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dc.contributor.author Díaz-Muñoz, Samuel L.
dc.contributor.author Tenaillon, Olivier
dc.contributor.author Goldhill, Daniel
dc.contributor.author Brao, Kristen
dc.contributor.author Turner, Paul E.
dc.contributor.author Chao, Lin
dc.coverage.spatial California
dc.coverage.spatial New England
dc.coverage.spatial Chico CA
dc.coverage.spatial San Diego CA
dc.coverage.spatial West Kingston RI
dc.coverage.spatial New Haven CT
dc.coverage.spatial Connecticut
dc.coverage.spatial Rhode Island
dc.coverage.temporal Holocene
dc.date.accessioned 2013-09-24T17:34:31Z
dc.date.available 2013-09-24T17:34:31Z
dc.date.issued 2013-09-24
dc.identifier doi:10.5061/dryad.6qh25
dc.identifier.citation Díaz-Muñoz SL, Tenaillon O, Goldhill D, Brao K, Turner PE, Chao L (2013) Electrophoretic mobility confirms reassortment bias among geographic isolates of segmented RNA phages. BMC Evolutionary Biology 13: 206.
dc.identifier.uri http://hdl.handle.net/10255/dryad.53799
dc.description Background: Sex presents evolutionary costs and benefits, leading to the expectation that the amount of genetic exchange should vary in conditions with contrasting cost-benefit equations. Like eukaryotes, viruses also engage in sex, but the rate of genetic exchange is often assumed to be a relatively invariant property of a particular virus. However, the rates of genetic exchange can vary within one type of virus according to geography, as highlighted by phylogeographic studies of cystoviruses. Here we merge environmental microbiology with experimental evolution to examine sex in a diverse set of cystoviruses, consisting of the bacteriophage φ6 and its relatives. To quantify reassortment we manipulated – by experimental evolution – electrophoretic mobility of intact virus particles for use as a phenotypic marker to estimate genetic exchange. Results: We generated descendants of φ6 that exhibited fast and slow mobility during gel electrophoresis. We identified mutations associated with slow and fast phenotypes using whole genome sequencing and used crosses to establish the production of hybrids of intermediate mobility. We document natural variation in electrophoretic mobility among environmental isolates of cystoviruses and use crosses against a common fast mobility φ6 strain to monitor the production of hybrids with intermediate mobility, thus estimating the amount of genetic exchange. Cystoviruses from different geographic locations have very different reassortment rates when measured against φ6, with viruses isolated from California showing higher reassortment rates than those from the Northeastern US. Conclusions: The results confirm that cystoviruses from different geographic locations have remarkably different reassortment rates –despite similar genome structure and replication mechanisms– and that these differences are in large part due to sexual reproduction. This suggests that particular viruses may indeed exhibit diverse sexual behavior, but wide geographic sampling, across varying environmental conditions may be necessary to characterize the full repertoire. Variation in reassortment rates can assist in the delineation of viral populations and are likely to provide insight into important viral evolutionary dynamics including the rate of coinfection, virulence and host range shifts. Electrophoretic mobility could be an indicator of important determinants of fitness and the techniques herein could be applied to the study of other viruses.
dc.relation.haspart doi:10.5061/dryad.6qh25/1
dc.relation.haspart doi:10.5061/dryad.6qh25/2
dc.relation.haspart doi:10.5061/dryad.6qh25/3
dc.relation.haspart doi:10.5061/dryad.6qh25/4
dc.relation.haspart doi:10.5061/dryad.6qh25/5
dc.relation.haspart doi:10.5061/dryad.6qh25/6
dc.relation.haspart doi:10.5061/dryad.6qh25/7
dc.relation.haspart doi:10.5061/dryad.6qh25/8
dc.relation.haspart doi:10.5061/dryad.6qh25/9
dc.relation.haspart doi:10.5061/dryad.6qh25/10
dc.relation.isreferencedby doi:10.1186/1471-2148-13-206
dc.relation.isreferencedby PMID:24059872
dc.subject sex
dc.subject population structure
dc.subject hybridization
dc.subject cooperation
dc.subject experimental evolution
dc.subject ecology
dc.title Data from: Electrophoretic mobility confirms reassortment bias among geographic isolates of segmented RNA phages
dc.type Article *
dwc.ScientificName Pseudomonas syringae pv phaseolicola
dwc.ScientificName Cystoviridae
dwc.ScientificName Cystovirus
prism.publicationName BMC Evolutionary Biology

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Title README
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Description README File for all Data from: Electrophoretic mobility confirms reassortment bias among geographic isolates of segmented RNA phages
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Title phenotypic_mixing_experiment.csv (Phenotypic Mixing Experiment Data)
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Description See Table2_phenotypic_mixing.txt for information.
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Title Table2_phenotypic_mixing.txt (Table2 Phenotypic Mixing)
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Description Has code used for generating data for Table 2 of manuscript. Describes data in phenotypic_mixing_experiment.csv.
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Title Figure2 Genbank Accession Numbers from Genome Sequencing
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Description Genbank Accession Numbers from Genome Sequencing used to generate Figure 2
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Title Figure4_single_plaques.txt (Figure 4 Single Plaques)
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Description Description of data in single_plaques_from_single_burst.csv and code to generate Figure 4.
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Title mobility_of_crosses.txt (Hybridization Rate Estimation Determination of Mobility)
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Description Describes data in mobility_of_crosses.csv and the analyses for that data set. This perhaps should be viewed first. The data here was used to generate Table 1, Figure 1C, Figure 5, and Figure 7.
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Title Calculation of Rf values
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Description Illustrates the process used to calculate Rf values (x axis on most graphs).
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Title Schematic of Selection for Electrophoretic Mobility
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Description llustrates the selection process used to generate the phi6-Fast and phi6-Slow strains as described in the methods. This figure is helpful while reading the Methods section "Selection for fast and slow electrophoretic mobility" in the paper.
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Title single_plaques_from_single_burst.csv
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Description Figure 4 was generated using data from single_plaques_from_single_burst.csv as explained in Figure4_single_plaques.txt
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Title mobility_of_crosses.csv (Hybridization Rate Estimation Determination of Mobility)
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Description This file has the bulk of the data in the paper and the analyses are in mobility_of_crosses.txt. The data here was used to generate Table 1, Figure 1C, Figure 5, and Figure 7.
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