Genetic Divergence across Habitats in the Widespread Coral Seriatopora hystrix and Its Associated Symbiodinium
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{"title"=>"Genetic divergence across habitats in the widespread coral Seriatopora hystrixand its associated Symbiodinium", "type"=>"journal", "authors"=>[{"first_name"=>"Pim", "last_name"=>"Bongaerts", "scopus_author_id"=>"24491439600"}, {"first_name"=>"Cynthia", "last_name"=>"Riginos", "scopus_author_id"=>"6603230581"}, {"first_name"=>"Tyrone", "last_name"=>"Ridgway", "scopus_author_id"=>"7005936227"}, {"first_name"=>"Eugenia M.", "last_name"=>"Sampayo", "scopus_author_id"=>"21733445400"}, {"first_name"=>"Madeleine J.H.", "last_name"=>"van Oppen", "scopus_author_id"=>"7003490287"}, {"first_name"=>"Norbert", "last_name"=>"Englebert", "scopus_author_id"=>"24502687400"}, {"first_name"=>"Francisca", "last_name"=>"Vermeulen", "scopus_author_id"=>"36459199900"}, {"first_name"=>"Ove", "last_name"=>"Hoegh-Guldberg", "scopus_author_id"=>"26643606100"}], "year"=>2010, "source"=>"PLoS ONE", "identifiers"=>{"pmid"=>"20523735", "issn"=>"19326203", "sgr"=>"77956518397", "pui"=>"359515703", "scopus"=>"2-s2.0-77956518397", "isbn"=>"1932-6203", "doi"=>"10.1371/journal.pone.0010871"}, "id"=>"e586270f-3a6e-30f1-b09a-9661454be51a", "abstract"=>"BACKGROUND: Coral reefs are hotspots of biodiversity, yet processes of diversification in these ecosystems are poorly understood. The environmental heterogeneity of coral reef environments could be an important contributor to diversification, however, evidence supporting ecological speciation in corals is sparse. Here, we present data from a widespread coral species that reveals a strong association of host and symbiont lineages with specific habitats, consistent with distinct, sympatric gene pools that are maintained through ecologically-based selection. METHODOLOGY/PRINCIPAL FINDINGS: Populations of a common brooding coral, Seriatopora hystrix, were sampled from three adjacent reef habitats (spanning a approximately 30 m depth range) at three locations on the Great Barrier Reef (n = 336). The populations were assessed for genetic structure using a combination of mitochondrial (putative control region) and nuclear (three microsatellites) markers for the coral host, and the ITS2 region of the ribosomal DNA for the algal symbionts (Symbiodinium). Our results show concordant genetic partitioning of both the coral host and its symbionts across the different habitats, independent of sampling location. CONCLUSIONS/SIGNIFICANCE: This study demonstrates that coral populations and their associated symbionts can be highly structured across habitats on a single reef. Coral populations from adjacent habitats were found to be genetically isolated from each other, whereas genetic similarity was maintained across similar habitat types at different locations. The most parsimonious explanation for the observed genetic partitioning across habitats is that adaptation to the local environment has caused ecological divergence of distinct genetic groups within S. hystrix.", "link"=>"http://www.mendeley.com/research/genetic-divergence-across-habitats-widespread-coral-seriatopora-hystrixand-associated-symbiodinium", "reader_count"=>225, "reader_count_by_academic_status"=>{"Unspecified"=>5, "Professor > Associate Professor"=>3, "Librarian"=>1, "Student > Doctoral Student"=>15, "Researcher"=>52, "Student > Ph. D. Student"=>68, "Student > Postgraduate"=>4, "Student > Master"=>37, "Other"=>6, "Student > Bachelor"=>21, "Lecturer"=>1, "Lecturer > Senior Lecturer"=>2, "Professor"=>10}, "reader_count_by_user_role"=>{"Unspecified"=>5, "Professor > Associate Professor"=>3, "Librarian"=>1, "Student > Doctoral Student"=>15, "Researcher"=>52, "Student > Ph. D. Student"=>68, "Student > Postgraduate"=>4, "Student > Master"=>37, "Other"=>6, "Student > Bachelor"=>21, "Lecturer"=>1, "Lecturer > Senior Lecturer"=>2, "Professor"=>10}, "reader_count_by_subject_area"=>{"Unspecified"=>13, "Environmental Science"=>28, "Biochemistry, Genetics and Molecular Biology"=>12, "Mathematics"=>1, "Agricultural and Biological Sciences"=>160, "Medicine and Dentistry"=>2, "Chemistry"=>1, "Earth and Planetary Sciences"=>7, "Economics, Econometrics and Finance"=>1}, "reader_count_by_subdiscipline"=>{"Medicine and Dentistry"=>{"Medicine and Dentistry"=>2}, "Chemistry"=>{"Chemistry"=>1}, "Earth and Planetary Sciences"=>{"Earth and Planetary Sciences"=>7}, "Economics, Econometrics and Finance"=>{"Economics, Econometrics and Finance"=>1}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>160}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>12}, "Mathematics"=>{"Mathematics"=>1}, "Unspecified"=>{"Unspecified"=>13}, "Environmental Science"=>{"Environmental Science"=>28}}, "reader_count_by_country"=>{"Republic of Singapore"=>1, "United States"=>8, "Japan"=>3, "Malaysia"=>3, "Kenya"=>1, "Portugal"=>2, "New Caledonia"=>1, "New Zealand"=>2, "Brazil"=>1, "South Africa"=>2, "Mexico"=>1, "Australia"=>1, "France"=>1, "Germany"=>1}, "group_count"=>6}

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Figshare

  • {"files"=>["https://s3-eu-west-1.amazonaws.com/pstorage-plos-3567654/421671/Figure_S1.tif", "https://s3-eu-west-1.amazonaws.com/pstorage-plos-3567654/421682/Table_S1.doc", "https://s3-eu-west-1.amazonaws.com/pstorage-plos-3567654/421690/Table_S2.doc"], "description"=>"<div><h3>Background</h3><p>Coral reefs are hotspots of biodiversity, yet processes of diversification in these ecosystems are poorly understood. The environmental heterogeneity of coral reef environments could be an important contributor to diversification, however, evidence supporting ecological speciation in corals is sparse. Here, we present data from a widespread coral species that reveals a strong association of host and symbiont lineages with specific habitats, consistent with distinct, sympatric gene pools that are maintained through ecologically-based selection.</p><h3>Methodology/Principal Findings</h3><p>Populations of a common brooding coral, <em>Seriatopora hystrix</em>, were sampled from three adjacent reef habitats (spanning a ∼30 m depth range) at three locations on the Great Barrier Reef (n = 336). The populations were assessed for genetic structure using a combination of mitochondrial (putative control region) and nuclear (three microsatellites) markers for the coral host, and the ITS2 region of the ribosomal DNA for the algal symbionts (<em>Symbiodinium</em>). Our results show concordant genetic partitioning of both the coral host and its symbionts across the different habitats, independent of sampling location.</p><h3>Conclusions/Significance</h3><p>This study demonstrates that coral populations and their associated symbionts can be highly structured across habitats on a single reef. Coral populations from adjacent habitats were found to be genetically isolated from each other, whereas genetic similarity was maintained across similar habitat types at different locations. The most parsimonious explanation for the observed genetic partitioning across habitats is that adaptation to the local environment has caused ecological divergence of distinct genetic groups within <em>S. hystrix</em>.</p></div>", "links"=>[], "tags"=>["divergence", "habitats", "coral"], "article_id"=>143284, "categories"=>["Ecology", "Genetics", "Marine Biology"], "users"=>["Pim Bongaerts", "Cynthia Riginos", "Tyrone Ridgway", "Eugenia M. Sampayo", "Madeleine J. H. van Oppen", "Norbert Englebert", "Francisca Vermeulen", "Ove Hoegh-Guldberg"], "doi"=>["http://dx.doi.org/10.1371/journal.pone.0010871"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"http://figshare.com/articles/Genetic_Divergence_across_Habitats_in_the_Widespread_Coral_Seriatopora_hystrix_and_Its_Associated_Symbiodinium_/143284", "title"=>"Genetic Divergence across Habitats in the Widespread Coral <em>Seriatopora hystrix</em> and Its Associated <em>Symbiodinium</em>", "pos_in_sequence"=>0, "defined_type"=>4, "published_date"=>"2010-05-27 00:54:44"}
  • {"files"=>["https://s3-eu-west-1.amazonaws.com/pstorage-plos-3567654/847520/Figure_1.tif"], "description"=>"<p>(A) Map showing the geographic location of the study area on the northern Great Barrier Reef; (B) the reef locations within the study area; and (C) the different habitats sampled.</p>", "links"=>[], "tags"=>["ecology/evolutionary ecology", "ecology/marine and freshwater ecology", "genetics and genomics/population genetics", "marine and aquatic sciences/genetics, genomics, and barcoding"], "article_id"=>517970, "categories"=>["Ecology", "Genetics", "Marine Biology"], "users"=>["Pim Bongaerts", "Cynthia Riginos", "Tyrone Ridgway", "Eugenia M. Sampayo", "Madeleine J. H. van Oppen", "Norbert Englebert", "Francisca Vermeulen", "Ove Hoegh-Guldberg"], "doi"=>["http://dx.doi.org/10.1371/journal.pone.0010871.g001"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"http://figshare.com/articles/_Sample_design_and_locations_/517970", "title"=>"Sample design and locations.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2010-05-27 02:12:50"}
  • {"files"=>["https://s3-eu-west-1.amazonaws.com/pstorage-plos-3567654/847627/Figure_2.tif"], "description"=>"<p>Symbols refer to individual coral colonies, with the symbol shape indicating host genotype and symbol color indicating symbiont genotype. Shaded boxes group the different habitats at a reef locality.</p>", "links"=>[], "tags"=>["genotypes", "symbiont", "lineages", "habitats"], "article_id"=>518067, "categories"=>["Ecology", "Genetics", "Marine Biology"], "users"=>["Pim Bongaerts", "Cynthia Riginos", "Tyrone Ridgway", "Eugenia M. Sampayo", "Madeleine J. H. van Oppen", "Norbert Englebert", "Francisca Vermeulen", "Ove Hoegh-Guldberg"], "doi"=>["http://dx.doi.org/10.1371/journal.pone.0010871.g002"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"http://figshare.com/articles/_Diversity_and_distribution_of_host_genotypes_mtDNA_and_symbiont_lineages_ITS2_across_the_three_habitats_and_locations_/518067", "title"=>"Diversity and distribution of host genotypes (mtDNA) and symbiont lineages (ITS2) across the three habitats and locations.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2010-05-27 02:14:27"}
  • {"files"=>["https://s3-eu-west-1.amazonaws.com/pstorage-plos-3567654/847770/Figure_3.tif"], "description"=>"<p>(A) Phylogenetic tree (maximum likelihood) of <i>S. hystrix</i> mitochondrial haplotypes, with <i>Seriatopora caliendrum</i> and <i>Pocillopora damicorni</i>s as outgroups. Bootstrap values (in italics) are based on Bayesian analyses and ML respectively, with only probabilities over 50% shown. The shaded box groups the various <i>S. hystrix</i> haplotypes observed in this study. The ‘HostU’ and ‘HostD1’ haplotypes match with previously obtained Genbank sequences. (B) Unrooted phylogenetic tree (maximum parsimony) of the five distinct <i>Symbiodinium</i> types. Colors group ITS2 sequences belonging to a single <i>Symbiodinium</i> type (for example <i>Symbiodinium</i> type C120 contains only the ITS2 sequence C120 while <i>Symbiodnium</i> C120a contains both the C120 and C120a sequence within its genome). Bootstrap values higher than 50% are shown in italics.</p>", "links"=>[], "tags"=>["trees"], "article_id"=>518214, "categories"=>["Ecology", "Genetics", "Marine Biology"], "users"=>["Pim Bongaerts", "Cynthia Riginos", "Tyrone Ridgway", "Eugenia M. Sampayo", "Madeleine J. H. van Oppen", "Norbert Englebert", "Francisca Vermeulen", "Ove Hoegh-Guldberg"], "doi"=>["http://dx.doi.org/10.1371/journal.pone.0010871.g003"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"http://figshare.com/articles/_Phylogenetic_trees_of_Seriatopora_hystrix_and_associated_Symbiodinium_lineages_/518214", "title"=>"Phylogenetic trees of <i>Seriatopora hystrix</i> and associated <i>Symbiodinium</i> lineages.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2010-05-27 02:16:54"}
  • {"files"=>["https://s3-eu-west-1.amazonaws.com/pstorage-plos-3567654/847884/Figure_4.tif"], "description"=>"<p>Analyses were run with no <i>a priori</i> information assumed on sample origin. The probability of assigning each individual coral (on the x-axes) to one of the four clusters (represented by the four colors) is shown on the y-axes. The different clusters correspond largely with the mtDNA haplotypes: ‘HostB’ (blue cluster), ‘HostU’ (yellow cluster), ‘HostD1’ (dark-green cluster) and ‘HostD2’/’HostD3’ (light-green cluster).</p>", "links"=>[], "tags"=>["populations", "inferred", "microsatellite", "loci"], "article_id"=>518321, "categories"=>["Ecology", "Genetics", "Marine Biology"], "users"=>["Pim Bongaerts", "Cynthia Riginos", "Tyrone Ridgway", "Eugenia M. Sampayo", "Madeleine J. H. van Oppen", "Norbert Englebert", "Francisca Vermeulen", "Ove Hoegh-Guldberg"], "doi"=>["http://dx.doi.org/10.1371/journal.pone.0010871.g004"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"http://figshare.com/articles/_Subdivision_of_Seriatopora_hystrix_populations_as_inferred_by_microsatellite_loci_using_STRUCTURE_K_4_/518321", "title"=>"Subdivision of <i>Seriatopora hystrix</i> populations as inferred by microsatellite loci using STRUCTURE (K = 4).", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2010-05-27 02:18:41"}
  • {"files"=>["https://s3-eu-west-1.amazonaws.com/pstorage-plos-3567654/847991/Table_1.xls"], "description"=>"<p>Comparisons were calculated between three different habitats (‘<i>Back Reef</i>’, ‘<i>Upper Slope</i>’, ‘<i>Deep Slope</i>’) at two locations on the northern GBR (Day Reef, Yonge Reef). The last population consists of the individuals from the ‘<i>Deep Slope</i>’ habitat at Yonge Reef with a ‘HostD2’ mtDNA genotype. Values in bold indicate pairwise values between the same habitats at different locations.</p>NS<p> = Not significant,</p><p>*p = 0.001 and</p><p>**p<0.001.</p>", "links"=>[], "tags"=>["estimates", "microsatellite", "loci", "coral"], "article_id"=>518435, "categories"=>["Ecology", "Genetics", "Marine Biology"], "users"=>["Pim Bongaerts", "Cynthia Riginos", "Tyrone Ridgway", "Eugenia M. Sampayo", "Madeleine J. H. van Oppen", "Norbert Englebert", "Francisca Vermeulen", "Ove Hoegh-Guldberg"], "doi"=>["http://dx.doi.org/10.1371/journal.pone.0010871.t001"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"http://figshare.com/articles/_Pairwise_estimates_of_F_st_values_from_three_microsatellite_loci_for_the_coral_Seriatopora_hystrix_/518435", "title"=>"Pairwise estimates of F<sub>st</sub> values from three microsatellite loci for the coral <i>Seriatopora hystrix</i>.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2010-05-27 02:20:35"}

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