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)

To determine how native and non-native lineages of Phragmites australis affect and respond to soil bacteria, fungi and oomycetes, we collected live rhizomes, seeds and soil from native and non-native lineages of Phragmites from 10 sites within Michigan and Ohio, USA. We propagated these field-collected samples to carry out a reciprocal-transplant plant-soil feedback experiment with multiple microbial inhibition treatments. Specifically, we investigated how each Phragmites lineage grew in soils pre-conditioned by each lineage and soils that had been pre-sterilized. Plant biomass was the main response variable collected to determine responses to microbial soil conditioning. We also used DNA meta-barcoding to identify the effects of each plant lineage on soil microbes and link plant responses to microbial communities. Specifically, DNA was extracted from soils and fungal and bacterial 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 PRJNA719385.

To determine how native and non-native lineages of Phragmites australis affect and respond to soil bacteria, fungi and oomycetes, we collected live rhizomes, seeds and soil from native and non-native lineages of Phragmites from 10 sites within Michigan and Ohio, USA. We propagated these field-collected samples to carry out a reciprocal-transplant plant-soil feedback experiment with multiple microbial inhibition treatments. Specifically, we investigated how each Phragmites lineage grew in soils pre-conditioned by each lineage and soils that had been pre-sterilized. Plant biomass was the main response variable collected to determine responses to microbial soil conditioning. We also used DNA meta-barcoding to identify the effects of each plant lineage on soil microbes and link plant responses to microbial communities. Specifically, DNA was extracted from soils and fungal and bacterial 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 PRJNA719385.

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).

The data document the results of several microbe bioassays performed by the USGS on Phragmites australis plants, including those performed on mature leaves, seedlings, and dead leaf tissues exploration of the literature to find accounts of microbes associated with Phragmites worldwide. For the bioassays, we prepared 162 pure cultures isolated from Phragmites plants in North America along the east coast, Florida, the Gulf of Mexico, and the Great Lakes area, 125 of which were from a previous study, and 38 represent new collections. The DNA sequences used to identify the 37 new collections are included. Microbes were isolated from plants collected from 2015-2018. We performed assays using both North American plant lineages (Phragmites australis subsp. australis and Phragmites australis subsp. americanus) on mature leaves and seedlings. Data included here report each plant's reaction to microbial inoculation. Finally, to put our findings in context, we surveyed Phragmites-associated microbes assembled from multiple extensive literature sources representing a worldwide extent These data will be valuable to researchers interested in effects of leaf microbes on Phragmites health and invasiveness of the non-native lineage. Additionally, the data have implications for potential biocontrol of Phragmites.

The data document the results of several microbe bioassays performed by the USGS on Phragmites australis plants, including those performed on mature leaves, seedlings, and dead leaf tissues exploration of the literature to find accounts of microbes associated with Phragmites worldwide. For the bioassays, we prepared 162 pure cultures isolated from Phragmites plants in North America along the east coast, Florida, the Gulf of Mexico, and the Great Lakes area, 125 of which were from a previous study, and 38 represent new collections. The DNA sequences used to identify the 37 new collections are included. Microbes were isolated from plants collected from 2015-2018. We performed assays using both North American plant lineages (Phragmites australis subsp. australis and Phragmites australis subsp. americanus) on mature leaves and seedlings. Data included here report each plant's reaction to microbial inoculation. Finally, to put our findings in context, we surveyed Phragmites-associated microbes assembled from multiple extensive literature sources representing a worldwide extent These data will be valuable to researchers interested in effects of leaf microbes on Phragmites health and invasiveness of the non-native lineage. Additionally, the data have implications for potential biocontrol of Phragmites.

The data being released were part of a project funded by the United States Environmental Protection Agency (USEPA). This study sought to identify the planktonic communities (cyanobacteria, eukaryotic algae) potentially contributing to eutrophication within the Grand Calumet River Area of Concern (AOC) in northern Indiana along the southern shore of Lake Michigan. In 2021, triplicate water samples were collected from five locations during three events, 4/19/21 and 4/20/21, 7/7/21, and 9/15/21. Water samples were processed and planktonic communities were determined by a DNA-based technology (algal metabarcoding). Sampling locations: 1. Columbia Avenue, Hammond, IN 2. Lake George drainage ditch, Hammond, IN 3. Indiana Harbor Canal at Canal Street in East Chicago, IN 4. Airport Road in Gary, IN 5. Marquette Park Lagoon in Gary, IN

The data being released were part of a project funded by the United States Environmental Protection Agency (USEPA). This study sought to identify the planktonic communities (cyanobacteria, eukaryotic algae) potentially contributing to eutrophication within the Grand Calumet River Area of Concern (AOC) in northern Indiana along the southern shore of Lake Michigan. In 2021, triplicate water samples were collected from five locations during three events, 4/19/21 and 4/20/21, 7/7/21, and 9/15/21. Water samples were processed and planktonic communities were determined by a DNA-based technology (algal metabarcoding). Sampling locations: 1. Columbia Avenue, Hammond, IN 2. Lake George drainage ditch, Hammond, IN 3. Indiana Harbor Canal at Canal Street in East Chicago, IN 4. Airport Road in Gary, IN 5. Marquette Park Lagoon in Gary, IN

This dataset describes the identification of phytoplankton to the lowest taxonomic level (typically species), as well as abundance (density) and biovolume from grab samples collected from Lake Michigan at Jackson Park at Hyde Park, Illinois and Lake Michigan at Jeorse Park at Gary, Indiana.