Population genomics of C. melanopterus using target gene capture data: demographic inferences and conservation perspectives

Scientific Reports
Pierpaolo Maisano DelserStefano Mona

Abstract

Population genetics studies on non-model organisms typically involve sampling few markers from multiple individuals. Next-generation sequencing approaches open up the possibility of sampling many more markers from fewer individuals to address the same questions. Here, we applied a target gene capture method to deep sequence ~1000 independent autosomal regions of a non-model organism, the blacktip reef shark (Carcharhinus melanopterus). We devised a sampling scheme based on the predictions of theoretical studies of metapopulations to show that sampling few individuals, but many loci, can be extremely informative to reconstruct the evolutionary history of species. We collected data from a single deme (SID) from Northern Australia and from a scattered sampling representing various locations throughout the Indian Ocean (SCD). We explored the genealogical signature of population dynamics detected from both sampling schemes using an ABC algorithm. We then contrasted these results with those obtained by fitting the data to a non-equilibrium finite island model. Both approaches supported an Nm value ~40, consistent with philopatry in this species. Finally, we demonstrate through simulation that metapopulations exhibit greater resilienc...Continue Reading

References

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Citations

Oct 29, 2017·Proceedings of the National Academy of Sciences of the United States of America·Andrea BenazzoGiorgio Bertorelle
May 20, 2020·Molecular Ecology·Erwan Delrieu-TrottinPablo Saenz-Agudelo
Mar 14, 2017·Molecular Phylogenetics and Evolution·Shannon CorriganGavin J P Naylor

Methods Mentioned

BETA
RAD-seq
PCA
PCR

Related Concepts

Metazoa
Genetics, Population
Neomalthusianism
Shark - fish
Genomics
Biological Markers
Genes
Theoretical Study
Sudden Cardiac Death
Research Methodology

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