DOI: 10.5061/dryad.636b0
title: Data from: Deciphering conjugative plasmid permissiveness dynamics in wastewater microbiomes

description: Wastewater treatment plants (WWTPs) are designed to robustly treat
 polluted water. They are characterized by ceaseless flows of organic,
 chemical and microbial matter, followed by treatment steps before
 environmental release. WWTPs are hotspots of horizontal gene transfer
 (HGT) between bacteria via conjugative plasmids, leading to dissemination
 of potentially hazardous genetic material such as antimicrobial resistance
 genes (AMRGs). While current focus is on the threat of AMRGs spreading and
 environmental maintenance, conjugative plasmid transfer dynamics within
 and between bacterial communities still remains largely uncharted.
 Furthermore, current in vitro methods used to assess conjugation in
 complex microbiomes do not include in situ behaviors of recipient cells,
 resulting in partial representation of transfers. We investigated the in
 vitro conjugation capacities of WWTP microbiomes from inlet sewage and
 outlet treated water using the broad host-range IncP-1 conjugative
 plasmid, pKJK5. A thorough molecular approach coupling metagenomes to 16S
 rRNA DNA/cDNA amplicon sequencing was established to characterize
 microbiomes using the ecological concept of functional response groups. A
 broad diversity of recipient bacterial phyla for the plasmid in wastewater
 was observed, especially in WWTP outlets. We also identified permissive
 bacteria potentially able to cross WWTPs and engage in conjugation before
 and after water treatment. Bacterial activity and lifestyles seem to
 influence conjugation extent, as treated water copiotrophs were the most
 represented strategists amongst transconjugants. Correlation analysis
 highlighted possible plasmid transmission routes into communities between
 the sewage to the environment, with identification of keystone members
 (e.g. Arcobacter) potentially involved in cross-border exchanges between
 distant Gram-positive and negative phyla.
description: DNA-based 16S rRNA gene
 amplicon profiles16S rRNA gene amplicon
 sequencing profiles of wastewater microbiomes generated from extracted
 metagenomic DNA. This file contains both wasterwater inlet and outlet
 profiles.Data_Jacquiod_MEC-17-0113_DNA.rarTransconjugant 16S rRNA gene amplicon profiles16S rRNA gene amplicon sequencing profiles obtained from the DNA of transconjugant cells who received the GFP (Green Fluorescent Protein) tagged conjugative plasmid pKJK5 via FACS (Fluorescence Activated Cell Sorting)Data_Jacquiod_MEC-17-0113_TRANS.rarRNA-based 16S rRNA gene amplicon profiles part.116S rRNA gene amplicon sequencing profiles generated from extracted RNA (cDNA) of wastewater microbiomes. This file is the first part of the RNA-based samples, and contains only the wastewater inlet profiles.Data_Jacquiod_MEC-17-0113_RNA_INLET_part1.rarRNA-based 16S rRNA gene amplicon profiles part.216S rRNA gene amplicon sequencing profiles generated from extracted RNA (cDNA) of wastewater microbiomes. This file is the second part of the RNA-based samples, and contains only the wastewater outlet profiles.Data_Jacquiod_MEC-17-0113_RNA_OUTLET_part2.rar