A genomic glance through the fog of plasticity and diversification in Pocillopora

Abstract Scleractinian corals of the genus Pocillopora (Lamarck, 1816) are notoriously difficult to identify morphologically with considerable debate on the degree to which phenotypic plasticity, introgressive hybridization and incomplete lineage sorting obscure well-defined taxonomic lineages. Here...

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Autores principales:	Erika C. Johnston, Zac H. Forsman, Jean-François Flot, Sebastian Schmidt-Roach, Jorge H. Pinzón, Ingrid S. S. Knapp, Robert J. Toonen
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2017
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/56f4b46cfe67498e9bafe0ef0453b428
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spelling	oai:doaj.org-article:56f4b46cfe67498e9bafe0ef0453b4282021-12-02T12:32:27ZA genomic glance through the fog of plasticity and diversification in Pocillopora10.1038/s41598-017-06085-32045-2322https://doaj.org/article/56f4b46cfe67498e9bafe0ef0453b4282017-07-01T00:00:00Zhttps://doi.org/10.1038/s41598-017-06085-3https://doaj.org/toc/2045-2322Abstract Scleractinian corals of the genus Pocillopora (Lamarck, 1816) are notoriously difficult to identify morphologically with considerable debate on the degree to which phenotypic plasticity, introgressive hybridization and incomplete lineage sorting obscure well-defined taxonomic lineages. Here, we used RAD-seq to resolve the phylogenetic relationships among seven species of Pocillopora represented by 15 coral holobiont metagenomic libraries. We found strong concordance between the coral holobiont datasets, reads that mapped to the Pocillopora damicornis (Linnaeus, 1758) transcriptome, nearly complete mitochondrial genomes, 430 unlinked high-quality SNPs shared across all Pocillopora taxa, and a conspecificity matrix of the holobiont dataset. These datasets also show strong concordance with previously published clustering of the mitochondrial clades based on the mtDNA open reading frame (ORF). We resolve seven clear monophyletic groups, with no evidence for introgressive hybridization among any but the most recently derived sister species. In contrast, ribosomal and histone datasets, which are most commonly used in coral phylogenies to date, were less informative and contradictory to these other datasets. These data indicate that extant Pocillopora species diversified from a common ancestral lineage within the last ~3 million years. Key to this evolutionary success story may be the high phenotypic plasticity exhibited by Pocillopora species.Erika C. JohnstonZac H. ForsmanJean-François FlotSebastian Schmidt-RoachJorge H. PinzónIngrid S. S. KnappRobert J. ToonenNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 7, Iss 1, Pp 1-11 (2017)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Erika C. Johnston Zac H. Forsman Jean-François Flot Sebastian Schmidt-Roach Jorge H. Pinzón Ingrid S. S. Knapp Robert J. Toonen A genomic glance through the fog of plasticity and diversification in Pocillopora
description	Abstract Scleractinian corals of the genus Pocillopora (Lamarck, 1816) are notoriously difficult to identify morphologically with considerable debate on the degree to which phenotypic plasticity, introgressive hybridization and incomplete lineage sorting obscure well-defined taxonomic lineages. Here, we used RAD-seq to resolve the phylogenetic relationships among seven species of Pocillopora represented by 15 coral holobiont metagenomic libraries. We found strong concordance between the coral holobiont datasets, reads that mapped to the Pocillopora damicornis (Linnaeus, 1758) transcriptome, nearly complete mitochondrial genomes, 430 unlinked high-quality SNPs shared across all Pocillopora taxa, and a conspecificity matrix of the holobiont dataset. These datasets also show strong concordance with previously published clustering of the mitochondrial clades based on the mtDNA open reading frame (ORF). We resolve seven clear monophyletic groups, with no evidence for introgressive hybridization among any but the most recently derived sister species. In contrast, ribosomal and histone datasets, which are most commonly used in coral phylogenies to date, were less informative and contradictory to these other datasets. These data indicate that extant Pocillopora species diversified from a common ancestral lineage within the last ~3 million years. Key to this evolutionary success story may be the high phenotypic plasticity exhibited by Pocillopora species.
format	article
author	Erika C. Johnston Zac H. Forsman Jean-François Flot Sebastian Schmidt-Roach Jorge H. Pinzón Ingrid S. S. Knapp Robert J. Toonen
author_facet	Erika C. Johnston Zac H. Forsman Jean-François Flot Sebastian Schmidt-Roach Jorge H. Pinzón Ingrid S. S. Knapp Robert J. Toonen
author_sort	Erika C. Johnston
title	A genomic glance through the fog of plasticity and diversification in Pocillopora
title_short	A genomic glance through the fog of plasticity and diversification in Pocillopora
title_full	A genomic glance through the fog of plasticity and diversification in Pocillopora
title_fullStr	A genomic glance through the fog of plasticity and diversification in Pocillopora
title_full_unstemmed	A genomic glance through the fog of plasticity and diversification in Pocillopora
title_sort	genomic glance through the fog of plasticity and diversification in pocillopora
publisher	Nature Portfolio
publishDate	2017
url	https://doaj.org/article/56f4b46cfe67498e9bafe0ef0453b428
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A genomic glance through the fog of plasticity and diversification in Pocillopora

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