Supplemental data to \"Estimating the Genetic Diversity of Pacific salmon and trout using Multi-gene eDNA Metabarcoding\"Kevin Weitemier, Brooke E. Penaluna, Laura Hauck, Lucas J. Longway, Tiffany Garcia & Richard Cronn
This dataset contains DNA sequence data of Oncorhynchus species, isolated from environmental DNA (eDNA) from Pacific Northwest streams via microfluidic eDNA metabarcoding and high-throughput (Ilummina) sequencing (samples collected from 2017-09-22 to 2017-10-10). It is accompanied by scripts and commands for data analyses including: sequence denoising, calculation of entropy values by codon position, and calculation of diversity statistics and haplotype mapping. Intermediate outputs include denoised haplotypes, entropy calculations, and haplotype summaries following chimera removal.
This dataset accompanies the manuscript Unintended consequences of selective water withdrawals from reservoirs alter downstream macroinvertebrate communities in Water Resources Research. Benthic macroinvertebrates were collected from samples taken annually during the first two weeks of August from 2002-2007 and again in 2017 at six sites in the South Fork McKenzie River. Taxonomy of samples collected prior to 2017 have been updated to be consistent with 2017 taxa designations.