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Metagenetic analysis of stream community composition based on environmental DNA

Dates

Publication Date
Start Date
2015-09-11
End Date
2015-09-14

Citation

Cornman, R.S., McKenna, J.E. Jr., Fike, J., Oyler-McCance, S.J., and Johnson, R., 2018, Metagenetic analysis of stream community composition based on environmental DNA: U.S. Geological Survey data release, https://doi.org/10.5066/P93NIUYM.

Summary

A survey of environmental DNA was performed in Tunison Creek downstream of the USGS Tunison Aquatic Laboratory. The goal of the survey was to characterize the source ecological community at multiple trophic or taxonomic levels by associating DNA fragments with reference databases. Three taxonomically informative genetic loci were used: the mitochondrial cytochrome oxidase 1 locus, the mitochondrial 12S ribosomal locus, and the bacterial/organellar 16S ribosomal locus. The data set includes a list of sample and sequence accessions residing in the National Center for Biotechnology Information databases, which provide the raw data for analysis or re-use. The data also includes the representative sequences of operational taxonomic units [...]

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Attached Files

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12S.biom 388.95 KB
Accession_info.csv 2.49 KB
COI.biom 55.95 KB
Euk16S.biom 13.21 KB
OTU_sequences.fasta 5.95 MB
Prok16S.biom 2.34 MB
Metagenetic_analysis_of_stream_community_composition_based_on_environmental_DNA.xml
Original FGDC Metadata

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24.88 KB

Purpose

The data were collected during a pilot study to assess 1) the suitability of metagenetic sequencing for characterizing aquatic biodiversity in a temperate woodland stream, and 2) to compare the variance in biodiversity metrics for two distinct sampling schemes. Samples were collected using either a grab or composite approach, as detailed in the methods.

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  • Fort Collins Science Center (FORT)
  • USGS Data Release Products

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DOI https://www.sciencebase.gov/vocab/category/item/identifier doi:10.5066/P93NIUYM

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