Metagenomic approach for eDNA sequencing with Oxford Nanopore MinION to detect elusive Alaskan species in a mesocosm
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We assess the possibility of processing species monitoring surveys through eDNA with Oxford Nanopore MinION and a metagenomic sequencing approach. We use a mesocosom (fish tank where two live individuals of Alaskan chubs (Couesius plumbeus) for this study along with Halibut DNA as an internal control. Detection is possible despite a low sensitivity. Low variance of the detection rates is encouraging for further improvements.