DNA Barcoding Indonesian freshwater fishes: challenges and prospects

Abstract

With 1172 native species, the Indonesian ichthyofauna is among the world’s most speciose. Despite that the inventory of the Indonesian ichthyofauna started during the eighteen century, the numerous species descriptions during the last decades highlight that the taxonomic knowledge is still fragmentary. Meanwhile, the fast increase of anthropogenic perturbations during the last decades is posing serious threats to Indonesian biodiversity. Indonesia, however, is one of the major sources of export for the international ornamental trade and home of several species of high value in aquaculture. The development of new tools for species identification is urgently needed to improve the sustainability of the exploitation of the Indonesian ichthyofauna. With the aim to build comprehensive DNA barcode libraries, the co-authors have started a collective effort to DNA barcode all Indonesian freshwater fishes. The aims of this review are: (1) to produce an overview of the ichthyological researches conducted so far in Indonesia, (2) to present an updated checklist of the freshwater fishes reported to date from Indonesia’s inland waters, (3) to highlight the challenges associated with its conservation and management, (4) to present the benefits of developing comprehensive DNA barcode reference libraries for the conservation of the Indonesian ichthyofauna.

Revisiting the ichthyodiversity of Java and Bali through DNA barcodes: taxonomic coverage, identification accuracy, cryptic diversity and identification of exotic species

“…The checklist of the Javanese and Balinese freshwater fishes has been assembled from available online catalogues including fishbase (Froese & Pauly ) and Eschmeyer catalogue of fishes (Eschmeyer & Fricke ) as detailed in Hubert and colleagues (Hubert et al . ). Occurrences were further refined based on available monographs (Kottelat et al .…”

“…0.6 species per 1000 km 2 ) ahead of Brazil (0.37 species per 1000 km 2 ) and the Democratic Republic of Congo (0.48 species per 1000 km 2 ) (Hubert et al . ). In Sundaland, nearly 900 species and 430 endemics have been reported, a diversity that accounts for 74% and 48% of the global and endemic diversity, respectively (Hubert et al .…”

“…In Sundaland, nearly 900 species and 430 endemics have been reported, a diversity that accounts for 74% and 48% of the global and endemic diversity, respectively (Hubert et al . ). Amongst the three major islands of Sundaland, Java exhibits the highest density of species with 1.7 species per 1000 km 2 ( ca .…”

Identifikasi Jenis Dan Hubungan Kelimpahan Larva Ikan Dengan Kualitas Air Di Danau Ranau, Sumatera Selatan

“…Oreochromis niloticus dan Oreochromis mossambicus merupakan spesies invasif yang memiliki potensi tinggi untuk dibudidayakan sebagai komoditas ikan konsumsi di Keramba Jaring Apung (KJA) milik masyarakat di Danau Ranau. Hubert et al (2015) menyatakan bahwa spesies invasif seperti Oreochromis niloticus dan Oreochromis mossambicus, ikan gupi seperti Poecilia reticulata di Indonesia memiliki potensi tinggi untuk akuakultur dan terkadang mendominasi biomassa komunitas ikan, walaupun beberapa kandidat spesies milik genus yang sama sudah tersedia di ichthyofauna asli Indonesia.…”

DNA Barcoding: A Study of Guppy Fish (Poecilia reticulata) in East Java, Indonesia

“…distribution on the lake, river, and water ecosystems in Indonesia (Hubert et al, 2015). Species identification is essential for bio-conservation, preventing illegal exploitation, and protecting the species (Ciavaglia et al, 2015;Meganathan et al, 2013).…”