DNA barcoding of freshwater ichthyoplankton in the Neotropics as a tool for ecological monitoring

Abstract

Quantifying and classifying ichthyoplankton is one of the most effective ways of monitoring the recruitment process in fishes. However, correctly identifying the fish based on morphological characters is extremely difficult, especially in the early stages of development. We examined ichthyoplankton from tributaries and reservoirs along the middle stretch of the Paranapanema River, one of the areas most impacted by hydroelectric projects in the Neotropics. Matching DNA sequences of the COI gene (628-648 bp) allowed us to identify 99.25% of 536 samples of eggs (293) and larvae (243) subjected to BOLD-IDS similarity analysis with a species-level threshold of 1.3%. The results revealed 37 species in 27 genera, 15 families and four orders, some 23.8% of documented fish species in the Paranapanema River. Molecular identification meant that we could include data from egg samples that accounted for about 30% of the species richness observed. The results in this study confirm the efficacy of DNA barcoding in identifying Neotropical ichthyoplankton and show how the data produced provide valuable information for preparing plans for conserving and managing inland waters.

Pimelodus maculatus (Siluriformes, Pimelodidae): complete mtDNA sequence of an economically important fish from the São Francisco river basin

“…Several genetic studies of partial mitochondrial and nuclear regions of P. maculatus have found a high degree of genetic diversity among populations (Garcia & Moreira Filho 2005;Paiva & Kalapothakis 2008;Carvalho et al 2011;Lundberg et al 2011;Pereira et al 2011;Ribolli et al 2012;Ferreira et al 2014;Frantine-Silva et al 2015). Here, we provide the first description of the complete mitochondrial DNA (mtDNA) sequence for P. maculatus, which could support the development of molecular markers studies to aid wildlife forensics, evolutionary approaches, and conservation and management studies.…”

BarcodingR: an integrated r package for species identification using DNA barcodes

“…; Frantine‐Silva et al . ). Investigation into global biodiversity has been stimulated alongside accumulation of DNA barcode data, with the BOLD system (http://www.barcodinglife.org) now having DNA barcodes for more than 250 279 species globally and 4 649 254 barcodes in total (as of January 2, 2016).…”

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

“…Salah satu cara yang paling efektif untuk memantau proses rekrutmen pada ikan adalah dengan mengkuantifikasi dan mengklasifikasikan ichthyoplankton (larva ikan). Namun, mengidentifikasi ikan dengan benar berdasarkan karakter morfologi sangat sulit, terutama pada tahap awal perkembangan (larva ikan) (Frantine-Silva et al, 2015).Diperlukan upaya perlindungan berbagai jenis larva ikan yang terancam punah dan melindungi habitat larva ikan dari degradasi kondisi perairan di Danau Ranau sehingga larva ikan dapat tumbuh dan berkembang dan diharapkan rekrutmen populasi larva ikan berhasil.…”