,NCBI BioProject,,

,- Description: Contains data, processing and analysis code, initial exploratory figures, final publication figures, and final publication tables.,- Link: https://github.com/cliffbueno/Sunflower_AEM,- Note: A release of this repository has been archived on Zenodo with a stable DOI: https://zenodo.org/doi/10.5281/zenodo.12193724,

,Amplicon sequencing data (16S and ITS) was deposited to NCBI Genbank under BioProject ID PRJNA1200133 (https://www.ncbi.nlm.nih.gov/bioproject/PRJNA1200133).,

,A GitHub repository (https://github.com/KaneLab/SunflowerG) containing data, processing and analysis code, initial exploratory figures, final publication figures, and final publication tables was released through Zenodo with a stable DOI (https://doi.org/10.5281/zenodo.14523061),

An abundance matrix (EX_taxonomic_lineage.xlsx) contains rows as taxonomic lineage, columns as samples, and entries representing the abundance of each lineage as a ratio of all sequences obtained for each individual sample. This dataset is associated with the following publication: Gomez-Alvarez, V., S. Pfaller, J. Pressman, D. Wahman, and R. Revetta. Resilience of microbial communities in a simulated drinking water distribution system subjected to disturbances: role of conditionally rare taxa and potential implications for antibiotic-resistant bacteria. Environmental Science: Water Research & Technology. Royal Society of Chemistry, Cambridge, UK, 2: 645-657, (2016).

Background Molecular biological techniques are dramatically changing our view of microbial diversity in almost any environment that has so far been investigated. This study presents a systematic survey of the microbial diversity associated with a population of Acromyrmex leafcutter ants. In contrast to previous studies on social insects, which targeted specific groups of symbionts occurring in the gut (termites, Tetraponera ants) or in specialised cells (Camponotus ants) the objective of our present study was to do a total screening of all possible micro-organisms that can be found inside the bodies of these leafcutter ants. Results We amplified, cloned and sequenced SSU rRNA encoding gene fragments from 9 microbial groups known to have insect-associated representatives, and show that: (1) representatives of 5 out of 9 tested groups are present, (2) mostly several strains per group are present, adding up to a total of 33 different taxa. We present the microbial taxa associated with Acromymex ants in a phylogenetic context (using sequences from GenBank) to assess and illustrate to which known microorganisms they are closely related. The observed microbial diversity is discussed in the light of present knowledge on the evolutionary history of Acromyrmex leafcutter ants and their known mutualistic and parasitic symbionts. Conclusions The major merits of the screening approach documented here is its high sensitivity and specificity, which allowed us to identify several microorganisms that are promising candidates for further study of their interactions with Acromyrmex leafcutter ants or their gardens.

,The ARS Culture Collection is one of the largest public collections of microorganisms in the world, containing approximately 93,000 strains of bacteria and fungi. The collection is split into subcollections of molds, prokaryotes, and yeasts. In addition, the online catalog is searchable by genus, species, subvar type, and subspecies.,The collection is housed within the Mycotoxin Prevention and Applied Microbiology Research Unit at the National Center for Agricultural Utilization Research in Peoria, Illinois. The scientists and staff of the ARS Culture Collection conduct and facilitate microbiological research that advances agricultural production, food safety, public health, and economic development. These goals are pursued through in-house research that improves understanding and utilization of microbiological diversity and through efforts to enhance the value and accessibility of microbial accessions in the Agricultural Research Service Culture Collection.,

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.

1. All OTUs (operational taxonomic units) raw sequences 2. Bacterial taxonomic structures at class and phylum level 3. Analytical data generated by multiple bioinformatics analyses. This dataset is not publicly accessible because: All the data were generated by THL in Finland. There is no EPA generated data. It can be accessed through the following means: Contact Dr. Tarja Pitkanen in Finnish Institute for Health and Welfare to request all the data used for the manuscript. Here is her contact information. Phone: +358 29 524 6315 Email: tarja.pitkanen@thl.fi. Format: Not available. This dataset is associated with the following publication: Tiwari, A., A. Hokajärvi, J. SantoDomingo, M. Elk, B. Jayaprakash, H. Ryu, S. Siponen, A. Vepsäläinen, A. Kauppinen, O. Puurunen, A. Artimo, N. Perkola, T. Huttula, I.T. Miettinen, and T. Pitkänen. Bacterial diversity and predicted enzymatic function in a multipurpose surface water system – from wastewater effluent discharges to drinking water production. Environmental Microbiome. BioMed Central Ltd, London, UK, 16(11): 17, (2021).