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  1. ScienceBase Catalog
  2. Ohio-Kentucky-Indiana Water Science Center
  3. Phytoplankton, Microbial Source Tracking, and Metagenomics Data for Evaluation of Restoration Efforts at Urban Beaches on Southern and Western Lake Michigan, 2016-2018
  4. Metagenomics analysis of groundwater, surface water, and sand samples at Jeorse Park in East Chicago, Indiana, 2017

Metagenomics analysis of groundwater, surface water, and sand samples at Jeorse Park in East Chicago, Indiana, 2017

Dates

Publication Date
Start Date
2017-08-21
End Date
2017-09-25

Citation

Fargen, C.A., and Cole, T.R., 2019, Phytoplankton, microbial source tracking, and metagenomics data for evaluation of restoration efforts at urban beaches on southern and western Lake Michigan, 2016-2018: U.S. Geological Survey data release, https://doi.org/10.5066/P981QCF7.

Summary

This dataset provides results of a targeted bacterial community metagenomic analysis of surface water, groundwater, and sand samples at Jeorse Park on Lake Michigan in East Chicago, Indiana. Seventy-two samples were collected from 6 sites in 2017. Samples were analyzed for the 16S ribosomal RNA (16S rRNA) gene (the S in 16S refers to the rate of sedimentation, in Svedberg units, of the RNA molecule in a centrifugal field), and one sample was excluded because it produced too few reads. The 16S rRNA gene is the most conserved of three rRNA genes (16S, 23S, and 5S) and is considered the most reliable for identification and taxonomic classification of bacterial species (Bouchet and others, 2008). Taxonomic analysis was performed using [...]

Contacts

Point of Contact :
Travis R Cole, U.S. Geological Survey, Ohio-Kentucky-Indiana Water Science Center
Process Contact :
Travis R Cole, U.S. Geological Survey, Ohio-Kentucky-Indiana Water Science Center, Ashley M Spoljaric, U.S. Geological Survey, Lake Michigan Biology Station, Great Lakes Science Center, Cindy H. Nakatsu, Purdue University, Department of Agronomy
Originator :
Catherine A Fargen
Metadata Contact :
Catherine A Fargen, U.S. Geological Survey, Ohio-Kentucky-Indiana Water Science Center
Publisher :
U.S. Geological Survey
Distributor :
U.S. Geological Survey - ScienceBase

Attached Files

Click on title to download individual files attached to this item.

67287658-66aa-4c7f-b419-b874ffbfca7d-original.xml
Original FGDC Metadata
View 		192.6 KB application/fgdc+xml
metagenomics_sample_identification.txt 8.81 KB text/plain
metagenomics_taxonomy.txt 1.09 MB text/plain

Purpose

The purpose of this data release is to provide results of a targeted metagenomic analysis of surface water, groundwater, and sand samples collected at 6 sites during 2017 at Jeorse Park on Lake Michigan in East Chicago, Indiana. Bacterial community composition was analyzed through a metagenomic survey of the 16S ribosomal RNA (16S rRNA) gene. The relative abundance of bacterial species found in the water and sand was determined in order to identify sources of fecal contamination by detecting host-specific markers in the samples. The U.S. Geological Survey, through support provided by the Great Lakes Restoration Initiative, investigated foreshore and adjacent backshore conditions as part of overall activities to characterize change in bacterial conditions in surface water at these beaches in response to implementation of best management practices. This data set allows characterization and comparison of prokaryotic communities in and among samples in groundwater and surface water to assess potential near shore microbial contamination from the adjacent beach.

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  • Ohio-Kentucky-Indiana Water Science Center

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