Genetic Structure of Wild Bonobo Populations: Diversity of Mitochondrial DNA and Geographical Distribution
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{"title"=>"Genetic Structure of Wild Bonobo Populations: Diversity of Mitochondrial DNA and Geographical Distribution", "type"=>"journal", "authors"=>[{"first_name"=>"Yoshi", "last_name"=>"Kawamoto", "scopus_author_id"=>"7102260723"}, {"first_name"=>"Hiroyuki", "last_name"=>"Takemoto", "scopus_author_id"=>"56913038800"}, {"first_name"=>"Shoko", "last_name"=>"Higuchi", "scopus_author_id"=>"55631862700"}, {"first_name"=>"Tetsuya", "last_name"=>"Sakamaki", "scopus_author_id"=>"7005972358"}, {"first_name"=>"John A.", "last_name"=>"Hart", "scopus_author_id"=>"55319293600"}, {"first_name"=>"Terese B.", "last_name"=>"Hart", "scopus_author_id"=>"7102730172"}, {"first_name"=>"Nahoko", "last_name"=>"Tokuyama", "scopus_author_id"=>"55014235500"}, {"first_name"=>"Gay E.", "last_name"=>"Reinartz", "scopus_author_id"=>"14013882400"}, {"first_name"=>"Patrick", "last_name"=>"Guislain", "scopus_author_id"=>"11940568100"}, {"first_name"=>"Jef", "last_name"=>"Dupain", "scopus_author_id"=>"7801473618"}, {"first_name"=>"Amy K.", "last_name"=>"Cobden", "scopus_author_id"=>"26638619400"}, {"first_name"=>"Mbangi N.", "last_name"=>"Mulavwa", "scopus_author_id"=>"16477844800"}, {"first_name"=>"Kumugo", "last_name"=>"Yangozene", "scopus_author_id"=>"36057521500"}, {"first_name"=>"Serge", "last_name"=>"Darroze", "scopus_author_id"=>"55633161300"}, {"first_name"=>"Céline", "last_name"=>"Devos", "scopus_author_id"=>"23088518200"}, {"first_name"=>"Takeshi", "last_name"=>"Furuichi", "scopus_author_id"=>"7005260285"}], "year"=>2013, "source"=>"PLoS ONE", "identifiers"=>{"pmid"=>"23544084", "sgr"=>"84875419317", "doi"=>"10.1371/journal.pone.0059660", "scopus"=>"2-s2.0-84875419317", "pui"=>"368602296", "isbn"=>"1932-6203", "issn"=>"19326203"}, "id"=>"6c53f830-1c1f-392b-9635-e82198c0908e", "abstract"=>"Bonobos (Pan paniscus) inhabit regions south of the Congo River including all areas between its southerly tributaries. To investigate the genetic diversity and evolutionary relationship among bonobo populations, we sequenced mitochondrial DNA from 376 fecal samples collected in seven study populations located within the eastern and western limits of the species' range. In 136 effective samples from different individuals (range: 7-37 per population), we distinguished 54 haplotypes in six clades (A1, A2, B1, B2, C, D), which included a newly identified clade (D). MtDNA haplotypes were regionally clustered; 83 percent of haplotypes were locality-specific. The distribution of haplotypes across populations and the genetic diversity within populations thus showed highly geographical patterns. Using population distance measures, seven populations were categorized in three clusters: the east, central, and west cohorts. Although further elucidation of historical changes in the geological setting is required, the geographical patterns of genetic diversity seem to be shaped by paleoenvironmental changes during the Pleistocene. The present day riverine barriers appeared to have a weak effect on gene flow among populations, except for the Lomami River, which separates the TL2 population from the others. The central cohort preserves a high genetic diversity, and two unique clades of haplotypes were found in the Wamba/Iyondji populations in the central cohort and in the TL2 population in the eastern cohort respectively. This knowledge may contribute to the planning of bonobo conservation.", "link"=>"http://www.mendeley.com/research/genetic-structure-wild-bonobo-populations-diversity-mitochondrial-dna-geographical-distribution", "reader_count"=>71, "reader_count_by_academic_status"=>{"Professor > Associate Professor"=>1, "Researcher"=>20, "Student > Doctoral Student"=>4, "Student > Ph. D. Student"=>19, "Student > Postgraduate"=>1, "Student > Master"=>12, "Other"=>3, "Student > Bachelor"=>7, "Lecturer > Senior Lecturer"=>1, "Professor"=>2, "Unspecified"=>1}, "reader_count_by_user_role"=>{"Professor > Associate Professor"=>1, "Researcher"=>20, "Student > Doctoral Student"=>4, "Student > Ph. D. Student"=>19, "Student > Postgraduate"=>1, "Student > Master"=>12, "Other"=>3, "Student > Bachelor"=>7, "Lecturer > Senior Lecturer"=>1, "Professor"=>2, "Unspecified"=>1}, "reader_count_by_subject_area"=>{"Environmental Science"=>4, "Biochemistry, Genetics and Molecular Biology"=>8, "Agricultural and Biological Sciences"=>52, "Arts and Humanities"=>1, "Physics and Astronomy"=>1, "Psychology"=>1, "Social Sciences"=>3, "Unspecified"=>1}, "reader_count_by_subdiscipline"=>{"Social Sciences"=>{"Social Sciences"=>3}, "Physics and Astronomy"=>{"Physics and Astronomy"=>1}, "Psychology"=>{"Psychology"=>1}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>52}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>8}, "Environmental Science"=>{"Environmental Science"=>4}, "Unspecified"=>{"Unspecified"=>1}, "Arts and Humanities"=>{"Arts and Humanities"=>1}}, "reader_count_by_country"=>{"United Kingdom"=>1, "France"=>1, "Kenya"=>1, "Germany"=>2}, "group_count"=>3}

Scopus | Further Information

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/1008449"], "description"=>"*<p>p<0.05, **p<0.01.</p>", "links"=>[], "tags"=>["geographical"], "article_id"=>669065, "categories"=>["Genetics", "Evolutionary Biology"], "users"=>["Yoshi Kawamoto", "Hiroyuki Takemoto", "Shoko Higuchi", "Tetsuya Sakamaki", "John A. Hart", "Terese B. Hart", "Nahoko Tokuyama", "Gay E. Reinartz", "Patrick Guislain", "Jef Dupain", "Amy K. Cobden", "Mbangi N. Mulavwa", "Kumugo Yangozene", "Serge Darroze", "Céline Devos", "Takeshi Furuichi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0059660.t003", "stats"=>{"downloads"=>1, "page_views"=>7, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Correlation_between_genetic_distance_F_ST_and_geographical_distance_from_a_specific_area_to_other_areas_/669065", "title"=>"Correlation between genetic distance (F<sub>ST</sub>) and geographical distance from a specific area to other areas.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2013-03-27 02:31:05"}
  • {"files"=>["https://ndownloader.figshare.com/files/999270"], "description"=>"<p>Right map shows geographical location of study populations in DRC. Rivers indicated here are based on limnological study <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0059660#pone.0059660-Stankiewicz1\" target=\"_blank\">[42]</a>. Left is a population tree constructed by UPGMA method with net population distances estimated from calculation of F<sub>ST</sub> distances.</p>", "links"=>[], "tags"=>["genetics and genomics", "Evolutionary biology"], "article_id"=>661266, "categories"=>["Genetics", "Evolutionary Biology"], "users"=>["Yoshi Kawamoto", "Hiroyuki Takemoto", "Shoko Higuchi", "Tetsuya Sakamaki", "John A. Hart", "Terese B. Hart", "Nahoko Tokuyama", "Gay E. Reinartz", "Patrick Guislain", "Jef Dupain", "Amy K. Cobden", "Mbangi N. Mulavwa", "Kumugo Yangozene", "Serge Darroze", "Céline Devos", "Takeshi Furuichi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0059660.g001", "stats"=>{"downloads"=>0, "page_views"=>5, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Study_area_and_a_population_tree_/661266", "title"=>"Study area and a population tree.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-03-28 08:48:38"}
  • {"files"=>["https://ndownloader.figshare.com/files/1008476"], "description"=>"<p>Genetic diversity of mtDNA haplotypes within seven populations of bonobos in DRC.</p>", "links"=>[], "tags"=>["mtdna", "haplotypes", "populations", "bonobos"], "article_id"=>669091, "categories"=>["Genetics", "Evolutionary Biology"], "users"=>["Yoshi Kawamoto", "Hiroyuki Takemoto", "Shoko Higuchi", "Tetsuya Sakamaki", "John A. Hart", "Terese B. Hart", "Nahoko Tokuyama", "Gay E. Reinartz", "Patrick Guislain", "Jef Dupain", "Amy K. Cobden", "Mbangi N. Mulavwa", "Kumugo Yangozene", "Serge Darroze", "Céline Devos", "Takeshi Furuichi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0059660.t001", "stats"=>{"downloads"=>0, "page_views"=>12, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Genetic_diversity_of_mtDNA_haplotypes_within_seven_populations_of_bonobos_in_DRC_/669091", "title"=>"Genetic diversity of mtDNA haplotypes within seven populations of bonobos in DRC.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2013-03-27 02:31:31"}
  • {"files"=>["https://ndownloader.figshare.com/files/999271"], "description"=>"<p>Left is a tree constructed by neighbor-joining (NJ) method. Three numbers on a tree path indicate percent bootstrap values (1,000 replications) obtained from statistical assessments by neighbor-joining (NJ), maximum likelihood (ML) and maximum parsimony (MP) algorithms in order. Branches corresponding to partitions reproduced in less than 70% bootstrap replicates were collapsed. Each of black bars aside the tree shows a mtDNA clade inferred from the cluster analyses. Right score illustration summarized distribution of mtDNA haplotypes in study populations. Numbers with closed, open circles and without circle mean the observed number of male, female and sex-unknown samples, respectively, for each study population with different color.</p>", "links"=>[], "tags"=>["phylogeny", "haplotypes"], "article_id"=>661268, "categories"=>["Genetics", "Evolutionary Biology"], "users"=>["Yoshi Kawamoto", "Hiroyuki Takemoto", "Shoko Higuchi", "Tetsuya Sakamaki", "John A. Hart", "Terese B. Hart", "Nahoko Tokuyama", "Gay E. Reinartz", "Patrick Guislain", "Jef Dupain", "Amy K. Cobden", "Mbangi N. Mulavwa", "Kumugo Yangozene", "Serge Darroze", "Céline Devos", "Takeshi Furuichi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0059660.g002", "stats"=>{"downloads"=>1, "page_views"=>3, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Molecular_phylogeny_of_haplotypes_and_their_distribution_in_study_populations_/661268", "title"=>"Molecular phylogeny of haplotypes and their distribution in study populations.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-03-28 08:49:01"}
  • {"files"=>["https://ndownloader.figshare.com/files/1008423"], "description"=>"<p>Comparison of geographical structure of populations by assessments with AMOVA.</p>", "links"=>[], "tags"=>["geographical", "populations", "assessments"], "article_id"=>669041, "categories"=>["Genetics", "Evolutionary Biology"], "users"=>["Yoshi Kawamoto", "Hiroyuki Takemoto", "Shoko Higuchi", "Tetsuya Sakamaki", "John A. Hart", "Terese B. Hart", "Nahoko Tokuyama", "Gay E. Reinartz", "Patrick Guislain", "Jef Dupain", "Amy K. Cobden", "Mbangi N. Mulavwa", "Kumugo Yangozene", "Serge Darroze", "Céline Devos", "Takeshi Furuichi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0059660.t002", "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Comparison_of_geographical_structure_of_populations_by_assessments_with_AMOVA_/669041", "title"=>"Comparison of geographical structure of populations by assessments with AMOVA.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2013-03-27 02:30:41"}
  • {"files"=>["https://ndownloader.figshare.com/files/999281", "https://ndownloader.figshare.com/files/999284", "https://ndownloader.figshare.com/files/999285"], "description"=>"<div><p>Bonobos (<i>Pan paniscus</i>) inhabit regions south of the Congo River including all areas between its southerly tributaries. To investigate the genetic diversity and evolutionary relationship among bonobo populations, we sequenced mitochondrial DNA from 376 fecal samples collected in seven study populations located within the eastern and western limits of the species’ range. In 136 effective samples from different individuals (range: 7–37 per population), we distinguished 54 haplotypes in six clades (A1, A2, B1, B2, C, D), which included a newly identified clade (D). MtDNA haplotypes were regionally clustered; 83 percent of haplotypes were locality-specific. The distribution of haplotypes across populations and the genetic diversity within populations thus showed highly geographical patterns. Using population distance measures, seven populations were categorized in three clusters: the east, central, and west cohorts. Although further elucidation of historical changes in the geological setting is required, the geographical patterns of genetic diversity seem to be shaped by paleoenvironmental changes during the Pleistocene. The present day riverine barriers appeared to have a weak effect on gene flow among populations, except for the Lomami River, which separates the TL2 population from the others. The central cohort preserves a high genetic diversity, and two unique clades of haplotypes were found in the Wamba/Iyondji populations in the central cohort and in the TL2 population in the eastern cohort respectively. This knowledge may contribute to the planning of bonobo conservation.</p> </div>", "links"=>[], "tags"=>["bonobo", "mitochondrial", "dna", "geographical"], "article_id"=>661273, "categories"=>["Genetics", "Evolutionary Biology"], "users"=>["Yoshi Kawamoto", "Hiroyuki Takemoto", "Shoko Higuchi", "Tetsuya Sakamaki", "John A. Hart", "Terese B. Hart", "Nahoko Tokuyama", "Gay E. Reinartz", "Patrick Guislain", "Jef Dupain", "Amy K. Cobden", "Mbangi N. Mulavwa", "Kumugo Yangozene", "Serge Darroze", "Céline Devos", "Takeshi Furuichi"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0059660.s001", "https://dx.doi.org/10.1371/journal.pone.0059660.s002", "https://dx.doi.org/10.1371/journal.pone.0059660.s003"], "stats"=>{"downloads"=>3, "page_views"=>19, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Genetic_Structure_of_Wild_Bonobo_Populations_Diversity_of_Mitochondrial_DNA_and_Geographical_Distribution_/661273", "title"=>"Genetic Structure of Wild Bonobo Populations: Diversity of Mitochondrial DNA and Geographical Distribution", "pos_in_sequence"=>0, "defined_type"=>4, "published_date"=>"2013-03-28 08:50:01"}
  • {"files"=>["https://ndownloader.figshare.com/files/1008368"], "description"=>"<p>F<sub>ST</sub> was used as a response variable and Gaussian (identity) was used as a family (link function). Signs in parenthesis mean direction to increase F<sub>ST</sub>.</p>", "links"=>[], "tags"=>["aic", "glm"], "article_id"=>668983, "categories"=>["Genetics", "Evolutionary Biology"], "users"=>["Yoshi Kawamoto", "Hiroyuki Takemoto", "Shoko Higuchi", "Tetsuya Sakamaki", "John A. Hart", "Terese B. Hart", "Nahoko Tokuyama", "Gay E. Reinartz", "Patrick Guislain", "Jef Dupain", "Amy K. Cobden", "Mbangi N. Mulavwa", "Kumugo Yangozene", "Serge Darroze", "Céline Devos", "Takeshi Furuichi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0059660.t004", "stats"=>{"downloads"=>5, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Calculations_of_AIC_using_GLM_for_single_factor_models_/668983", "title"=>"Calculations of AIC using GLM for single factor models.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2013-03-27 02:29:43"}
  • {"files"=>["https://ndownloader.figshare.com/files/999273"], "description"=>"<p>Each pair of seven populations, in all 21 pairs, is dotted as a different symbol according to combination of cohorts. (a) Geographical distance between two populations was measured as a straight line. (b) Geographical distance was measured by detouring headwater of big tributaries or lakes. (c) Number of tributaries on the straight-line between two populations. *p<0.05, ***p<0.001.</p>", "links"=>[], "tags"=>["geographical"], "article_id"=>661270, "categories"=>["Genetics", "Evolutionary Biology"], "users"=>["Yoshi Kawamoto", "Hiroyuki Takemoto", "Shoko Higuchi", "Tetsuya Sakamaki", "John A. Hart", "Terese B. Hart", "Nahoko Tokuyama", "Gay E. Reinartz", "Patrick Guislain", "Jef Dupain", "Amy K. Cobden", "Mbangi N. Mulavwa", "Kumugo Yangozene", "Serge Darroze", "Céline Devos", "Takeshi Furuichi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0059660.g003", "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Relation_between_genetic_distance_F_ST_and_geographical_indices_/661270", "title"=>"Relation between genetic distance (F<sub>ST</sub>) and geographical indices.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-03-28 08:49:31"}
  • {"files"=>["https://ndownloader.figshare.com/files/1008399"], "description"=>"<p>F<sub>ST</sub> was used as a response variable and Gaussian (identity) was used as a family (link function). Signs in parenthesis mean direction to increase F<sub>ST.</sub></p>", "links"=>[], "tags"=>["aic", "glm", "two-factor"], "article_id"=>669010, "categories"=>["Genetics", "Evolutionary Biology"], "users"=>["Yoshi Kawamoto", "Hiroyuki Takemoto", "Shoko Higuchi", "Tetsuya Sakamaki", "John A. Hart", "Terese B. Hart", "Nahoko Tokuyama", "Gay E. Reinartz", "Patrick Guislain", "Jef Dupain", "Amy K. Cobden", "Mbangi N. Mulavwa", "Kumugo Yangozene", "Serge Darroze", "Céline Devos", "Takeshi Furuichi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0059660.t005", "stats"=>{"downloads"=>0, "page_views"=>1, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Calculations_of_AIC_using_GLM_for_two_factor_models_/669010", "title"=>"Calculations of AIC using GLM for two-factor models.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2013-03-27 02:30:10"}

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Relative Metric

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