Large Bottleneck Size in Cauliflower Mosaic Virus Populations during Host Plant Colonization
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{"title"=>"Large bottleneck size in Cauliflower mosaic virus populations during host plant colonization", "type"=>"journal", "authors"=>[{"first_name"=>"Baptiste", "last_name"=>"Monsion", "scopus_author_id"=>"23991249200"}, {"first_name"=>"Rémy", "last_name"=>"Froissart", "scopus_author_id"=>"6701924966"}, {"first_name"=>"Yannis", "last_name"=>"Michalakis", "scopus_author_id"=>"7003732596"}, {"first_name"=>"Stéphane", "last_name"=>"Blanc", "scopus_author_id"=>"7006670264"}], "year"=>2008, "source"=>"PLoS Pathogens", "identifiers"=>{"scopus"=>"2-s2.0-55449111891", "doi"=>"10.1371/journal.ppat.1000174", "sgr"=>"55449111891", "isbn"=>"1553-7374 (Electronic)", "pmid"=>"18846207", "issn"=>"15537366", "pui"=>"352619880"}, "id"=>"40b8db49-41a3-3936-93ca-4b62ed48bf75", "abstract"=>"The effective size of populations (Ne) determines whether selection or genetic drift is the predominant force shaping their genetic structure and evolution. Despite their high mutation rate and rapid evolution, this parameter is poorly documented experimentally in viruses, particularly plant viruses. All available studies, however, have demonstrated the existence of huge within-host demographic fluctuations, drastically reducing Ne upon systemic invasion of different organs and tissues. Notably, extreme bottlenecks have been detected at the stage of systemic leaf colonization in all plant viral species investigated so far, sustaining the general idea that some unknown obstacle(s) imposes a barrier on the development of all plant viruses. This idea has important implications, as it appoints genetic drift as a constant major force in plant virus evolution. By co-inoculating several genetic variants of Cauliflower mosaic virus into a large number of replicate host plants, and by monitoring their relative frequency within the viral population over the course of the host systemic infection, only minute stochastic variations were detected. This allowed the estimation of the CaMV Ne during colonization of successive leaves at several hundreds of viral genomes, a value about 100-fold higher than that reported for any other plant virus investigated so far, and indicated the very limited role played by genetic drift during plant systemic infection by this virus. These results suggest that the barriers that generate bottlenecks in some plant virus species might well not exist, or can be surmounted by other viruses, implying that severe bottlenecks during host colonization do not necessarily apply to all plant-infecting viruses.", "link"=>"http://www.mendeley.com/research/large-bottleneck-size-cauliflower-mosaic-virus-populations-during-host-plant-colonization", "reader_count"=>63, "reader_count_by_academic_status"=>{"Unspecified"=>1, "Professor > Associate Professor"=>1, "Librarian"=>1, "Researcher"=>23, "Student > Doctoral Student"=>3, "Student > Ph. D. Student"=>17, "Student > Master"=>8, "Other"=>1, "Student > Bachelor"=>2, "Lecturer"=>1, "Lecturer > Senior Lecturer"=>2, "Professor"=>3}, "reader_count_by_user_role"=>{"Unspecified"=>1, "Professor > Associate Professor"=>1, "Librarian"=>1, "Researcher"=>23, "Student > Doctoral Student"=>3, "Student > Ph. D. Student"=>17, "Student > Master"=>8, "Other"=>1, "Student > Bachelor"=>2, "Lecturer"=>1, "Lecturer > Senior Lecturer"=>2, "Professor"=>3}, "reader_count_by_subject_area"=>{"Unspecified"=>5, "Biochemistry, Genetics and Molecular Biology"=>6, "Agricultural and Biological Sciences"=>49, "Physics and Astronomy"=>2, "Computer Science"=>1}, "reader_count_by_subdiscipline"=>{"Physics and Astronomy"=>{"Physics and Astronomy"=>2}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>49}, "Computer Science"=>{"Computer Science"=>1}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>6}, "Unspecified"=>{"Unspecified"=>5}}, "reader_count_by_country"=>{"New Zealand"=>1, "Canada"=>1, "Japan"=>1, "Brazil"=>2, "United Kingdom"=>2, "France"=>2}, "group_count"=>4}

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/454272", "https://ndownloader.figshare.com/files/454372"], "description"=>"<div><p>The effective size of populations (<em>Ne</em>) determines whether selection or genetic drift is the predominant force shaping their genetic structure and evolution. Despite their high mutation rate and rapid evolution, this parameter is poorly documented experimentally in viruses, particularly plant viruses. All available studies, however, have demonstrated the existence of huge within-host demographic fluctuations, drastically reducing <em>Ne</em> upon systemic invasion of different organs and tissues. Notably, extreme bottlenecks have been detected at the stage of systemic leaf colonization in all plant viral species investigated so far, sustaining the general idea that some unknown obstacle(s) imposes a barrier on the development of all plant viruses. This idea has important implications, as it appoints genetic drift as a constant major force in plant virus evolution. By co-inoculating several genetic variants of <em>Cauliflower mosaic virus</em> into a large number of replicate host plants, and by monitoring their relative frequency within the viral population over the course of the host systemic infection, only minute stochastic variations were detected. This allowed the estimation of the CaMV <em>Ne</em> during colonization of successive leaves at several hundreds of viral genomes, a value about 100-fold higher than that reported for any other plant virus investigated so far, and indicated the very limited role played by genetic drift during plant systemic infection by this virus. These results suggest that the barriers that generate bottlenecks in some plant virus species might well not exist, or can be surmounted by other viruses, implying that severe bottlenecks during host colonization do not necessarily apply to all plant-infecting viruses.</p></div>", "links"=>[], "tags"=>["bottleneck", "mosaic", "populations", "colonization"], "article_id"=>149504, "categories"=>["Cancer", "Evolutionary Biology", "Microbiology", "Cell Biology"], "users"=>["Baptiste Monsion", "Remy Froissart", "Yannis Michalakis", "Stephane Blanc"], "doi"=>["https://dx.doi.org/10.1371/journal.ppat.1000174.s001", "https://dx.doi.org/10.1371/journal.ppat.1000174.s002"], "stats"=>{"downloads"=>5, "page_views"=>12, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/Large_Bottleneck_Size_in_Cauliflower_Mosaic_Virus_Populations_during_Host_Plant_Colonization/149504", "title"=>"Large Bottleneck Size in <em>Cauliflower Mosaic Virus</em> Populations during Host Plant Colonization", "pos_in_sequence"=>0, "defined_type"=>4, "published_date"=>"2008-10-10 02:38:24"}
  • {"files"=>["https://ndownloader.figshare.com/files/919164"], "description"=>"a<p>Only markers VIT1, VIT3, and VIT4 were used for estimating N<sub>F</sub>, for reasons explained in the text.</p>b<p>N<sub>F</sub> was estimated from Fst values using Equation 7 (see <a href=\"http://www.plospathogens.org/article/info:doi/10.1371/journal.ppat.1000174#s2\" target=\"_blank\">Materials and Methods</a>). The confidence interval, given in parentheses, was estimated by bootstrapping over plants.</p>", "links"=>[], "tags"=>["camv", "genomes", "founding", "fst"], "article_id"=>589624, "categories"=>["Evolutionary Biology", "Microbiology", "Virology", "Plant Biology", "Infectious Diseases"], "users"=>["Baptiste Monsion", "Remy Froissart", "Yannis Michalakis", "Stephane Blanc"], "doi"=>"https://dx.doi.org/10.1371/journal.ppat.1000174.t003", "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Number_of_CaMV_genomes_founding_the_population_in_individual_leaves_estimated_through_Fst_statistics_/589624", "title"=>"Number of CaMV genomes founding the population in individual leaves, estimated through Fst statistics.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2008-10-10 02:40:24"}
  • {"files"=>["https://ndownloader.figshare.com/files/919131"], "description"=>"a<p>Only markers VIT1, VIT3, and VIT4 were used for estimating Nv, for reasons explained in the text.</p>b<p>N<sub>v</sub> (and 95% confidence interval) is calculated according to Equation 4 (see <a href=\"http://www.plospathogens.org/article/info:doi/10.1371/journal.ppat.1000174#s2\" target=\"_blank\">Materials and Methods</a>), where p is estimated from values given in <a href=\"http://www.plospathogens.org/article/info:doi/10.1371/journal.ppat.1000174#ppat-1000174-t001\" target=\"_blank\">Table 1</a>.</p>", "links"=>[], "tags"=>["camv", "genomes", "founding", "variance"], "article_id"=>589587, "categories"=>["Evolutionary Biology", "Microbiology", "Virology", "Plant Biology", "Infectious Diseases"], "users"=>["Baptiste Monsion", "Remy Froissart", "Yannis Michalakis", "Stephane Blanc"], "doi"=>"https://dx.doi.org/10.1371/journal.ppat.1000174.t002", "stats"=>{"downloads"=>0, "page_views"=>1, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Number_of_CaMV_genomes_founding_the_population_in_individual_leaves_estimated_through_the_analysis_of_the_variance_of_the_frequency_of_markers_/589587", "title"=>"Number of CaMV genomes founding the population in individual leaves, estimated through the analysis of the variance of the frequency of markers.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2008-10-10 02:39:47"}
  • {"files"=>["https://ndownloader.figshare.com/files/919192"], "description"=>"<p>The genetic structure of the 50 sampled CaMV populations is determined by the different markers present in each, as well as by their respective relative frequency. For reasons of clarity, only mean frequency values and standard deviations among the 50 repeats are shown here. The full dataset with details of the 50 CaMV populations is available (<a href=\"http://www.plospathogens.org/article/info:doi/10.1371/journal.ppat.1000174#ppat.1000174.s001\" target=\"_blank\">Table S1</a>).</p>a<p>Sampling protocol for initial and final populations is described in <a href=\"http://www.plospathogens.org/article/info:doi/10.1371/journal.ppat.1000174#s2\" target=\"_blank\">Materials and Methods</a>.</p>b<p>Mean relative frequency of each marker over the 50 replicates.</p>c<p>Standard deviation of marker frequencies across the 50 replicates.</p>d<p>Mean difference between initial and final frequencies in each replicate, and for each marker.</p><p>All values are expressed as percent of the viral genome population.</p>", "links"=>[], "tags"=>["camv"], "article_id"=>589655, "categories"=>["Evolutionary Biology", "Microbiology", "Virology", "Plant Biology", "Infectious Diseases"], "users"=>["Baptiste Monsion", "Remy Froissart", "Yannis Michalakis", "Stephane Blanc"], "doi"=>"https://dx.doi.org/10.1371/journal.ppat.1000174.t001", "stats"=>{"downloads"=>0, "page_views"=>2, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Genetic_structure_of_initial_and_final_CaMV_populations_/589655", "title"=>"Genetic structure of initial and final CaMV populations.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2008-10-10 02:40:55"}

PMC Usage Stats | Further Information

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