Established Microbial Colonies Can Survive Type VI Secretion Assault
Publication Date
October 20, 2015
Journal
PLOS Computational Biology
Authors
David Bruce Borenstein, Peter Ringel, Marek Basler & Ned S. Wingreen
Volume
11
Issue
10
Pages
e1004520
DOI
https://dx.plos.org/10.1371/journal.pcbi.1004520
Publisher URL
http://journals.plos.org/ploscompbiol/article?id=10.1371%2Fjournal.pcbi.1004520
PubMed
http://www.ncbi.nlm.nih.gov/pubmed/26485125
PubMed Central
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4619000
Europe PMC
http://europepmc.org/abstract/MED/26485125
Web of Science
000364399700056
Scopus
84946050151
Mendeley
http://www.mendeley.com/research/established-microbial-colonies-survive-type-vi-secretion-assault
Events
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Mendeley | Further Information

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Scopus | Further Information

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Figshare

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  • {"files"=>["https://ndownloader.figshare.com/files/2367326"], "description"=>"<p>(a-d) Comparisons of experimental to simulation outcomes. (a) Left, overnight growth on X-Gal media from an inoculum consisting of <i>V. cholerae</i> str. 2740–80 (LacZ-) and <i>E. coli</i> MG1655 (LacZ+), starting from equal amounts of OD<sub>600nm</sub> = 2 × 10<sup>−3</sup> culture from each species. Right, simulated competition between 6,561 T6S+ individuals and an equal number of sensitive individuals, scattered randomly in an initial domain of <i>r</i><sub>0</sub> = 82, and allowed to grow until the population radius has doubled (<i>λ</i> = 500). (b) 9-fold dilution (experiment and simulation); (c) 81-fold dilution; (d) 729-fold dilution. Scale bars 1mm. (e) Fluorescent micrograph of competition between <i>E. coli</i> and <i>V. cholerae</i>; shown as illustration of target cell killing. Scale bar 10 <i>μ</i>m. Arrows indicate areas of <i>E. coli</i> net growth (yellow) and net decline (red). (f) Ratio of <i>E. coli</i> to <i>V. cholerae</i> CFUs, after overnight growth starting from equal initial amounts, as a function of initial inoculum concentration.</p>", "links"=>[], "tags"=>["vivo competition experiments", "T 6S Escherichia coli", "T 6S cells", "T 6S strains", "Type VI Secretion Assault Type VI secretion", "T 6S", "T 6S competitors", "T 6S Vibrio cholerae", "T 6S individuals", "T 6S attack rate"], "article_id"=>1581340, "categories"=>["Uncategorised"], "users"=>["David Bruce Borenstein", "Peter Ringel", "Marek Basler", "Ned S. Wingreen"], "doi"=>"https://dx.doi.org/10.1371/journal.pcbi.1004520.g004", "stats"=>{"downloads"=>0, "page_views"=>7, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Domain_size_predicts_T6S_survival_/1581340", "title"=>"Domain size predicts T6S- survival.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2015-10-20 04:46:17"}
  • {"files"=>["https://ndownloader.figshare.com/files/2367320"], "description"=>"<p>(a) Any cell can divide. Division results in an identical cell being placed in an adjacent site. If no adjacent site is available, cells are pushed out of the way to make room for the new cell (<a href=\"http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1004520#pcbi.1004520.s001\" target=\"_blank\">S1 Text</a>). (b) T6S+ cells (red) can attack any cell. When a sensitive cell (blue) is attacked, it is “killed” (removed from the system). T6S+ strains are self-immune. (c-f) Time series of competitions between a T6S+ strain (red) and a sensitive strain (blue) during a range expansion in 2D. In all cases the T6S+ growth rate is <i>α</i><sub><i>t</i></sub> = 1, and the sensitive strain growth rate is <i>α</i><sub><i>s</i></sub> = 4. Initial sensitive strain fractions are 0.1 (c, d) and 0.5 (e, f). Attack rates are <i>γ</i> = 5 (c, e) and 15 (d, f). (g) Quantification of dynamics observed in panels (c-f). Thin colored lines are individual trajectories; dotted black lines are averages over 8 of the 10 cases shown (eliminating highest and lowest outliers). Parameters are as in the time series. Time is units of 1/<i>α</i><sub><i>t</i></sub>. Timestep multiplier <i>λ</i> = 1.</p>", "links"=>[], "tags"=>["vivo competition experiments", "T 6S Escherichia coli", "T 6S cells", "T 6S strains", "Type VI Secretion Assault Type VI secretion", "T 6S", "T 6S competitors", "T 6S Vibrio cholerae", "T 6S individuals", "T 6S attack rate"], "article_id"=>1581335, "categories"=>["Uncategorised"], "users"=>["David Bruce Borenstein", "Peter Ringel", "Marek Basler", "Ned S. Wingreen"], "doi"=>"https://dx.doi.org/10.1371/journal.pcbi.1004520.g002", "stats"=>{"downloads"=>0, "page_views"=>7, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_A_simple_spatial_model_of_T6S_driven_community_dynamics_/1581335", "title"=>"A simple spatial model of T6S-driven community dynamics.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2015-10-20 04:46:17"}
  • {"files"=>["https://ndownloader.figshare.com/files/2367321"], "description"=>"<p>(a-b) A ball of sensitive cells (blue) is surrounded by a thick layer of T6S+ cells (red). (a) Below a critical radius, the sensitive strain ball tends to shrink to extinction; (b) above it, the ball tends to expand. This behavior is demonstrated for 1D, 2D, and 3D. (c) Heat map of the probability that a 2D sensitive domain surrounded by T6S+ competitors achieves steady growth, as a function of sensitive strain growth rate and initial radius of the sensitive domain. Dashed curve indicates predicted critical parameter values based on Eq. S1. Attack rate <math><mrow><mi>γ</mi><mo>˜</mo><mo>=</mo><mn>8</mn></mrow></math>; interpolated from 80,250 simulations with timestep multiplier <i>λ</i> = 500. (Sensitive population either decreased or increased from near the outset of each simulation; consequently, simulations were run only until the sensitive population changed by a factor of three in either direction.) (d) Comparison of growth rate observed in single-domain sensitive 2D growth simulations (<i>y</i>-axis) to the values predicted for this regime in <a href=\"http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1004520#pcbi.1004520.e004\" target=\"_blank\">Eq 1</a> (<i>x</i>-axis). Points represent the average, by sensitive population, across all simulations with the same parameters (20 per condition; <i>λ</i> = 2). Color represents domain radius; black line is <i>y</i> = <i>x</i>.</p>", "links"=>[], "tags"=>["vivo competition experiments", "T 6S Escherichia coli", "T 6S cells", "T 6S strains", "Type VI Secretion Assault Type VI secretion", "T 6S", "T 6S competitors", "T 6S Vibrio cholerae", "T 6S individuals", "T 6S attack rate"], "article_id"=>1581336, "categories"=>["Uncategorised"], "users"=>["David Bruce Borenstein", "Peter Ringel", "Marek Basler", "Ned S. Wingreen"], "doi"=>"https://dx.doi.org/10.1371/journal.pcbi.1004520.g003", "stats"=>{"downloads"=>0, "page_views"=>2, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Sensitive_T6S_individuals_can_dominate_T6S_competitors_/1581336", "title"=>"Sensitive T6S- individuals can dominate T6S+ competitors.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2015-10-20 04:46:17"}
  • {"files"=>["https://ndownloader.figshare.com/files/2367319"], "description"=>"<p>(a) The T6S system consists of a contractile outer sheath (purple), an inner tube (yellow), a membrane complex and baseplate (grey) and spike proteins (green). The contractile sheath pushes the inner tube through the baseplate and membrane complex, causing the tube to penetrate the target cell. (b) Competition between <i>V. cholerae</i> str. 2740–80 (sheath labeled with GFP) and <i>E. coli</i> MG1655 (unlabeled). Arrow shows <i>E. coli</i> cells that undergo lysis. Panels are taken two minutes apart; scale bar 1 <i>μ</i>m.</p>", "links"=>[], "tags"=>["vivo competition experiments", "T 6S Escherichia coli", "T 6S cells", "T 6S strains", "Type VI Secretion Assault Type VI secretion", "T 6S", "T 6S competitors", "T 6S Vibrio cholerae", "T 6S individuals", "T 6S attack rate"], "article_id"=>1581334, "categories"=>["Uncategorised"], "users"=>["David Bruce Borenstein", "Peter Ringel", "Marek Basler", "Ned S. Wingreen"], "doi"=>"https://dx.doi.org/10.1371/journal.pcbi.1004520.g001", "stats"=>{"downloads"=>3, "page_views"=>7, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Function_and_mechanism_of_the_T6S_system_/1581334", "title"=>"Function and mechanism of the T6S system.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2015-10-20 04:46:17"}
  • {"files"=>["https://ndownloader.figshare.com/files/2367329"], "description"=>"<p>(a-b) Range expansion of two competing T6S+ strains. (a) Each strain kills only individuals of the other type. For each strain, the growth rate is <i>α</i><sub><i>t</i></sub> = 1 and the attack rate is <i>γ</i> = 2. (b) No killing occurs; grey and brown cells grow neutrally (<i>γ</i> = 0) and at the same rate (<i>α</i><sub><i>t</i></sub> = 1). Initial inoculum is well-mixed and has radius <i>r</i><sub>0</sub> = 12; starting minority fraction is 25%. (c) Fold-change in minority fraction, starting at radius <i>r</i><sub>0</sub> = 12 (<i>n</i><sub>0</sub> = 469) and growing to exactly 10-fold larger. Orange (fold change = 1.0) indicates that the initial population ratio was retained. Values interpolated from 3,200 simulations. Simulation timestep multiplier <i>λ</i> = 1.</p>", "links"=>[], "tags"=>["vivo competition experiments", "T 6S Escherichia coli", "T 6S cells", "T 6S strains", "Type VI Secretion Assault Type VI secretion", "T 6S", "T 6S competitors", "T 6S Vibrio cholerae", "T 6S individuals", "T 6S attack rate"], "article_id"=>1581343, "categories"=>["Uncategorised"], "users"=>["David Bruce Borenstein", "Peter Ringel", "Marek Basler", "Ned S. Wingreen"], "doi"=>"https://dx.doi.org/10.1371/journal.pcbi.1004520.g005", "stats"=>{"downloads"=>0, "page_views"=>9, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Competition_between_T6S_strains_/1581343", "title"=>"Competition between T6S+ strains.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2015-10-20 04:46:17"}

PMC Usage Stats | Further Information

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  • {"unique-ip"=>"10", "full-text"=>"10", "pdf"=>"1", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2020", "month"=>"8"}

Relative Metric

{"start_date"=>"2015-01-01T00:00:00Z", "end_date"=>"2015-12-31T00:00:00Z", "subject_areas"=>[]}
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Net::HTTPTooManyRequests

Source
Scopus
Time
2019-08-27 18:05:59 UTC
Target URL
https://api.elsevier.com/content/search/index:SCOPUS?query=DOI(10.1371%2Fjournal.pcbi.1004520)
Trace

/app/models/concerns/networkable.rb:21:in `get_result'
/app/models/source.rb:165:in `get_data'
/app/models/retrieval_status.rb:47:in `perform_get_data'
/app/jobs/source_job.rb:52:in `block (2 levels) in perform'
/app/jobs/source_job.rb:51:in `block in perform'
/app/jobs/source_job.rb:35:in `each'
/app/jobs/source_job.rb:35:in `perform'