The dataset contains sequencing read counts of fish prey eDNA metabarcoding (using primers targeting the 16S rRNA mitochondrial gene) that were extracted from fecal and cloacal swab samples collected from common loons (Gavia immer) captured on the Whitefish Chain of Lakes, Crow Wing County, Minnesota during 2015-2106. Sample type (cloacal or fecal); loon identification, age, and sex; capture date and location; and prey detections for each sample are provided.

To evaluate the ability of precipitation-based environmental DNA (eDNA) sample collection and mitochondrial 12S metabarcoding sequencing to reconstruct well-studied fish communities in lakes and rivers. Specific objectives were to 1) determine correlations between eDNA species detections and known community composition based on traditional field sampling, 2) compare efficiency of eDNA to detect fish biodiversity among systems with variable morphologies and trophic states, and 3) determine if species habitat preferences predicts eDNA detection. Fish community composition was estimated for seven lakes and two MIssissippi River navigation pools using sequence data from the mitochonrial 12S gene amplified from 10 to 50 water samples per waterbody collected in 50-mL centrifuge tubes at a single time point. Environmental DNA (eDNA) was concentrated without filtration by centrifuging samples to reduce per-sample handling time. Taxonomic detections from eDNA were compared to established community monitoring databases containing up to 40 years of sampling and a detailed habitat/substrate preference matrix to identify patterns of bias. Mitochondrial 12S gene metabarcoding detectec 15-47% of the known species at each waterbody and 30-76% of known genera. Non-metric multidimensional scaling (NMDS) assessment of the community structure indicated that eDNA detected communities grouped in a similar pattern as known communities. Discriminant analysis of principal components indicated that there was a high degree of overlap in habitat/substrate preference of eDNA detected and eDNA undetected species suggesting limited habitat bias for eDNA sampling. Large numbers of small volume samples sequenced at the mitochondrial 12S gene can describe the course community structure of freshwater systems. However, additional traditional sampling and environmental DNA sampling may be necessary for a complete diversity census.

DNA metabarcoding data as raw DNA sequences from the DNA sequencing instrument along with spreadsheets of data generated from bioinformatic analyses of the raw data. “This research dataset has been reviewed in accordance with U.S. Environmental Protection Agency (U.S. EPA), Office of Research and Development, and approved for release. Mention of brand names or vendors does not constitute an endorsement of products or services by the U.S. EPA.”

Reported here are the metabarcoding read numbers and biomass data assessed from a fish community in a southern Florida pond in Pinecrest Gardens after invasive species eradication and native restocking in 2017 and 2018 in linear regression models. This dataframe contains the number of fish of each species identified, their measured lengths estimated population surface area, and the number of metabarcoding reads (with SD and COV) for each species observed from the sampling date.

This dataset contains data on predatory fish which were collected during the 2013-2018 CCFPS studies. Fish were captured using hook and line or gillnet sampling. Fish were assessed for previous tags, weighed and fork length measured and implanted

This data set describes nucleotide sequence data derived from 18S ribosomal DNA amplified in two fragments. A total of 87 feces from Pacific walrus and 57 marine invertebrates were examined for this study. Samples were collected from the Bering Sea and Chukchi Sea, Alaska. Samples used in the study originated from feces or muscle samples collected in the field from ice floes or benthic van Veen grab samples.

These spreadsheets provide the sequences counts for the DNA groups found in the scats of Shy Albatross at Albatross Island, Tasmania, Australia. Samples were collected during three stages of the breeding season: Incubation (Late September 2014), Brood (December 2014) and Chick-rearing (March 2014 and 2015). Scat samples were collected from breeding birds, chicks and non-breeders. 'Breeders' were identified as individuals incubating an egg or attending a chick, whereas 'non-breeders' were usually pairs that had reoccupied the colony and were building new practice nests with no chick present. Non-breeders in the colony include immature birds that have not yet bred and mature birds of breeding age that did not breed in a particular season (e.g. no partner or insufficient body condition) Details of the molecular methods and synthesis of this data can be found in: McInnes, J.C., Alderman, R., Deagle, B.E. Lea, M-A., Raymond, B. and Jarman, S.N. 2016. Optimised scat collection protocols for dietary DNA metabarcoding in vertebrates. Methods in Ecology and Evolution.

Data from metabarcoding assays to detect a suite of mussel species using mitochondrial DNA regions of the cytochrome c oxidase subunit I (COI) and NADH dehydrogenase subunit (ND1) genes sequences.