Biodiversity Assessment in Incomplete Inventories: Leaf Litter Ant Communities in Several Types of Bornean Rain Forest
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{"title"=>"Biodiversity assessment in incomplete inventories: Leaf litter ant communities in several types of bornean rain forest", "type"=>"journal", "authors"=>[{"first_name"=>"Martin", "last_name"=>"Pfeiffer", "scopus_author_id"=>"7101807495"}, {"first_name"=>"Dirk", "last_name"=>"Mezger", "scopus_author_id"=>"36537628000"}], "year"=>2012, "source"=>"PLoS ONE", "identifiers"=>{"pui"=>"365274071", "issn"=>"19326203", "isbn"=>"1932-6203", "doi"=>"10.1371/journal.pone.0040729", "scopus"=>"2-s2.0-84863995930", "pmid"=>"22815799", "sgr"=>"84863995930"}, "id"=>"804163d2-2eb7-3f91-b447-9dfac06099e0", "abstract"=>"Biodiversity assessment of tropical taxa is hampered by their tremendous richness, which leads to large numbers of singletons and incomplete inventories in survey studies. Species estimators can be used for assessment of alpha diversity, but calculation of beta diversity is hampered by pseudo-turnover of species in undersampled plots. To assess the impact of unseen species, we investigated different methods, including an unbiased estimator of Shannon beta diversity that was compared to biased calculations. We studied alpha and beta diversity of a diverse ground ant assemblage from the Southeast Asian island of Borneo in different types of tropical forest: diperocarp forest, alluvial forest, limestone forest and heath forests. Forests varied in plant composition, geology, flooding regimes and other environmental parameters. We tested whether forest types differed in species composition and if species turnover was a function of the distance between plots at different spatial scales. As pseudo-turnover may bias beta diversity we hypothesized a large effect of unseen species reducing beta diversity. We sampled 206 ant species (25% singletons) from ten subfamilies and 55 genera. Diversity partitioning among the four forest types revealed that whereas alpha species richness and alpha Shannon diversity were significantly smaller than expected, beta-diversity for both measurements was significantly higher than expected by chance. This result was confirmed when we used the unbiased estimation of Shannon diversity: while alpha diversity was much higher, beta diversity differed only slightly from biased calculations. Beta diversity as measured with the Chao-Sørensen or Morisita-Horn Index correlated with distance between transects and between sample points, indicating a distance decay of similarity between communities. We conclude that habitat heterogeneity has a high influence on ant diversity and species turnover in tropical sites and that unseen species may have only little impact on calculation of Shannon beta diversity when sampling effort has been high.", "link"=>"http://www.mendeley.com/research/biodiversity-assessment-incomplete-inventories-leaf-litter-ant-communities-several-types-bornean-rai", "reader_count"=>105, "reader_count_by_academic_status"=>{"Unspecified"=>3, "Professor > Associate Professor"=>6, "Researcher"=>18, "Student > Doctoral Student"=>6, "Student > Ph. D. Student"=>26, "Student > Postgraduate"=>4, "Other"=>4, "Student > Master"=>20, "Student > Bachelor"=>10, "Lecturer > Senior Lecturer"=>2, "Professor"=>6}, "reader_count_by_user_role"=>{"Unspecified"=>3, "Professor > Associate Professor"=>6, "Researcher"=>18, "Student > Doctoral Student"=>6, "Student > Ph. D. Student"=>26, "Student > Postgraduate"=>4, "Other"=>4, "Student > Master"=>20, "Student > Bachelor"=>10, "Lecturer > Senior Lecturer"=>2, "Professor"=>6}, "reader_count_by_subject_area"=>{"Unspecified"=>6, "Environmental Science"=>18, "Biochemistry, Genetics and Molecular Biology"=>1, "Agricultural and Biological Sciences"=>74, "Medicine and Dentistry"=>1, "Arts and Humanities"=>1, "Physics and Astronomy"=>1, "Social Sciences"=>1, "Earth and Planetary Sciences"=>2}, "reader_count_by_subdiscipline"=>{"Medicine and Dentistry"=>{"Medicine and Dentistry"=>1}, "Social Sciences"=>{"Social Sciences"=>1}, "Physics and Astronomy"=>{"Physics and Astronomy"=>1}, "Earth and Planetary Sciences"=>{"Earth and Planetary Sciences"=>2}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>74}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>1}, "Unspecified"=>{"Unspecified"=>6}, "Environmental Science"=>{"Environmental Science"=>18}, "Arts and Humanities"=>{"Arts and Humanities"=>1}}, "reader_count_by_country"=>{"Greece"=>1, "Canada"=>1, "Czech Republic"=>1, "United States"=>3, "Brazil"=>8, "United Kingdom"=>3, "France"=>1, "India"=>1, "Indonesia"=>1}, "group_count"=>2}

Scopus | Further Information

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/317878", "https://ndownloader.figshare.com/files/317896"], "description"=>"<div><p>Biodiversity assessment of tropical taxa is hampered by their tremendous richness, which leads to large numbers of singletons and incomplete inventories in survey studies. Species estimators can be used for assessment of alpha diversity, but calculation of beta diversity is hampered by pseudo-turnover of species in undersampled plots. To assess the impact of unseen species, we investigated different methods, including an unbiased estimator of Shannon beta diversity that was compared to biased calculations. We studied alpha and beta diversity of a diverse ground ant assemblage from the Southeast Asian island of Borneo in different types of tropical forest: diperocarp forest, alluvial forest, limestone forest and heath forests. Forests varied in plant composition, geology, flooding regimes and other environmental parameters. We tested whether forest types differed in species composition and if species turnover was a function of the distance between plots at different spatial scales. As pseudo-turnover may bias beta diversity we hypothesized a large effect of unseen species reducing beta diversity. We sampled 206 ant species (25% singletons) from ten subfamilies and 55 genera. Diversity partitioning among the four forest types revealed that whereas alpha species richness and alpha Shannon diversity were significantly smaller than expected, beta-diversity for both measurements was significantly higher than expected by chance. This result was confirmed when we used the unbiased estimation of Shannon diversity: while alpha diversity was much higher, beta diversity differed only slightly from biased calculations. Beta diversity as measured with the Chao-Sørensen or Morisita-Horn Index correlated with distance between transects and between sample points, indicating a distance decay of similarity between communities. We conclude that habitat heterogeneity has a high influence on ant diversity and species turnover in tropical sites and that unseen species may have only little impact on calculation of Shannon beta diversity when sampling effort has been high.</p> </div>", "links"=>[], "tags"=>["biodiversity", "incomplete", "litter", "ant", "communities", "types", "bornean"], "article_id"=>122749, "categories"=>["Ecology"], "users"=>["Martin Pfeiffer", "Dirk Mezger"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0040729.s001", "https://dx.doi.org/10.1371/journal.pone.0040729.s002"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/Biodiversity_Assessment_in_Incomplete_Inventories_Leaf_Litter_Ant_Communities_in_Several_Types_of_Bornean_Rain_Forest/122749", "title"=>"Biodiversity Assessment in Incomplete Inventories: Leaf Litter Ant Communities in Several Types of Bornean Rain Forest", "pos_in_sequence"=>0, "defined_type"=>4, "published_date"=>"2012-07-16 00:45:49"}
  • {"files"=>["https://ndownloader.figshare.com/files/608548"], "description"=>"<p>The position of the National Park’s headquarter (HQ) is marked with a white triangle. The coordinates on the map are at the lower-left corner. The inserted map shows the position of this protected area on Borneo.</p>", "links"=>[], "tags"=>["transects", "gunung", "mulu"], "article_id"=>279046, "categories"=>["Ecology"], "users"=>["Martin Pfeiffer", "Dirk Mezger"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0040729.g001"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Location_of_the_six_transects_in_Gunung_Mulu_National_Park_/279046", "title"=>"Location of the six transects in Gunung Mulu National Park.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2012-07-16 02:30:46"}
  • {"files"=>["https://ndownloader.figshare.com/files/608649"], "description"=>"<p>We sampled 20 points in dipterocarp forest and Kerangas and 30 points in limestone and alluvial forest. Calculation was based on species occurrences (SOCs).</p>", "links"=>[], "tags"=>["tao", "rarefaction", "curves"], "article_id"=>279149, "categories"=>["Ecology"], "users"=>["Martin Pfeiffer", "Dirk Mezger"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0040729.g002"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Mao_Tao_rarefaction_curves_of_all_four_forest_types_/279149", "title"=>"Mao Tao rarefaction curves of all four forest types.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2012-07-16 02:32:29"}
  • {"files"=>["https://ndownloader.figshare.com/files/608717"], "description"=>"<p>Statistic calculations were done with mantel tests on inverted indices, regressions lines are only given for visualization. Mind the different scales of the Y-axes. 3a) Distance decay of transect similarity as shown by Chao-Sørensen estimations (Regression line y = 0.8134−0.0013*x). 3b) Distance decay of transect similarity as demonstrated by the Morisita-Horn index (Regression line y = 0.6785−0.0017).</p>", "links"=>[], "tags"=>["distances", "beta"], "article_id"=>279213, "categories"=>["Ecology"], "users"=>["Martin Pfeiffer", "Dirk Mezger"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0040729.g003"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Transect_distances_and_beta_diversity_measures_/279213", "title"=>"Transect distances and beta diversity measures.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2012-07-16 02:33:33"}
  • {"files"=>["https://ndownloader.figshare.com/files/608793"], "description"=>"<p>Statistic calculation was done with a mantel test and the inverted index (n = 4950), the regression line is only given for visualization (Regression line y = 0.7264−1.9279E-5*x).</p>", "links"=>[], "tags"=>["decay", "sampling", "points", "demonstrated", "chao"], "article_id"=>279288, "categories"=>["Ecology"], "users"=>["Martin Pfeiffer", "Dirk Mezger"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0040729.g004"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Distance_decay_of_similarity_of_sampling_points_demonstrated_by_Chao_S_248_rensen_estimations_/279288", "title"=>"Distance decay of similarity of sampling points demonstrated by Chao Sørensen estimations.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2012-07-16 02:34:48"}
  • {"files"=>["https://ndownloader.figshare.com/files/608849"], "description"=>"<p>Given are the unbiased estimators for alpha and beta Shannon diversity for the single forest types; for all forests their weighted sums are given, as well as the resulting unbiased gamma Shannon diversity. These values have been calculated by additive partitioning of the Shannon entropy H; the calculation is given in <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0040729#pone.0040729.s002\" target=\"_blank\">Table S2</a>. Upper and lower 95% confidence interval for the estimator of Shannon beta diversity in squared brackets, range of *<i>D</i><sub>β</sub>: 1.0–4.0.</p>", "links"=>[], "tags"=>["estimations", "beta", "gamma", "shannon", "partitioning", "marcon"], "article_id"=>279340, "categories"=>["Ecology"], "users"=>["Martin Pfeiffer", "Dirk Mezger"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0040729.t004"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Unbiased_estimations_of_alpha_beta_and_gamma_Shannon_diversity_D_according_to_the_partitioning_procedure_of_Marcon_et_al_19_/279340", "title"=>"Unbiased estimations of alpha, beta and gamma Shannon diversity*<i>D</i> according to the partitioning procedure of Marcon <i>et al.</i>[19].", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2012-07-16 02:35:40"}
  • {"files"=>["https://ndownloader.figshare.com/files/608873"], "description"=>"<p>Upper and lower 95% confidence interval in squared brackets, range of *<i>D</i><sub>β</sub>: 1.0–2.0.</p><p>Results are weight according to the number of transects.</p>", "links"=>[], "tags"=>["shannon", "beta-diversity", "types", "calculated", "marcon"], "article_id"=>279363, "categories"=>["Ecology"], "users"=>["Martin Pfeiffer", "Dirk Mezger"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0040729.t005"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Unbiased_estimated_Shannon_beta_diversity_D_946_between_the_four_forest_types_as_calculated_after_the_framework_of_Marcon_et_al_19_/279363", "title"=>"Unbiased estimated Shannon beta-diversity *<i>D</i><sub>β</sub> between the four forest types as calculated after the framework of Marcon <i>et al.</i>[19].", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2012-07-16 02:36:03"}
  • {"files"=>["https://ndownloader.figshare.com/files/608904"], "description"=>"<p>Given are sample size, ant density, species occurrences, the collected species number and density, the sample completeness and the species estimator chosen after <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0040729#pone.0040729-Brose1\" target=\"_blank\">[40]</a>, as well as the number of estimated species. <b>±</b> SD in round parentheses.</p>", "links"=>[], "tags"=>["numbers", "ant", "types", "gunung", "mulu"], "article_id"=>279406, "categories"=>["Ecology"], "users"=>["Martin Pfeiffer", "Dirk Mezger"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0040729.t001"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Sample_parameters_collected_and_estimated_numbers_of_ant_species_in_the_four_forest_types_of_Gunung_Mulu_National_Park_/279406", "title"=>"Sample parameters, collected and estimated numbers of ant species in the four forest types of Gunung Mulu National Park.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2012-07-16 02:36:46"}
  • {"files"=>["https://ndownloader.figshare.com/files/608932"], "description"=>"<p>Given are Shannon entropy and the resulting effective species numbers - Shannon diversity sensu Jost <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0040729#pone.0040729-Jost2\" target=\"_blank\">[10]</a>- for all forest types at a common sample size of 206 SOCs and for Alluvial and limestone forest separately at a common sample size of 470 SOCs. Additionally, Simpson diversity at 206 SOCs is calculated for all forest types. These results are not corrected for unseen species.</p>", "links"=>[], "tags"=>["measures"], "article_id"=>279425, "categories"=>["Ecology"], "users"=>["Martin Pfeiffer", "Dirk Mezger"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0040729.t002"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Alpha_diversity_measures_at_different_sample_size_for_the_four_forest_types_/279425", "title"=>"Alpha diversity measures at different sample size for the four forest types.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2012-07-16 02:37:05"}
  • {"files"=>["https://ndownloader.figshare.com/files/608971"], "description"=>"<p>For calculation of Shannon diversity samples could be weighted according their abundances.</p>", "links"=>[], "tags"=>["multiplicative", "partitioning", "components", "richness", "shannon", "compared", "1000", "randomizations", "partition"], "article_id"=>279466, "categories"=>["Ecology"], "users"=>["Martin Pfeiffer", "Dirk Mezger"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0040729.t003"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Hierarchical_multiplicative_partitioning_of_and_components_for_species_richness_and_Shannon_diversity_D_compared_to_expected_values_from_1000_randomizations_with_PARTITION_V3_/279466", "title"=>"Hierarchical multiplicative partitioning of α and β components for species richness and Shannon diversity <i>D</i> compared to expected values from 1000 randomizations with PARTITION V3.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2012-07-16 02:37:46"}

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Relative Metric

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