Flower Development as an Interplay between Dynamical Physical Fields and Genetic Networks
Publication Date
October 27, 2010
Journal
PLOS ONE
Authors
Rafael Ángel Barrio, Aurora Hernández Machado, C. Varea, José Roberto Romero Arias, et al
Volume
5
Issue
10
Pages
e13523
DOI
https://dx.plos.org/10.1371/journal.pone.0013523
Publisher URL
http://journals.plos.org/plosone/article?id=10.1371%2Fjournal.pone.0013523
PubMed
http://www.ncbi.nlm.nih.gov/pubmed/21048956
PubMed Central
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2965087
Europe PMC
http://europepmc.org/abstract/MED/21048956
Web of Science
000283537000004
Scopus
78149454107
Mendeley
http://www.mendeley.com/research/flower-development-interplay-between-dynamical-physical-fields-genetic-networks
Events
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Mendeley | Further Information

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Scopus | Further Information

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/822112"], "description"=>"<p>(A) Inverted pairs mutant type (Pe,Se, Car,St), obtained reversing the potential . Carpels in red, stamens in orange, petals in light green and sepals in light blue. The undifferentiated cells are in dark blue. (B) Photograph of the flower of <i>Lacandonia schismatica</i>. Note that in the perianth of this flowering species sepals and petals are not distinguished, and it has six so-called tepals, yet its reproductive organs are inverted, as those of the simulated mutant.</p>", "links"=>[], "tags"=>["mutant"], "article_id"=>492480, "categories"=>["Cell Biology", "Physics", "Biophysics"], "users"=>["Rafael Ángel Barrio", "Aurora Hernández-Machado", "C. Varea", "José Roberto Romero-Arias", "Elena Álvarez-Buylla"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0013523.g008", "stats"=>{"downloads"=>1, "page_views"=>6, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Lacandonia_like_mutant_predicted_by_the_model_/492480", "title"=>"Lacandonia-like mutant predicted by the model.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-02-20 22:41:10"}
  • {"files"=>["https://ndownloader.figshare.com/files/821826"], "description"=>"<p>Numerical results on a plane containing the axis of cylindrical symmetry of the meristem in an early stage of development. Carpels in red, stamens in orange, petals in light green and sepals in light blue. The undifferentiated cells are in dark blue.</p>", "links"=>[], "tags"=>["spatial", "arrangements", "primordial", "floral"], "article_id"=>492193, "categories"=>["Cell Biology", "Physics", "Biophysics"], "users"=>["Rafael Ángel Barrio", "Aurora Hernández-Machado", "C. Varea", "José Roberto Romero-Arias", "Elena Álvarez-Buylla"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0013523.g005", "stats"=>{"downloads"=>1, "page_views"=>5, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Simulated_spatial_arrangements_of_primordial_floral_organ_for_wild_type_plants_/492193", "title"=>"Simulated spatial arrangements of primordial floral organ for wild type plants.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-02-20 22:39:38"}
  • {"files"=>["https://ndownloader.figshare.com/files/822181"], "description"=>"<p>The genetic expression on a circular domain is shown in <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0013523#pone-0013523-g004\" target=\"_blank\">Fig. 4</a>, the same type of calculation gives different accommodation. The colour code is: Carpels in red, stamens in orange, petals in light green and sepals in light blue. The undifferentiated cells are in dark blue. (A) domain with two sharp lateral edges. (B) Domain with an acute apical end. (C) Domain with acute apical end and two lateral round wings. (D) Domain with three acute edges.</p>", "links"=>[], "tags"=>["geometry"], "article_id"=>492555, "categories"=>["Cell Biology", "Physics", "Biophysics"], "users"=>["Rafael Ángel Barrio", "Aurora Hernández-Machado", "C. Varea", "José Roberto Romero-Arias", "Elena Álvarez-Buylla"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0013523.g009", "stats"=>{"downloads"=>1, "page_views"=>6, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Varying_the_geometry_of_the_meristem_/492555", "title"=>"Varying the geometry of the meristem.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-02-20 22:41:31"}
  • {"files"=>["https://ndownloader.figshare.com/files/821424"], "description"=>"<p>(A) GRN with interactions inferred from experimental data (according to <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0013523#pone.0013523-EspinosaSoto1\" target=\"_blank\">[4]</a>, <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0013523#pone.0013523-Chaos1\" target=\"_blank\">[8]</a>). The genes from the ABC model are highlighted in the GRN: A-genes (red), B-genes (yellow) and C-genes (blue). (B) Attractors or steady state gene configurations of the GRN model that match gene expression profiles expected by the ABC model are provided. Expressed genes for each attractor are represented as grey circles, while non-expressed ones correspond to white circles, the black circle corresponds to a gene (UFO) that can be either expressed or not expressed in the petal and stamen attractors, thus yielding two attractors for each petal and stamen primordia cell-type (taken from Ref. <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0013523#pone.0013523-AlvarezBullya1\" target=\"_blank\">[9]</a>).</p>", "links"=>[], "tags"=>["arabidopsis", "thaliana", "floral"], "article_id"=>491784, "categories"=>["Cell Biology", "Physics", "Biophysics"], "users"=>["Rafael Ángel Barrio", "Aurora Hernández-Machado", "C. Varea", "José Roberto Romero-Arias", "Elena Álvarez-Buylla"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0013523.g001", "stats"=>{"downloads"=>0, "page_views"=>8, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Gene_regulatory_network_GRN_model_underlying_cell_fate_determination_during_Arabidopsis_thaliana_floral_organ_determination_during_early_flower_development_/491784", "title"=>"Gene regulatory network (GRN) model underlying cell fate determination during Arabidopsis thaliana floral organ determination during early flower development.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-02-20 22:37:27"}
  • {"files"=>["https://ndownloader.figshare.com/files/821548"], "description"=>"<p>On the left hand side we show the undifferentiated cells in yellow, each having identical GRNs and gene configurations. Such configurations correspond to the state of activations of each of the genes within the GRN. The profile of the initial field is shown in red and the field is shown in black. As time runs, there is a reciprocal interaction between the fields and the GRN, represented by a purple line. On the right hand side we show the state of the fields and the GRNs within cells after some time. The GRNs respond to the external fields, which provide positional information, and thus attain different attractors depending on the value of the fields at each cell position. These attractors or gene configurations are represented by showing activated genes in blue, while the colours of the cells indicate different lineages and fates.</p>", "links"=>[], "tags"=>["interplay", "intracellular", "fields", "spatio-temporal", "patterns"], "article_id"=>491913, "categories"=>["Cell Biology", "Physics", "Biophysics"], "users"=>["Rafael Ángel Barrio", "Aurora Hernández-Machado", "C. Varea", "José Roberto Romero-Arias", "Elena Álvarez-Buylla"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0013523.g002", "stats"=>{"downloads"=>1, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Schematic_representation_of_the_proposed_interplay_between_the_intracellular_gene_regulatory_network_GRN_dynamics_and_physical_fields_that_lead_to_the_spatio_temporal_patterns_of_cell_types_/491913", "title"=>"Schematic representation of the proposed interplay between the intracellular gene regulatory network (GRN) dynamics and physical fields that lead to the spatio-temporal patterns of cell types.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-02-20 22:38:08"}
  • {"files"=>["https://ndownloader.figshare.com/files/822031"], "description"=>"<p>(A) Spatial configuration obtained by setting . (B) Flower of an over-expression line for AP3 in which petals, stamens and petals are observed (taken from Ref. <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0013523#pone.0013523-Kogi1\" target=\"_blank\">[23]</a>). (C) Simulated B function over expression obtained setting . Carpels in red, stamens in orange, petals in light green and sepals in light blue. The undifferentiated cells are in dark blue.</p>", "links"=>[], "tags"=>["recovers", "spatial", "configurations", "observed", "over-expression", "lines"], "article_id"=>492394, "categories"=>["Cell Biology", "Physics", "Biophysics"], "users"=>["Rafael Ángel Barrio", "Aurora Hernández-Machado", "C. Varea", "José Roberto Romero-Arias", "Elena Álvarez-Buylla"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0013523.g007", "stats"=>{"downloads"=>1, "page_views"=>6, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_The_model_recovers_spatial_configurations_similar_to_those_observed_in_over_expression_lines_of_and_/492394", "title"=>"The model recovers spatial configurations similar to those observed in over-expression lines of and .", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-02-20 22:40:41"}
  • {"files"=>["https://ndownloader.figshare.com/files/821739"], "description"=>"<p>Numerical results for the spatial arrangement of gene configurations in a two dimensional domain that corresponds to a plane perpendicular to the axis of symmetry of the meristem. Carpels in red, stamens in orange, petals in light green and sepals in light blue. The undifferentiated cells are in dark blue.</p>", "links"=>[], "tags"=>["spatial", "arrangements", "primordial", "floral"], "article_id"=>492107, "categories"=>["Cell Biology", "Physics", "Biophysics"], "users"=>["Rafael Ángel Barrio", "Aurora Hernández-Machado", "C. Varea", "José Roberto Romero-Arias", "Elena Álvarez-Buylla"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0013523.g004", "stats"=>{"downloads"=>0, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Simulated_spatial_arrangements_of_primordial_floral_organ_for_wild_type_plants_/492107", "title"=>"Simulated spatial arrangements of primordial floral organ for wild type plants.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-02-20 22:39:10"}
  • {"files"=>["https://ndownloader.figshare.com/files/821916"], "description"=>"<p>(A) A-mutant flower showing a homeotic conversion of sepals and petals into carpels and stamens, respectively. (B) Simulated A-mutant with set to 0, showing a spatial arrangement of configurations corresponding to stamens and carpels similar to that shown in (a). (C) B-mutant flower with a homeotic conversion of petals and stamens into sepals and carpels, respectively. (D) Simulated B-mutant obtained by setting to 0, showing a spatial arrangement of configurations corresponding to sepals and carpels similar to that shown in (b). (E) C-mutant flower with a homeotic conversion of stamens and carpels into sepals and petals, respectively, and a loss of flower meristem determinacy. (F) Simulated C-mutant obtained by setting to 0, showing a spatial arrangement of configurations corresponding to sepals and petals similar to that shown in (E). Carpels in red, stamens in orange, petals in light green and sepals in light blue. The undifferentiated cells are in dark blue.</p>", "links"=>[], "tags"=>["recovers", "spatial", "configurations", "abc", "mutants"], "article_id"=>492283, "categories"=>["Cell Biology", "Physics", "Biophysics"], "users"=>["Rafael Ángel Barrio", "Aurora Hernández-Machado", "C. Varea", "José Roberto Romero-Arias", "Elena Álvarez-Buylla"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0013523.g006", "stats"=>{"downloads"=>1, "page_views"=>8, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_The_model_recovers_spatial_configurations_that_resemble_those_of_ABC_mutants_when_these_are_simulated_/492283", "title"=>"The model recovers spatial configurations that resemble those of ABC mutants when these are simulated.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-02-20 22:40:06"}
  • {"files"=>["https://ndownloader.figshare.com/files/821657"], "description"=>"<p>An arrow indicates an activation, a bar at the end of an edge indicates an inhibitory interaction. Wavy arrows indicate two-way interactions between the GRN and the macroscopic physical fields and . This model is also in agreement with recent accounts <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0013523#pone.0013523-Prunet1\" target=\"_blank\">[24]</a> of the molecular genetics of flower development and is congruent with the original GRN shown in <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0013523#pone-0013523-g001\" target=\"_blank\">Fig. 1</a>.</p>", "links"=>[], "tags"=>["biophysics/theory and simulation", "cell biology/gene expression", "cell biology/plant cell biology", "physics/interdisciplinary physics"], "article_id"=>492028, "categories"=>["Cell Biology", "Physics", "Biophysics"], "users"=>["Rafael Ángel Barrio", "Aurora Hernández-Machado", "C. Varea", "José Roberto Romero-Arias", "Elena Álvarez-Buylla"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0013523.g003", "stats"=>{"downloads"=>1, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Simplified_gene_regulatory_network_/492028", "title"=>"Simplified gene regulatory network.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-02-20 22:38:45"}

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Relative Metric

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