10.5061/DRYAD.3HK0V
Harrison, Ellie
University of Sheffield
Hall, James
University of Sheffield
Paterson, Steve
University of Liverpool
Spiers, Andrew
Abertay University
Brockhurst, Michael
University of Sheffield
Hall, James P. J.
University of Sheffield
Brockhurst, Michael A.
University of Sheffield
Data from: Conflicting selection alters the trajectory of molecular
evolution in a tripartite bacteria–plasmid–phage interaction
Dryad
dataset
2017
Microbial Biology
Species interactions
Pseudomonas fluorescens
Coevolution
2017-02-27T14:29:15Z
2017-02-27T14:29:15Z
en
https://doi.org/10.1111/mec.14080
21274 bytes
1
CC0 1.0 Universal (CC0 1.0) Public Domain Dedication
Bacteria engage in a complex network of ecological interactions, which
includes mobile genetic elements (MGEs) such as phages and plasmids. These
elements play a key role in microbial communities as vectors of horizontal
gene transfer but can also be important sources of selection for their
bacterial hosts. In natural communities, bacteria are likely to encounter
multiple MGEs simultaneously and conflicting selection among MGEs could
alter the bacterial evolutionary response to each MGE. Here, we test the
effect of interactions with multiple MGEs on bacterial molecular evolution
in the tripartite interaction between the bacterium, Pseudomonas
fluorescens, the lytic bacteriophage, SBW25φ2, and conjugative plasmid,
pQBR103, using genome sequencing of experimentally evolved bacteria. We
show that individually, both plasmids and phages impose selection leading
to bacterial evolutionary responses that are distinct from bacterial
populations evolving without MGEs, but that together, plasmids and phages
impose conflicting selection on bacteria, constraining the evolutionary
responses observed in pairwise interactions. Our findings highlight the
likely difficulties of predicting evolutionary responses to multiple
selective pressures from the observed evolutionary responses to each
selective pressure alone. Understanding evolution in complex microbial
communities comprising many species and MGEs will require that we go
beyond studies of pairwise interactions.
Selection experiment population dynamicsDetails of bacterial and phage
population dynamics for each of 6 replicate populations from 4 treatments
evolved for 20 transfers (approx 150 bacterial generations). Data shown in
figure 2 and S2. Date comprises bacterial population density, frequency of
mucoid colonies, frequency of plasmidPopulation dynamics.csvSNPeff
identifed mutationsSummary of mutations identified from sequenced clones
taken from transfer 20 (bacterial generation ~150). Clones were sequenced
on the illumina MiSeq platform and reads aligned using BWA. Small variants
(SNPs and small indels) were identified using GATK HaplotypeCaller and
SNPeff and structural rearrangements identified using BreakDancer. Data
are shown in figure 1, S1 and table S2.