Abstract
A new species of freshwater pipefish, Microphis arrakisae n. sp., is described from the west Indonesian Islands (Java, Bali and Lombok). This species is morphologically very close to Microphis retzii (Bleeker, 1856), which is found in the eastern Indonesian Islands (Sulawesi, Ceram, Ambon and Papua). However, it can be distinguished by its in vivo coloration. Furthermore, genetic analysis of the fragment of the COI gene indicates that is represents a distinct genetic lineage in the Indonesian region.