Community Shifts in the Surface Microbiomes of the Coral Porites astreoides with Unusual Lesions
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{"title"=>"Community shifts in the surface microbiomes of the coral Porites astreoides with unusual lesions", "type"=>"journal", "authors"=>[{"first_name"=>"Julie L.", "last_name"=>"Meyer", "scopus_author_id"=>"55875413900"}, {"first_name"=>"Valerie J.", "last_name"=>"Paul", "scopus_author_id"=>"7102371822"}, {"first_name"=>"Max", "last_name"=>"Teplitski", "scopus_author_id"=>"6602786180"}], "year"=>2014, "source"=>"PLoS ONE", "identifiers"=>{"scopus"=>"2-s2.0-84903288635", "sgr"=>"84903288635", "issn"=>"19326203", "doi"=>"10.1371/journal.pone.0100316", "pmid"=>"24937478", "pui"=>"373395951"}, "id"=>"42b314df-0e3f-37f0-aba7-76619590bad4", "abstract"=>"Apical lesions on Porites astreoides were characterized by the appearance of a thin yellow band, which was preceded by bleaching of the coral tissues and followed by a completely denuded coral skeleton, which often harbored secondary macroalgal colonizers. These characteristics have not been previously described in Porites and do not match common Caribbean coral diseases. The lesions were observed only in warmer months and at shallow depths on the fore reef in Belize. Analysis of the microbial community composition based on the V4 hypervariable region of 16S ribosomal RNA genes revealed that the surface microbiomes associated with nonsymptomatic corals were dominated by the members of the genus Endozoicomonas, consistent with other studies. Comparison of the microbiomes of nonsymptomatic and lesioned coral colonies sampled in July and September revealed two distinct groups, inconsistently related to the disease state of the coral, but showing some temporal signal. The loss of Endozoicomonas was characteristic of lesioned corals, which also harbored potential opportunistic pathogens such as Alternaria, Stenotrophomonas, and Achromobacter. The presence of lesions in P. astreoides coincided with a decrease in the relative abundance of Endozoicomonas, rather than the appearance of specific pathogenic taxa.", "link"=>"http://www.mendeley.com/research/community-shifts-surface-microbiomes-coral-porites-astreoides-unusual-lesions", "reader_count"=>78, "reader_count_by_academic_status"=>{"Professor > Associate Professor"=>5, "Researcher"=>22, "Student > Doctoral Student"=>5, "Student > Ph. D. Student"=>15, "Student > Postgraduate"=>5, "Student > Master"=>18, "Other"=>3, "Student > Bachelor"=>4, "Lecturer"=>1}, "reader_count_by_user_role"=>{"Professor > Associate Professor"=>5, "Researcher"=>22, "Student > Doctoral Student"=>5, "Student > Ph. D. Student"=>15, "Student > Postgraduate"=>5, "Student > Master"=>18, "Other"=>3, "Student > Bachelor"=>4, "Lecturer"=>1}, "reader_count_by_subject_area"=>{"Unspecified"=>3, "Environmental Science"=>15, "Biochemistry, Genetics and Molecular Biology"=>10, "Agricultural and Biological Sciences"=>45, "Veterinary Science and Veterinary Medicine"=>1, "Immunology and Microbiology"=>3, "Earth and Planetary Sciences"=>1}, "reader_count_by_subdiscipline"=>{"Immunology and Microbiology"=>{"Immunology and Microbiology"=>3}, "Earth and Planetary Sciences"=>{"Earth and Planetary Sciences"=>1}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>45}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>10}, "Unspecified"=>{"Unspecified"=>3}, "Environmental Science"=>{"Environmental Science"=>15}, "Veterinary Science and Veterinary Medicine"=>{"Veterinary Science and Veterinary Medicine"=>1}}, "reader_count_by_country"=>{"New Zealand"=>1, "Saudi Arabia"=>1, "Venezuela"=>1, "Belgium"=>1, "Australia"=>1, "Portugal"=>1}, "group_count"=>5}

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/1537784"], "description"=>"<p>Samples are grouped by disease state (lesioned, designated “PL” (highlighted in grey), or nonsymptomatic, designated “PN” (highlighted in green)) and by collection month. Samples with the suffix “S” were collected in July 2012, all other samples were collected in September 2012.</p>", "links"=>[], "tags"=>["ecology", "microbial ecology", "Marine biology", "corals", "microbiology", "marine and aquatic sciences", "Aquatic environments", "Marine environments"], "article_id"=>1059899, "categories"=>["Biological Sciences", "Ecology"], "users"=>["Julie L. Meyer", "Valerie J. Paul", "Max Teplitski"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0100316.g002", "stats"=>{"downloads"=>0, "page_views"=>2, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Bacterial_community_composition_in_Porites_astreoides_microbiomes_/1059899", "title"=>"Bacterial community composition in <i>Porites astreoides</i> microbiomes.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-06-17 03:08:49"}
  • {"files"=>["https://ndownloader.figshare.com/files/1537809"], "description"=>"<p>Significant correlations (p≤0.05) between OTUs (Operational Taxonomic Units) in <i>Porites astreoides</i> microbiomes, as determined by variance of log-ratios with 100 iterations. Node size is indicative of the relative abundance of the OTU in the entire dataset.</p>", "links"=>[], "tags"=>["ecology", "microbial ecology", "Marine biology", "corals", "microbiology", "marine and aquatic sciences", "Aquatic environments", "Marine environments", "correlations"], "article_id"=>1059913, "categories"=>["Biological Sciences", "Ecology"], "users"=>["Julie L. Meyer", "Valerie J. Paul", "Max Teplitski"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0100316.g004", "stats"=>{"downloads"=>0, "page_views"=>3, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Positive_and_negative_species_correlations_in_Porites_astreoides_microbiomes_/1059913", "title"=>"Positive and negative species correlations in <i>Porites astreoides</i> microbiomes.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-06-17 03:08:49"}
  • {"files"=>["https://ndownloader.figshare.com/files/1537818"], "description"=>"<p>Summary of sequencing results and OTU (Operational Taxonomic Unit) richness of <i>Porites astreoides</i> microbiomes. Sample names designated “PN” were collected from visually nonsymptomatic corals and those designated “PL” were collected from lesioned corals.</p>", "links"=>[], "tags"=>["ecology", "microbial ecology", "Marine biology", "corals", "microbiology", "marine and aquatic sciences", "Aquatic environments", "Marine environments", "sequencing", "otu", "taxonomic", "richness", "names", "designated", "visually", "nonsymptomatic", "lesioned"], "article_id"=>1059915, "categories"=>["Biological Sciences", "Ecology"], "users"=>["Julie L. Meyer", "Valerie J. Paul", "Max Teplitski"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0100316.t001", "stats"=>{"downloads"=>6, "page_views"=>10, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Summary_of_sequencing_results_and_OTU_Operational_Taxonomic_Unit_richness_of_Porites_astreoides_microbiomes_Sample_names_designated_PN_were_collected_from_visually_nonsymptomatic_corals_and_those_designated_PL_were_collected_from_lesioned_corals_/1059915", "title"=>"Summary of sequencing results and OTU (Operational Taxonomic Unit) richness of <i>Porites astreoides</i> microbiomes. Sample names designated “PN” were collected from visually nonsymptomatic corals and those designated “PL” were collected from lesioned corals.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2014-06-17 03:08:49"}
  • {"files"=>["https://ndownloader.figshare.com/files/1537782"], "description"=>"<p><i> P. astreoides</i> colonies were photographed in July (A, C, D) and November (B) of 2012. The same colony is shown in (A) and (B). (C) and (D) are close-up photographs of the lesion. Note yellow band (a hypothetical biofilm) at the boundary of the denuded coral skeleton and bleached coral tissue. Polyps ahead of the yellow band are bleached, but do not appear retracted. Photographs by Abby Wood.</p>", "links"=>[], "tags"=>["ecology", "microbial ecology", "Marine biology", "corals", "microbiology", "marine and aquatic sciences", "Aquatic environments", "Marine environments", "morphology", "lesions"], "article_id"=>1059897, "categories"=>["Biological Sciences", "Ecology"], "users"=>["Julie L. Meyer", "Valerie J. Paul", "Max Teplitski"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0100316.g001", "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Gross_morphology_of_lesions_on_Porites_astreoides_/1059897", "title"=>"Gross morphology of lesions on <i>Porites astreoides.</i>", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-06-17 03:08:49"}
  • {"files"=>["https://ndownloader.figshare.com/files/1537816"], "description"=>"<p>Summary of Simper analysis, showing the contribution of major genera (contributing ≥ 1%) to the dissimilarity between nonsymptomatic and lesioned coral microbiomes.</p>", "links"=>[], "tags"=>["ecology", "microbial ecology", "Marine biology", "corals", "microbiology", "marine and aquatic sciences", "Aquatic environments", "Marine environments", "simper", "genera", "dissimilarity", "nonsymptomatic", "lesioned", "coral"], "article_id"=>1059914, "categories"=>["Biological Sciences", "Ecology"], "users"=>["Julie L. Meyer", "Valerie J. Paul", "Max Teplitski"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0100316.t002", "stats"=>{"downloads"=>5, "page_views"=>21, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Summary_of_Simper_analysis_showing_the_contribution_of_major_genera_contributing_8805_1_to_the_dissimilarity_between_nonsymptomatic_and_lesioned_coral_microbiomes_/1059914", "title"=>"Summary of Simper analysis, showing the contribution of major genera (contributing ≥ 1%) to the dissimilarity between nonsymptomatic and lesioned coral microbiomes.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2014-06-17 03:08:49"}
  • {"files"=>["https://ndownloader.figshare.com/files/1537794"], "description"=>"<p>Panel A: UPGMA (Unweighted Pair Group Method with Arithmetic mean) clustering of <i>Porites</i> surface microbiomes based on the Morisita-Horn beta diversity of V4 region of 16S rRNA genes revealed two distinct clusters of samples (designated “Cluster 1” and “Cluster 2”). The scale bar represents the beta diversity distance. Samples collected from visibly lesioned corals are labeled with a black diamond and are designated “PL”; samples from nonsymptomatic corals are designated “PN”. Samples collected in July are designated with the suffix “S”, all other samples were collected in September. Panel B: Relative abundance of dominant genera (comprising ≥1% of reads in any individual microbiome) in each <i>Porites</i> microbiome based on16S rRNA gene Operational Taxonomic Units.</p>", "links"=>[], "tags"=>["ecology", "microbial ecology", "Marine biology", "corals", "microbiology", "marine and aquatic sciences", "Aquatic environments", "Marine environments", "microbiomes"], "article_id"=>1059905, "categories"=>["Biological Sciences", "Ecology"], "users"=>["Julie L. Meyer", "Valerie J. Paul", "Max Teplitski"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0100316.g003", "stats"=>{"downloads"=>0, "page_views"=>1, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Comparison_of_surface_microbiomes_of_Porites_astreoides_with_and_without_visible_lesions_/1059905", "title"=>"Comparison of surface microbiomes of <i>Porites astreoides</i> with and without visible lesions.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-06-17 03:08:49"}
  • {"files"=>["https://ndownloader.figshare.com/files/1537825", "https://ndownloader.figshare.com/files/1537826"], "description"=>"<div><p>Apical lesions on <i>Porites astreoides</i> were characterized by the appearance of a thin yellow band, which was preceded by bleaching of the coral tissues and followed by a completely denuded coral skeleton, which often harbored secondary macroalgal colonizers. These characteristics have not been previously described in <i>Porites</i> and do not match common Caribbean coral diseases. The lesions were observed only in warmer months and at shallow depths on the fore reef in Belize. Analysis of the microbial community composition based on the V4 hypervariable region of 16S ribosomal RNA genes revealed that the surface microbiomes associated with nonsymptomatic corals were dominated by the members of the genus <i>Endozoicomonas</i>, consistent with other studies. Comparison of the microbiomes of nonsymptomatic and lesioned coral colonies sampled in July and September revealed two distinct groups, inconsistently related to the disease state of the coral, but showing some temporal signal. The loss of <i>Endozoicomonas</i> was characteristic of lesioned corals, which also harbored potential opportunistic pathogens such as <i>Alternaria, Stenotrophomonas</i>, and <i>Achromobacter</i>. The presence of lesions in <i>P. astreoides</i> coincided with a decrease in the relative abundance of <i>Endozoicomonas</i>, rather than the appearance of specific pathogenic taxa.</p></div>", "links"=>[], "tags"=>["ecology", "microbial ecology", "Marine biology", "corals", "microbiology", "marine and aquatic sciences", "Aquatic environments", "Marine environments", "shifts", "microbiomes", "coral", "lesions"], "article_id"=>1059922, "categories"=>["Biological Sciences", "Ecology"], "users"=>["Julie L. Meyer", "Valerie J. Paul", "Max Teplitski"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0100316.s001", "https://dx.doi.org/10.1371/journal.pone.0100316.s002"], "stats"=>{"downloads"=>1, "page_views"=>8, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/Community_Shifts_in_the_Surface_Microbiomes_of_the_Coral_Porites_astreoides_with_Unusual_Lesions/1059922", "title"=>"Community Shifts in the Surface Microbiomes of the Coral <i>Porites astreoides</i> with Unusual Lesions", "pos_in_sequence"=>0, "defined_type"=>4, "published_date"=>"2014-06-17 03:08:49"}

PMC Usage Stats | Further Information

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