Poly (3-hydroxyalkanoates) are natural aliphatic polyesters produced and accumulated by many bacteria as carbon and energy supply. They consist of β-hydroxy ester units, with pendant side chains of different lengths that can be functionalized. Thanks to their biodegradability and biocompatibility, they are promising polymers for biomedical applications, especially for controlled drug delivery systems. In this context, we aimed to synthesize PHA-based amphiphilic copolymers with different molecular architectures, and to study their self-assembly in water. First, a simple and straightforward method using click chemistry has been used to graft poly(ethylene glycol) (PEG) oligomers. A series of well-defined diblock copolymers PHA-b-PEG has thus been synthesized using copper-catalyzed azide-alkyne cycloaddition (CuAAC). Medium chain length PHA-based diblock copolymers have shown their ability to self-assemble into stable micelles having very low critical micelle concentrations. Afterwards, amphiphilic graft copolymers PHOU-g-PEG have been synthesized using thiol-ene addition. In this case, cryo-electron microscopy (cryo-TEM) analysis revealed that graft copolymers self-assembled into vesicular morphologies, i.e. in polymersomes. Finally, the synthesis of amphiphilic graft copolymers bearing perfluorinated chains PHOU-g-(F;PEG) was performed. After aqueous self-assembly, cryo-TEM shown the formation of multicompartment micelles, i.e. with a core displaying segregated hydrophobic and fluorophilic domains. Moreover, these multicompartment micelles have shown their cytocompatibility