Publication: Koeppel et al. 2022 "Environmental DNA sequencing dataset[…]"

Authors: Alexander F. Koeppel, William J. Goodrum, Morgan Steffen, Louie Wurch, Stephen D.Turner
Title: Environmental DNA sequencing dataset from Lake Erie algal blooms using Oxford Nanopore MinION
Published in: Data in Brief (2022)
Key words: MinIONNanoporeeDNAHarmful algal bloomsFreshwater ecology
Abstract: Here we describe a publicly available environmental DNA (eDNA) sequence dataset, consisting of samples collected from a National Oceanic and Atmospheric Administration (NOAA) Great Lakes Environmental Research Laboratory (GLERL) on Lake Erie. We sequenced samples drawn from before, during, and after a 2019 Microcystis harmful algal bloom (HAB) using 3rd generation sequencing with the Oxford Nanopore MinION device. We classified the eDNA reads taxonomically, and estimated the abundances of all taxa in each sample. While the taxonomic data showed evidence of significant human and E. coli contamination, we found abundant Mycrocystis, especially in the samples drawn from bloom environments. The raw sequence data are available in the Sequence Read Archive (SRA) under accession number PRJNA812770. HABs pose a significant and increasing risk, both to human health and to the Blue Economy, and genomic approaches to early detection promise to help mitigate these risks. As such, this dataset could be of interest to freshwater ecology research teams, or any stakeholders interested in the detection and mitigation of HABs.
Datasets [for which this is the primary paper]:Long-read sequencing of 2019 Western Lake Erie cHABs