Biodiversity Sampling Using a Global Acoustic Approach: Contrasting Sites with Microendemics in New Caledonia
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{"title"=>"Biodiversity Sampling Using a Global Acoustic Approach: Contrasting Sites with Microendemics in New Caledonia", "type"=>"journal", "authors"=>[{"first_name"=>"Amandine", "last_name"=>"Gasc", "scopus_author_id"=>"36548102000"}, {"first_name"=>"J??r??me", "last_name"=>"Sueur", "scopus_author_id"=>"55893287300"}, {"first_name"=>"Sandrine", "last_name"=>"Pavoine", "scopus_author_id"=>"55966387900"}, {"first_name"=>"Roseli", "last_name"=>"Pellens", "scopus_author_id"=>"6602549032"}, {"first_name"=>"Philippe", "last_name"=>"Grandcolas", "scopus_author_id"=>"7004217795"}], "year"=>2013, "source"=>"PLoS ONE", "identifiers"=>{"sgr"=>"84878466951", "isbn"=>"1932-6203 (Electronic)\\r1932-6203 (Linking)", "issn"=>"19326203", "pmid"=>"23734245", "pui"=>"369030936", "doi"=>"10.1371/journal.pone.0065311", "scopus"=>"2-s2.0-84878466951"}, "id"=>"2d568a59-bec8-3eb2-8cd3-b10beea4e466", "abstract"=>"New Caledonia is a Pacific island with a unique biodiversity showing an extreme microendemism. Many species distributions observed on this island are extremely restricted, localized to mountains or rivers making biodiversity evaluation and conservation a difficult task. A rapid biodiversity assessment method based on acoustics was recently proposed. This method could help to document the unique spatial structure observed in New Caledonia. Here, this method was applied in an attempt to reveal differences among three mountain sites (Mandjélia, Koghis and Aoupinié) with similar ecological features and species richness level, but with high beta diversity according to different microendemic assemblages. In each site, several local acoustic communities were sampled with audio recorders. An automatic acoustic sampling was run on these three sites for a period of 82 successive days. Acoustic properties of animal communities were analysed without any species identification. A frequency spectral complexity index (NP) was used as an estimate of the level of acoustic activity and a frequency spectral dissimilarity index (Df ) assessed acoustic differences between pairs of recordings. As expected, the index NP did not reveal significant differences in the acoustic activity level between the three sites. However, the acoustic variability estimated by the index Df , could first be explained by changes in the acoustic communities along the 24-hour cycle and second by acoustic dissimilarities between the three sites. The results support the hypothesis that global acoustic analyses can detect acoustic differences between sites with similar species richness and similar ecological context, but with different species assemblages. This study also demonstrates that global acoustic methods applied at broad spatial and temporal scales could help to assess local biodiversity in the challenging context of microendemism. The method could be deployed over large areas, and could help to compare different sites and determine conservation priorities.", "link"=>"http://www.mendeley.com/research/biodiversity-sampling-using-global-acoustic-approach-contrasting-sites-microendemics-new-caledonia", "reader_count"=>151, "reader_count_by_academic_status"=>{"Unspecified"=>3, "Professor > Associate Professor"=>6, "Researcher"=>37, "Student > Doctoral Student"=>9, "Student > Ph. D. Student"=>33, "Student > Postgraduate"=>8, "Student > Master"=>36, "Other"=>5, "Student > Bachelor"=>11, "Professor"=>3}, "reader_count_by_user_role"=>{"Unspecified"=>3, "Professor > Associate Professor"=>6, "Researcher"=>37, "Student > Doctoral Student"=>9, "Student > Ph. D. Student"=>33, "Student > Postgraduate"=>8, "Student > Master"=>36, "Other"=>5, "Student > Bachelor"=>11, "Professor"=>3}, "reader_count_by_subject_area"=>{"Engineering"=>6, "Unspecified"=>6, "Environmental Science"=>39, "Mathematics"=>1, "Agricultural and Biological Sciences"=>86, "Physics and Astronomy"=>1, "Psychology"=>1, "Computer Science"=>9, "Earth and Planetary Sciences"=>2}, "reader_count_by_subdiscipline"=>{"Engineering"=>{"Engineering"=>6}, "Physics and Astronomy"=>{"Physics and Astronomy"=>1}, "Psychology"=>{"Psychology"=>1}, "Earth and Planetary Sciences"=>{"Earth and Planetary Sciences"=>2}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>86}, "Computer Science"=>{"Computer Science"=>9}, "Mathematics"=>{"Mathematics"=>1}, "Unspecified"=>{"Unspecified"=>6}, "Environmental Science"=>{"Environmental Science"=>39}}, "reader_count_by_country"=>{"Puerto Rico"=>1, "Argentina"=>1, "United States"=>3, "United Kingdom"=>1, "India"=>2, "Spain"=>1, "Venezuela"=>1, "China"=>1, "Brazil"=>6, "Denmark"=>1, "South Africa"=>1, "Italy"=>1, "France"=>1, "Germany"=>1}, "group_count"=>13}

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/1069773"], "description"=>"<p><b>A</b>: Results of dbRDA applied to the acoustic distances among recordings, with factor “Time” as an explanatory variable. <b>B</b>: Results of dbRDA applied to the acoustic distances among recordings, with factor “Site” as an explanatory variable (A: Aoupinié, K: Koghis, M: Mandjélia). The length of the arrows represents residuals: each arrow connects the position of a recording predicted by the time in which it was done or the site in which it was done (where the arrow starts) to its real position based on raw data (real acoustic composition where the arrow ends).</p>", "links"=>[], "tags"=>["ecology", "Community Ecology", "Community assembly", "Ecological metrics", "Species diversity", "biodiversity", "Bioindicators", "Conservation science", "Evolutionary ecology", "Systems ecology", "Zoology", "Animal behavior", "redundancy"], "article_id"=>708475, "categories"=>["Biological Sciences"], "users"=>["Amandine Gasc", "Jérôme Sueur", "Sandrine Pavoine", "Roseli Pellens", "Philippe Grandcolas"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0065311.g005", "stats"=>{"downloads"=>0, "page_views"=>200, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Distance_based_ReDundancy_Analysis_dbRDA_/708475", "title"=>"Distance-based ReDundancy Analysis (dbRDA).", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-05-29 02:21:15"}
  • {"files"=>["https://ndownloader.figshare.com/files/1069775", "https://ndownloader.figshare.com/files/1069776", "https://ndownloader.figshare.com/files/1069777", "https://ndownloader.figshare.com/files/1069778", "https://ndownloader.figshare.com/files/1069779"], "description"=>"<div><p>New Caledonia is a Pacific island with a unique biodiversity showing an extreme microendemism. Many species distributions observed on this island are extremely restricted, localized to mountains or rivers making biodiversity evaluation and conservation a difficult task. A rapid biodiversity assessment method based on acoustics was recently proposed. This method could help to document the unique spatial structure observed in New Caledonia. Here, this method was applied in an attempt to reveal differences among three mountain sites (Mandjélia, Koghis and Aoupinié) with similar ecological features and species richness level, but with high beta diversity according to different microendemic assemblages. In each site, several local acoustic communities were sampled with audio recorders. An automatic acoustic sampling was run on these three sites for a period of 82 successive days. Acoustic properties of animal communities were analysed without any species identification. A frequency spectral complexity index (<i>NP</i>) was used as an estimate of the level of acoustic activity and a frequency spectral dissimilarity index (<i>D<sub>f</sub></i>) assessed acoustic differences between pairs of recordings. As expected, the index <i>NP</i> did not reveal significant differences in the acoustic activity level between the three sites. However, the acoustic variability estimated by the index <i>D<sub>f</sub></i>, could first be explained by changes in the acoustic communities along the 24-hour cycle and second by acoustic dissimilarities between the three sites. The results support the hypothesis that global acoustic analyses can detect acoustic differences between sites with similar species richness and similar ecological context, but with different species assemblages. This study also demonstrates that global acoustic methods applied at broad spatial and temporal scales could help to assess local biodiversity in the challenging context of microendemism. The method could be deployed over large areas, and could help to compare different sites and determine conservation priorities.</p></div>", "links"=>[], "tags"=>["ecology", "Community Ecology", "Community assembly", "Ecological metrics", "Species diversity", "biodiversity", "Bioindicators", "Conservation science", "Evolutionary ecology", "Systems ecology", "Zoology", "Animal behavior", "sampling", "acoustic", "contrasting", "sites", "microendemics"], "article_id"=>708477, "categories"=>["Biological Sciences"], "users"=>["Amandine Gasc", "Jérôme Sueur", "Sandrine Pavoine", "Roseli Pellens", "Philippe Grandcolas"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0065311.s001", "https://dx.doi.org/10.1371/journal.pone.0065311.s002", "https://dx.doi.org/10.1371/journal.pone.0065311.s003", "https://dx.doi.org/10.1371/journal.pone.0065311.s004", "https://dx.doi.org/10.1371/journal.pone.0065311.s005"], "stats"=>{"downloads"=>20, "page_views"=>9, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Biodiversity_Sampling_Using_a_Global_Acoustic_Approach_Contrasting_Sites_with_Microendemics_in_New_Caledonia_/708477", "title"=>"Biodiversity Sampling Using a Global Acoustic Approach: Contrasting Sites with Microendemics in New Caledonia", "pos_in_sequence"=>0, "defined_type"=>4, "published_date"=>"2013-05-29 02:21:17"}
  • {"files"=>["https://ndownloader.figshare.com/files/1069774"], "description"=>"<p>For each frequency, the value is the number of times that this frequency appeared as a peak among the mean spectra. The line is the difference measured between sites for each frequency.</p>", "links"=>[], "tags"=>["ecology", "Community Ecology", "Community assembly", "Ecological metrics", "Species diversity", "biodiversity", "Bioindicators", "Conservation science", "Evolutionary ecology", "Systems ecology", "Zoology", "Animal behavior"], "article_id"=>708476, "categories"=>["Biological Sciences"], "users"=>["Amandine Gasc", "Jérôme Sueur", "Sandrine Pavoine", "Roseli Pellens", "Philippe Grandcolas"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0065311.g006", "stats"=>{"downloads"=>7, "page_views"=>5, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Histogram_of_the_frequency_used_among_all_recordings_/708476", "title"=>"Histogram of the frequency used among all recordings.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-05-29 02:21:16"}
  • {"files"=>["https://ndownloader.figshare.com/files/1069771"], "description"=>"<p><b>A</b>: Eigenvalue bar plot. <b>B</b>: Results of PCoA applied to the acoustic dissimilarities among recordings with factor “Time” as a supplementary variable subsequently projected on the map. Projection along the axes 1 and 2. <b>C</b>: Results of PCoA applied to the acoustic dissimilarities among recordings with the spatial factor “Site” (A: Aoupinié, K: Koghis, M: Mandjélia). Projection along the axes 3 and 4. The dispersion ellipses surround the position of a time period (<a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0065311#pone-0065311-g004\" target=\"_blank\">Figure 4A</a>) or of a site (<a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0065311#pone-0065311-g004\" target=\"_blank\">Figure 4B</a>) providing an index of the dispersion around the time/site centroid (67% of recordings collected at a given time or at a site are expected to be in the associated ellipse).</p>", "links"=>[], "tags"=>["ecology", "Community Ecology", "Community assembly", "Ecological metrics", "Species diversity", "biodiversity", "Bioindicators", "Conservation science", "Evolutionary ecology", "Systems ecology", "Zoology", "Animal behavior", "acoustic", "dissimilarity"], "article_id"=>708473, "categories"=>["Biological Sciences"], "users"=>["Amandine Gasc", "Jérôme Sueur", "Sandrine Pavoine", "Roseli Pellens", "Philippe Grandcolas"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0065311.g004", "stats"=>{"downloads"=>2, "page_views"=>27, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Principal_Coordinate_Analysis_PCoA_on_the_acoustic_dissimilarity_matrix_/708473", "title"=>"Principal Coordinate Analysis (PCoA) on the acoustic dissimilarity matrix.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-05-29 02:21:13"}
  • {"files"=>["https://ndownloader.figshare.com/files/1069769"], "description"=>"<p>Evolution of the proportion of files of moderate to high, low or null activity along the 24-hour cycle, for the Mandjélia, Aoupinié and Koghis sites. The sum of file proportions along the 24-hour cycle is equal to 1.</p>", "links"=>[], "tags"=>["ecology", "Community Ecology", "Community assembly", "Ecological metrics", "Species diversity", "biodiversity", "Bioindicators", "Conservation science", "Evolutionary ecology", "Systems ecology", "Zoology", "Animal behavior"], "article_id"=>708471, "categories"=>["Biological Sciences"], "users"=>["Amandine Gasc", "Jérôme Sueur", "Sandrine Pavoine", "Roseli Pellens", "Philippe Grandcolas"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0065311.g002", "stats"=>{"downloads"=>0, "page_views"=>15, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Acoustic_activity_on_the_three_sites_/708471", "title"=>"Acoustic activity on the three sites.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-05-29 02:21:11"}
  • {"files"=>["https://ndownloader.figshare.com/files/1069770"], "description"=>"<p><b>A</b>: Boxplot of the number of frequency peaks measured on the mean spectrum of all recordings according to the activity level (Medium to High, Low or Null) assessed by ear (A.G.). <b>B</b>: Boxplot of the number of peaks measured on the mean spectrum of the recordings after noise reduction according to the sites. Similar letters above boxplots indicate no significant differences found by the Mann-Whitney test corrected with Holm correction.</p>", "links"=>[], "tags"=>["ecology", "Community Ecology", "Community assembly", "Ecological metrics", "Species diversity", "biodiversity", "Bioindicators", "Conservation science", "Evolutionary ecology", "Systems ecology", "Zoology", "Animal behavior"], "article_id"=>708472, "categories"=>["Biological Sciences"], "users"=>["Amandine Gasc", "Jérôme Sueur", "Sandrine Pavoine", "Roseli Pellens", "Philippe Grandcolas"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0065311.g003", "stats"=>{"downloads"=>2, "page_views"=>9, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Number_of_frequency_peaks_/708472", "title"=>"Number of frequency peaks.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-05-29 02:21:12"}
  • {"files"=>["https://ndownloader.figshare.com/files/1069768"], "description"=>"<p>Three audio recorders were settled, each at a similar altitude of 600 m a.s.l. and each separated by 200 m.</p>", "links"=>[], "tags"=>["ecology", "Community Ecology", "Community assembly", "Ecological metrics", "Species diversity", "biodiversity", "Bioindicators", "Conservation science", "Evolutionary ecology", "Systems ecology", "Zoology", "Animal behavior", "sites"], "article_id"=>708470, "categories"=>["Biological Sciences"], "users"=>["Amandine Gasc", "Jérôme Sueur", "Sandrine Pavoine", "Roseli Pellens", "Philippe Grandcolas"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0065311.g001", "stats"=>{"downloads"=>0, "page_views"=>10, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Sampled_sites_in_the_great_island_of_New_Caledonia_/708470", "title"=>"Sampled sites in the great island of New Caledonia.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-05-29 02:21:10"}

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Relative Metric

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