Landscape Patterns in Rainforest Phylogenetic Signal: Isolated Islands of Refugia or Structured Continental Distributions?
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{"title"=>"Landscape patterns in rainforest phylogenetic signal: Isolated islands of refugia or structured continental distributions", "type"=>"journal", "authors"=>[{"first_name"=>"Robert M.", "last_name"=>"Kooyman", "scopus_author_id"=>"11939277500"}, {"first_name"=>"Maurizio", "last_name"=>"Rossetto", "scopus_author_id"=>"7003961092"}, {"first_name"=>"Hervé", "last_name"=>"Sauquet", "scopus_author_id"=>"6603276949"}, {"first_name"=>"Shawn W.", "last_name"=>"Laffan", "scopus_author_id"=>"6603019813"}], "year"=>2013, "source"=>"PLoS ONE", "identifiers"=>{"scopus"=>"2-s2.0-84891444154", "sgr"=>"84891444154", "issn"=>"19326203", "arxiv"=>"arXiv:1011.1669v3", "doi"=>"10.1371/journal.pone.0080685", "pmid"=>"24312493", "isbn"=>"1600-0587", "pui"=>"372022101"}, "id"=>"69a122b9-dde6-3638-aa3c-576cabde1ee0", "abstract"=>"OBJECTIVES: Identify patterns of change in species distributions, diversity, concentrations of evolutionary history, and assembly of Australian rainforests.\\n\\nMETHODS: We used the distribution records of all known rainforest woody species in Australia across their full continental extent. These were analysed using measures of species richness, phylogenetic diversity (PD), phylogenetic endemism (PE) and phylogenetic structure (net relatedness index; NRI). Phylogenetic structure was assessed using both continental and regional species pools. To test the influence of growth-form, freestanding and climbing plants were analysed independently, and in combination.\\n\\nRESULTS: Species richness decreased along two generally orthogonal continental axes, corresponding with wet to seasonally dry and tropical to temperate habitats. The PE analyses identified four main areas of substantially restricted phylogenetic diversity, including parts of Cape York, Wet Tropics, Border Ranges, and Tasmania. The continental pool NRI results showed evenness (species less related than expected by chance) in groups of grid cells in coastally aligned areas of species rich tropical and sub-tropical rainforest, and in low diversity moist forest areas in the south-east of the Great Dividing Range and in Tasmania. Monsoon and drier vine forests, and moist forests inland from upland refugia showed phylogenetic clustering, reflecting lower diversity and more relatedness. Signals for evenness in Tasmania and clustering in northern monsoon forests weakened in analyses using regional species pools. For climbing plants, values for NRI by grid cell showed strong spatial structuring, with high diversity and PE concentrated in moist tropical and subtropical regions.\\n\\nCONCLUSIONS/SIGNIFICANCE: Concentrations of rainforest evolutionary history (phylo-diversity) were patchily distributed within a continuum of species distributions. Contrasting with previous concepts of rainforest community distribution, our findings of continuous distributions and continental connectivity have significant implications for interpreting rainforest evolutionary history and current day ecological processes, and for managing rainforest diversity in changing circumstances.", "link"=>"http://www.mendeley.com/research/landscape-patterns-rainforest-phylogenetic-signal-isolated-islands-refugia-structured-continental-di", "reader_count"=>39, "reader_count_by_academic_status"=>{"Unspecified"=>1, "Professor > Associate Professor"=>3, "Researcher"=>5, "Student > Doctoral Student"=>1, "Student > Ph. D. Student"=>16, "Student > Master"=>8, "Other"=>2, "Student > Bachelor"=>2, "Professor"=>1}, "reader_count_by_user_role"=>{"Unspecified"=>1, "Professor > Associate Professor"=>3, "Researcher"=>5, "Student > Doctoral Student"=>1, "Student > Ph. D. Student"=>16, "Student > Master"=>8, "Other"=>2, "Student > Bachelor"=>2, "Professor"=>1}, "reader_count_by_subject_area"=>{"Unspecified"=>1, "Environmental Science"=>4, "Biochemistry, Genetics and Molecular Biology"=>2, "Agricultural and Biological Sciences"=>28, "Physics and Astronomy"=>1, "Chemistry"=>1, "Computer Science"=>1, "Earth and Planetary Sciences"=>1}, "reader_count_by_subdiscipline"=>{"Chemistry"=>{"Chemistry"=>1}, "Physics and Astronomy"=>{"Physics and Astronomy"=>1}, "Earth and Planetary Sciences"=>{"Earth and Planetary Sciences"=>1}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>28}, "Computer Science"=>{"Computer Science"=>1}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>2}, "Unspecified"=>{"Unspecified"=>1}, "Environmental Science"=>{"Environmental Science"=>4}}, "reader_count_by_country"=>{"Colombia"=>1, "United States"=>1, "China"=>1, "Brazil"=>2, "France"=>1, "Australia"=>1}, "group_count"=>1}

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/1299746"], "description"=>"<p>Phylogenetic Diversity (PD) and Phylogenetic Endemism (PE) values for 50×50 km grid cells for all woody plants combined, and for two growth forms representing freestanding (trees and shrubs), and climbing (vines) plants. For clarity of presentation cells are clipped to the coastline and off-shore islands are not displayed. Darker colours (red to black) and higher values reflect greater concentrations of evolutionary diversity, particularly for PE. PD is highly correlated with species richness so can also be read as a ‘heat map’ for richness.</p>", "links"=>[], "tags"=>[], "article_id"=>865736, "categories"=>["Information And Computing Sciences", "Biological Sciences", "Ecology", "Earth and Environmental Sciences"], "users"=>["Robert M. Kooyman", "Maurizio Rossetto", "Hervé Sauquet", "Shawn W. Laffan"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0080685.g002", "stats"=>{"downloads"=>0, "page_views"=>8, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Phylogenetic_diversity_patterns_/865736", "title"=>"Phylogenetic diversity patterns.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-12-02 02:41:47"}
  • {"files"=>["https://ndownloader.figshare.com/files/1299750", "https://ndownloader.figshare.com/files/1299751"], "description"=>"<div><p>Objectives</p><p>Identify patterns of change in species distributions, diversity, concentrations of evolutionary history, and assembly of Australian rainforests.</p><p>Methods</p><p>We used the distribution records of all known rainforest woody species in Australia across their full continental extent. These were analysed using measures of species richness, phylogenetic diversity (PD), phylogenetic endemism (PE) and phylogenetic structure (net relatedness index; NRI). Phylogenetic structure was assessed using both continental and regional species pools. To test the influence of growth-form, freestanding and climbing plants were analysed independently, and in combination.</p><p>Results</p><p>Species richness decreased along two generally orthogonal continental axes, corresponding with wet to seasonally dry and tropical to temperate habitats. The PE analyses identified four main areas of substantially restricted phylogenetic diversity, including parts of Cape York, Wet Tropics, Border Ranges, and Tasmania. The continental pool NRI results showed evenness (species less related than expected by chance) in groups of grid cells in coastally aligned areas of species rich tropical and sub-tropical rainforest, and in low diversity moist forest areas in the south-east of the Great Dividing Range and in Tasmania. Monsoon and drier vine forests, and moist forests inland from upland refugia showed phylogenetic clustering, reflecting lower diversity and more relatedness. Signals for evenness in Tasmania and clustering in northern monsoon forests weakened in analyses using regional species pools. For climbing plants, values for NRI by grid cell showed strong spatial structuring, with high diversity and PE concentrated in moist tropical and subtropical regions.</p><p>Conclusions/Significance</p><p>Concentrations of rainforest evolutionary history (phylo-diversity) were patchily distributed within a continuum of species distributions. Contrasting with previous concepts of rainforest community distribution, our findings of continuous distributions and continental connectivity have significant implications for interpreting rainforest evolutionary history and current day ecological processes, and for managing rainforest diversity in changing circumstances.</p></div>", "links"=>[], "tags"=>["patterns", "rainforest", "phylogenetic", "islands", "refugia", "structured", "continental"], "article_id"=>865740, "categories"=>["Information And Computing Sciences", "Biological Sciences", "Ecology", "Earth and Environmental Sciences"], "users"=>["Robert M. Kooyman", "Maurizio Rossetto", "Hervé Sauquet", "Shawn W. Laffan"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0080685.s001", "https://dx.doi.org/10.1371/journal.pone.0080685.s002"], "stats"=>{"downloads"=>12, "page_views"=>17, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Landscape_Patterns_in_Rainforest_Phylogenetic_Signal_Isolated_Islands_of_Refugia_or_Structured_Continental_Distributions_/865740", "title"=>"Landscape Patterns in Rainforest Phylogenetic Signal: Isolated Islands of Refugia or Structured Continental Distributions?", "pos_in_sequence"=>0, "defined_type"=>4, "published_date"=>"2013-12-02 02:41:47"}
  • {"files"=>["https://ndownloader.figshare.com/files/1299747"], "description"=>"<p>Net Relatedness Index by grid cell (50×50 km) based on continental and regional species pools for all woody plants combined, for freestanding (trees and shrubs), and climbing (vines) plants. For clarity of presentation cells are clipped to the coastline and off-shore islands are not shown. Clus (sig) - significant clustering; Clus (weak) - weak clustering; Disp (sig) - significant evenness (over-dispersion); Disp (weak) - weak evenness (over-dispersion); No pattern - no phylogenetic structure (relative to null model).</p>", "links"=>[], "tags"=>["australian"], "article_id"=>865737, "categories"=>["Information And Computing Sciences", "Biological Sciences", "Ecology", "Earth and Environmental Sciences"], "users"=>["Robert M. Kooyman", "Maurizio Rossetto", "Hervé Sauquet", "Shawn W. Laffan"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0080685.g003", "stats"=>{"downloads"=>0, "page_views"=>8, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Phylogenetic_structure_of_Australian_rainforests_/865737", "title"=>"Phylogenetic structure of Australian rainforests.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-12-02 02:41:47"}
  • {"files"=>["https://ndownloader.figshare.com/files/1299748"], "description"=>"<p>Trees - free-standing trees and shrubs, and Climbers – vines. Wet and dry sclerophyll (non-rainforest) species, mangroves, herbs, palms (including climbing palms), ferns and cordylines were excluded from this synthesis. IMPNG% - percentage of species shared between Australia (Aust) and Indo-Malesia (IM) including Papua New Guinea (PNG) based on currently available taxonomy. Note that the percentages are based on current taxonomic allocations and do not indicate the origins of the species as being in either IMPNG or Australia. Regions include (from lower to higher latitude in an arc from northwest to southeast): WA_NT - West Australian Kimberley Region and Northern Territory; CY - Cape York; WT - Wet Tropics; CQ - north to central Queensland (including Eungella Range and Proserpine area); BR - south-east Queensland and northern New South Wales (Bundaberg to the Hunter Region); SNSW - southern New South Wales; Vic* – Victoria; and Tas - Tasmania. * includes part of SNSW.</p>", "links"=>[], "tags"=>["woody", "rainforest", "genera", "continental", "australia", "in-shore"], "article_id"=>865738, "categories"=>["Information And Computing Sciences", "Biological Sciences", "Ecology", "Earth and Environmental Sciences"], "users"=>["Robert M. Kooyman", "Maurizio Rossetto", "Hervé Sauquet", "Shawn W. Laffan"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0080685.t001", "stats"=>{"downloads"=>2, "page_views"=>5, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Number_of_woody_rainforest_families_genera_and_species_by_region_in_continental_Australia_including_in_shore_islands_/865738", "title"=>"Number of woody rainforest families, genera and species by region in continental Australia including in-shore islands.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2013-12-02 02:41:47"}
  • {"files"=>["https://ndownloader.figshare.com/files/1299745"], "description"=>"<p>Top: Rainforest species distributions by region shown here as range 6 - 464 species (see PD in <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0080685#pone-0080685-g002\" target=\"_blank\">Fig. 2</a>) in 10×10 km grid cells in Australia based on Australian Virtual Herbarium records. Bottom: rainfall map of Australia showing details of coastline and near shore islands with place names and states. Regions from northwest to southeast are WA-NT - Western Australia and Northern Territory; CY - Cape York; WT - Wet Tropics (WT); CQ - central Queensland; BR - southeastern Queensland and northern New South Wales; SNSW - southern New South Wales; Vic – Victoria; and Tas - Tasmania. Additional state name abbreviations not explained in region names are Qld - Queensland; SA - South Australia.</p>", "links"=>[], "tags"=>["rainforest", "woody", "continental"], "article_id"=>865735, "categories"=>["Information And Computing Sciences", "Biological Sciences", "Ecology", "Earth and Environmental Sciences"], "users"=>["Robert M. Kooyman", "Maurizio Rossetto", "Hervé Sauquet", "Shawn W. Laffan"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0080685.g001", "stats"=>{"downloads"=>1, "page_views"=>9, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Australian_rainforest_woody_species_distribution_and_continental_rainfall_/865735", "title"=>"Australian rainforest woody species distribution, and continental rainfall.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-12-02 02:41:47"}

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