The data associated with the following data release were collected between 2016 and 2017 at three locations on Lake Michigan: Racine, WI; Chicago, IL; and East Chicago, IN. Individual water samples were collected one day a week for ten weeks between June and August. Samples were collected from eight specific sites made up of two river and six shoreline type environments. Sampling was completed at sites where various morphology (embayment, sand and sediment characteristics, size and shape) and hydrologic conditions (currents and waves) were present. Then samples were analyzed using microbial communities (metagenomic analysis), markers of contamination (microbial source tracking), and fecal indicator bacteria (E. coli).

The data associated with the following data release were collected between 2016 and 2017 at three locations on Lake Michigan: Racine, WI; Chicago, IL; and East Chicago, IN. Individual water samples were collected one day a week for ten weeks between June and August. Samples were collected from eight specific sites made up of two river and six shoreline type environments. Sampling was completed at sites where various morphology (embayment, sand and sediment characteristics, size and shape) and hydrologic conditions (currents and waves) were present. Then samples were analyzed using microbial communities (metagenomic analysis), markers of contamination (microbial source tracking), and fecal indicator bacteria (E. coli).

A large spill of wastewater from oil and gas operations was discovered adjacent to Blacktail Creek near Williston, North Dakota in January 2015. To determine the effects of this spill on streambed microbial communities over time, bed sediment samples were taken from Blacktail Creek upstream, adjacent to, and at several locations downstream from the spill site. Blacktail Creek is a tributary of the Little Muddy River, and additional samples were taken upstream and downstream from the confluence of Blacktail Creek and the Little Muddy River. Samples were collected in February 2015, June 2015, June 2016, and June 2017. DNA was extracted from these sediments, and sequencing of the 16S ribosomal RNA gene was performed to enable analysis of the microbial community structure. Raw sequence data was processed, and taxonomy was assigned based on the Silva 132 database (Yilmaz et al, 2014) using the MOTHUR software package (Schloss et al, 2009). Raw sequence data are available from GenBank at https://www.ncbi.nlm.nih.gov/bioproject/PRJNA666160.

A large spill of wastewater from oil and gas operations was discovered adjacent to Blacktail Creek near Williston, North Dakota in January 2015. To determine the effects of this spill on streambed microbial communities over time, bed sediment samples were taken from Blacktail Creek upstream, adjacent to, and at several locations downstream from the spill site. Blacktail Creek is a tributary of the Little Muddy River, and additional samples were taken upstream and downstream from the confluence of Blacktail Creek and the Little Muddy River. Samples were collected in February 2015, June 2015, June 2016, and June 2017. DNA was extracted from these sediments, and sequencing of the 16S ribosomal RNA gene was performed to enable analysis of the microbial community structure. Raw sequence data was processed, and taxonomy was assigned based on the Silva 132 database (Yilmaz et al, 2014) using the MOTHUR software package (Schloss et al, 2009). Raw sequence data are available from GenBank at https://www.ncbi.nlm.nih.gov/bioproject/PRJNA666160.

To determine the differences in soil microbial community composition between native and non-native lineages of Phragmites, we sampled soils from eight sites in the Great Lakes basin where populations of native and non-native Phragmites co-occurred. In addition, we included samples of soils from 27 populations of Phragmites across the Gulf of Mexico and Atlantic Coasts of the US. Samples were collected between July 2015 and September 2017. At each site in the Great Lakes, we sampled rhizosphere and bulk soil surrounding one ramet of each lineage. Samples from Atlantic and Gulf coasts were collected by homogenizing rhizosphere soils from multiple ramets of one population within a single lineage. DNA was extracted from soils and fungal, bacterial, and oomycete DNA was amplified to identify the microbial constituents. Amplicons were sequenced using Illumina MiSeq. This dataset includes outputs of bioinformatic analysis of sequences including operational taxonomic unit (OTU) generation, OTU abundance, resolved taxonomy, and environmental metadata collected in our survey. Raw sequences were uploaded to the NCBI Sequence Read Archive under SRA accession number PRJNA601975. First posted: October 22, 2020 (available by request) Minor Revision: December, 2020 (version 1.1)

This data set list the distribution of microbial taxa from three sets of sampling campaigns from unit operations in two large desalination facilities in the US conducted between March and May 2021. The desalination plants include the Claude "Bud" Lewis Carlsbad Desalination Plant in Carlsbad, California and the Seater Desalination facility in Tampa Bay, Florida.

These datasets contain microbial community data from groundwater samples collected at an in situ bioremediation site located at the former Naval Air Warfare Center (NAWC), West Trenton, NJ. DNA was extracted from groundwater samples collected from monitoring wells at the NAWC study site from July 2008 through July 2015 and analyzed for microbial community structure. Sample collection coincided with a groundwater bioremediation experiment investigating the microbial degradation of the contaminant trichloroethylene (TCE) prevalent in the targeted region of the aquifer. Nutrient addition and a microbial consortium, commercially developed to stimulate the degradation of TCE and TCE byproducts, was introduced to the contaminated groundwater on October 15, 2008. This data release contains microbial community data including taxonomy, alpha, and beta diversity from next-generation sequencing of the V4 region of 16S rRNA from groundwater samples collected during the 7-year observation period. A further discussion and interpretation of the data is presented by Jennifer C Underwood, Denise M Akob, Michelle Mi Lorah, Thomas E Imbrigiotta, Ronald W Harvey, Claire R Tiedeman, Microbial community response to a bioaugmentation test to degrade trichloroethylene in a fractured rock aquifer, Trenton, N.J, FEMS Microbiology Ecology, Volume 98, Issue 7, July 2022, fiac077, https://doi.org/10.1093/femsec/fiac077.

These datasets contain microbial community data from groundwater samples collected at an in situ bioremediation site located at the former Naval Air Warfare Center (NAWC), West Trenton, NJ. DNA was extracted from groundwater samples collected from monitoring wells at the NAWC study site from July 2008 through July 2015 and analyzed for microbial community structure. Sample collection coincided with a groundwater bioremediation experiment investigating the microbial degradation of the contaminant trichloroethylene (TCE) prevalent in the targeted region of the aquifer. Nutrient addition and a microbial consortium, commercially developed to stimulate the degradation of TCE and TCE byproducts, was introduced to the contaminated groundwater on October 15, 2008. This data release contains microbial community data including taxonomy, alpha, and beta diversity from next-generation sequencing of the V4 region of 16S rRNA from groundwater samples collected during the 7-year observation period. A further discussion and interpretation of the data is presented by Jennifer C Underwood, Denise M Akob, Michelle Mi Lorah, Thomas E Imbrigiotta, Ronald W Harvey, Claire R Tiedeman, Microbial community response to a bioaugmentation test to degrade trichloroethylene in a fractured rock aquifer, Trenton, N.J, FEMS Microbiology Ecology, Volume 98, Issue 7, July 2022, fiac077, https://doi.org/10.1093/femsec/fiac077.