An abundance matrix (BM_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., and R. Revetta. Monitoring of Nitrification in Chloraminated Drinking Water Distribution Systems With Microbiome Bioindicators Using Supervised Machine Learning. Frontiers in Microbiology. Frontiers, Lausanne, SWITZERLAND, 11: 2254-2267, (2020).

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).

An abundance matrix (PS_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: Revetta , R., V. Gomez-Alvarez, T. Gerke, J. Santodomingo , and N. Ashbolt. CHANGES IN BACTERIAL COMPOSITION OF BIOFILM IN A METROPOLITAN DRINKING WATER DISTRIBUTION SYSTEM. JOURNAL OF APPLIED MICROBIOLOGY. Blackwell Publishing, Malden, MA, USA, 121(1): 294-305, (2016).

An abundance matrix (BM_OTU.xlsx) contains rows as OTU, columns as samples, and entries representing the abundance of each OTU as a ratio of all sequences obtained for each individual sample. This dataset is associated with the following publication: Gomez-Alvarez, V., and R. Revetta. Monitoring of Nitrification in Chloraminated Drinking Water Distribution Systems With Microbiome Bioindicators Using Supervised Machine Learning. Frontiers in Microbiology. Frontiers, Lausanne, SWITZERLAND, 11: 2254-2267, (2020).

An abundance matrix (Table - 16S rRNA taxonomy.xlsx) contains rows as taxonomic lineage, columns as samples, and entries representing the abundance of each lineage as a number of reads and percentage of all reads obtained for each individual sample. A table (Table - antibiotic resistance genes.xlsx) contains rows as antibiotic resistance genes (AMR), columns as AMR gene symbol, AMR gene name, AMR type, AMR subtype, AMR class, and AMR subclass at each tank. A table (Table - metabolic pathways relative abundance.xlsx) contains rows as metabolic pathways, columns as samples, and entries representing the relative abundance of each pathway. A table (Table - samples.xlsx) with description of storage tank and their locations.

An abundance matrix (Table - 16S rRNA taxonomy.xlsx) contains rows as taxonomic lineage, columns as samples, and entries representing the abundance of each lineage as a number of reads and percentage of all reads obtained for each individual sample. A table (Table - antibiotic resistance genes.xlsx) contains rows as antibiotic resistance genes (AMR), columns as AMR gene symbol, AMR gene name, AMR type, AMR subtype, AMR class, and AMR subclass at each tank. A table (Table - metabolic pathways relative abundance.xlsx) contains rows as metabolic pathways, columns as samples, and entries representing the relative abundance of each pathway. A table (Table - samples.xlsx) with description of storage tank and their locations.

This data collection consists of microbial count data from seawater microbiomes based on both flow cytometry and 16S rRNA copy numbers from droplet digital PCR (ddPCR) that were used to validate a framework for quantifying absolute abundance of microbial communities for use in downstream ecotoxicology modelling. Seawater was collected from the AIMS jetty (19°16′38.4”S, 147°03′32.1”E) and the relationship between cell counts and absolute 16S rRNA gene copy numbers was determined by preparing varying proportions of natural seawater and artificial seawater suspensions (natural seawater proportions of 100, 80, 60, 40, 20, and 0% of a total 500 mL sample, with ASW making up the remaining proportion). For full methodological details please refer to the full research publication, Thomas et al. 2025 (https://doi.org/10.1186/s40793-025-00741-2) its supplementary materials and the associated GitHub repository (GitHub - MarieCThomas/Quantitative-PMA-16S-rRNA-Gene-Sequencing-Workflow). Additionally, raw sequencing data can be found in the NCBI Sequence Read Archives under BioProject number PRJNA1176196.

The fasta file (BM_OTU.fasta) contain the sequences of the bacterial 16S rRNA-encoding V4 region gene (≈250 nt) for each Operational Taxonomic Unit (OTU). This dataset is associated with the following publication: Gomez-Alvarez, V., and R. Revetta. Monitoring of Nitrification in Chloraminated Drinking Water Distribution Systems With Microbiome Bioindicators Using Supervised Machine Learning. Frontiers in Microbiology. Frontiers, Lausanne, SWITZERLAND, 11: 2254-2267, (2020).

A table (DP_OTU.xlsx) contains rows as OTUs, columns as samples, and entries representing the abundance of each OTU. This dataset is associated with the following publication: Gomez-Alvarez, V., H. Liu, J. Pressman, and D. Wahman. Metagenomic Profile of Microbial Communities in a Drinking Water Storage Tank Sediment after Sequential Exposure to Monochloramine, Free Chlorine, and Monochloramine. ENVIRONMENTAL SCIENCE & TECHNOLOGY. American Chemical Society, Washington, DC, USA, 1(5): 1283-1294, (2021).

A table (DP_OTU.xlsx) contains rows as OTUs, columns as samples, and entries representing the abundance of each OTU. This dataset is associated with the following publication: Gomez-Alvarez, V., H. Liu, J. Pressman, and D. Wahman. Metagenomic Profile of Microbial Communities in a Drinking Water Storage Tank Sediment after Sequential Exposure to Monochloramine, Free Chlorine, and Monochloramine. ENVIRONMENTAL SCIENCE & TECHNOLOGY. American Chemical Society, Washington, DC, USA, 1(5): 1283-1294, (2021).