peridinin/dinoxanthin/chl c2 (Alexandrium minutum); Type 2: fucoxanthin/19’-acyloxy fucoxanthins/4-keto-19’-acyloxy-fucoxanthins/gyroxanthin diesters/chl c2, c3, monogalactosyl-diacylglycerol-chl c2 (Karenia mikimotoi); Type 3: fucoxanthin/19’-acyloxyfucoxanthins/gyroxanthin diesters/chl c2, c3 (Karlodinium veneficum); Type 4: fucoxanthin/chl c1, c2 (K. foliaceum); Type 5: alloxanthin/chl c2/phycobiliproteins (Dinophysis tripos); Type 6: neoxanthin/violaxanthin/a major unknown carotenoid/chl b (Lepidodinium chlorophorum). While plastids with peridinin, and probably those with chl b, originated by secondary endosymbiosis, the other chloroplast types were obtained through tertiary endosymbiosis. Chloroplast types corresponded with evolutionary lineages within dinoflagellates. Caution must be observed when only peridinin is used for tracking photosynthetic dinoflagellates in field samples. The additional marker pigments offer oceanographers greater power for detecting dinophytes in mixed populations.This work was supported by funds\ud from the Xunta de Galicia, Spain (PGIDIT-06 PXIB 6021\ud 43PR), from the Spanish Ministry of Science and Innovation\ud (CSIC (200930I009) and from Instituto Español de Oceano -\ud grafía (project CCIEO).Peer reviewe