Facultative symbiont virulence determines horizontal transmission rate without host specificity in Dictyostelium discoideum social amoebas
Data files
Jan 28, 2024 version files 160.94 KB
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assembly_to_set_operations.txt
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bb395.prokka.intact.gff
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bb433.prokka.intact.gff
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bbqs859.prokka.intact.gff
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bonniea_transmission_2023.R
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host_fitness.clean.20220711.txt
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README.md
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symbiont_transmission.clean.20220711.txt
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virulence_candidates.faa
Abstract
In facultative symbioses, only a fraction of hosts are associated with symbionts. Specific host and symbiont pairings may be the result of host-symbiont coevolution driven by reciprocal selection, or priority effects pertaining to which potential symbiont became associated with a host first. Distinguishing between these possibilities is important for understanding the evolutionary forces that affect facultative symbioses. We used the social amoeba Dictyostelium discoideum and its symbiont Paraburkholderia bonniea to determine whether ongoing coevolution affects which host-symbiont strain pairs naturally co-occur within a facultative symbiosis. Relative to other Paraburkholderia, including another symbiont of D. discoideum, P. bonniea features a reduced genome size that indicates a significant history of coevolution with its host. We hypothesized that ongoing host-symbiont coevolution would lead to higher fitness for naturally co-occurring (native) host and symbiont pairings compared to novel pairings. We show for the first time that P. bonniea symbionts can horizontally transmit to new amoeba hosts when hosts aggregate together during the social stage of their life cycle. Here we find evidence for a virulence-transmission trade-off without host specificity. Although symbiont strains were significantly variable in virulence and horizontal transmission rate, hosts and symbionts responded similarly to associations in native and novel pairings. We go on to identify candidate virulence factors in the genomes of P. bonniea strains that may contribute to variation in virulence. We conclude that ongoing coevolution is unlikely for D. discoideum and P. bonniea. The system instead appears to represent a stable facultative symbiosis in which naturally co-occurring P. bonniea host and symbiont pairings are the result of priority effects.
README: Data from: Facultative symbiont virulence determines horizontal transmission rate without host specificity in Dictyostelium discoideum social amoebas
https://doi.org/10.5061/dryad.qz612jmp8
These data support the Evolution Letters article published under the same title. The same data are also available here.
It contains:
- host_fitness.clean.20220711.txt - Data from host fitness experiment with columns in the following order
- host identity
- symbiont identity
- MOI (multiplicity of infection) of host-symbiont pairing
- date of experiment
- estimated total number of host spores produced by sample
- percent of host spored infected by symbiont in sample
- percent of spores produced by sample relative to mean of uninfected controls
- type of host-symbiont pairing
- symbiont_transmission.clean.20220711.txt - Data from symbiont transmission experiment with columns in the following order
- host identity
- symbiont identity
- MOI of host-symbiont pairing
- date of experiment
- percent of host spores infected by symbiont in sample
- percent of infected spores that were previously uninfected
- type of host-symbiont pairing
- bonniea_transmission_2023.R - R code used to run statistical analyses using the data files and generate figures
- GFF files for the three P. bonniea genomes - Predicted intact gene for each symbiont genome
- assembly_to_set_operations.txt - Description and command-line code for how the GFF files were generated including long read assembly, short read polishing, gene annotation, pseudogene prediction, and set operations
- virulence_candidates.faa - Protein sequences for the candidate virulence factors identified in the study