Microsatellite loci development for three catfish species from northwestern South America

Abstract

The Neotropical catfish species Ageneiosus pardalis, Pimelodus grosskopfii, and Sorubim cuspicaudus are important fishery resources in Colombia that show historical declines in their capture. This study used next-generation sequencing with 454 FLX technology (Roche Applied Science) and bioinformatics analysis to develop between 18 and 24 microsatellite loci for these species. The novel microsatellite loci showed high values of polymorphic information content -PIC (A. pardalis: 0.601-0.903, P. grosskopfii: 0.748-0.946 and S. cuspicaudus: 0.383-0.876), and the average number of alleles/locus ranged from 7-15 for A. pardalis, 9-30 for P. grosskopfii and 5-14 for S. cuspicaudus. The average observed and expected heterozygosities were respectively, 0.757 ± 0.035 and 0.834 ± 0.015 for A. pardalis; 0.596 ± 0.040 and 0.881 ± 0.009 for P. grosskopfii; and 0.747 ± 0.031 and 0.757 ± 0.025 for S. cuspicaudus. For future studies, these loci can be useful to estimate the genetic diversity and population structure in these three Neotropical catfishes.

Development of novel microsatellite markers for population differentiation and detection of natural selection in wild populations of butter catfish, Ompok bimaculatus (Bloch, 1794)

“…In O. bimaculatus, majority of repeats were dinucleotide (73.4%), followed by tetranucleotide repeats (14.06%) and trinucleotide repeats (11.72%) with very low frequency of pentanucleotide and hexanucleotide repeats. Similar pattern of distribution of the repeat motifs was observed in three neotropical cat shes by Restrepo-Escobar [24]. In this study, PIC values of thirty novel polymorphic SSR loci indicated that all thirty loci are highly informative, indicating the usefulness for genetic stock structure analysis [25].…”

Genetic insights into Cyphocharax magdalenae (Characiformes: Curimatidae): Microsatellite loci development and population analysis in the Cauca River, Colombia

“…The scarce information for C. magdalenae contrasts with population genetic studies performed for Curimata mivartii [23] and species with fishing relevance of the phylogenetically close family Prochilodontidae like Prochilodus magdalenae [24][25][26], Prochilodus reticulatus [27] and Ichthyoelephas longirostris [28]. Likewise, it contrasts with studies on species of other families inhabiting the Magdalena-Cauca basin such as Pseudoplatystoma magdaleniatum [29,30], Brycon henni [31][32][33], S. cuspicaudus, Ageneiosus pardalis, Pimelodus grosskopfii [34], Pimelodus yuma [35], Pseudopimelodus magnus and Pseudopimelodus atricaudus [36]. Among the different markers used in the cited studies, microsatellites stand out as the most used tool to solve questions at micro-evolutive scale in population genetics.…”

“…Likewise, it contrasts with studies on species of other families inhabiting the Magdalena-Cauca basin such as Pseudoplatystoma magdaleniatum [ 29 , 30 ], Brycon henni [ 31 – 33 ], S . cuspicaudus , Ageneiosus pardalis , Pimelodus grosskopfii [ 34 ], Pimelodus yuma [ 35 ], Pseudopimelodus magnus and Pseudopimelodus atricaudus [ 36 ]. Among the different markers used in the cited studies, microsatellites stand out as the most used tool to solve questions at micro-evolutive scale in population genetics.…”