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

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dc.contributor University Of Hawaii Manoa
dc.contributor Ut Southwestern Med Ctr
dc.contributor Carl Von Ossietzky Universitat Oldenburg
dc.contributor Univ Hawaii Manoa
dc.contributor University Of Hawaii System
dc.contributor University Of Texas Southwestern Medical Center Dallas
dc.contributor Hawaii Inst Marine Biol
dc.contributor Universite Libre De Bruxelles
dc.contributor Dept Psychiat
dc.contributor Ulb
dc.contributor Australian Inst Marine Sci
dc.contributor University Of Texas System
dc.contributor Carl Von Ossietzky Univ Oldenburg
dc.contributor Australian Institute Of Marine Science TOONEN, ROBERT J. JOHNSTON, ERIKA C. FORSMAN, ZAC H. FLOT, JEAN-FRANCOIS SCHMIDT-ROACH, SEBASTIAN PINZON, JORGE H. KNAPP, INGRID S. S. 2017-11-05T18:59:31Z 2017-11-05T18:59:31Z 2018-11-01T03:14:17Z 2017-11-05T18:59:31Z 2017-11-05T18:59:31Z 2018-11-01T03:14:17Z 2017-07-20
dc.identifier.citation Johnston EC, Forsman ZH, Flot JF, Schmidt-Roach S, Pinzon JH, Knapp ISS, Toonen RJ (2017) A genomic glance through the fog of plasticity and diversification in Pocillopora. Scientific Reports 7: 5991
dc.identifier.issn 2045-2322
dc.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 similar to 3 million years. Key to this evolutionary success story may be the high phenotypic plasticity exhibited by Pocillopora species.
dc.description.sponsorship We would like to thank Jim Maragos for sample and photograph collection, Iria Fernandez Silva for assistance with sample collection and DNA extraction, Silvia Fontana for help with DNA extraction and library prep, and Mareike Sudek and Amy Eggers for assistance improving protocols, troubleshooting library preparation and sequencing. We thank Patricia Marti-Puig and Tina Carvalho for their assistance with SEM. We also thank the National Science Foundation (NSF) graduate research fellowship program, NSF-OA #1416889, the Seaver Foundation, the Pauley Foundation and the 2013 Edwin Pauley Summer program for financial support to complete this research project. Samples collected by Sebastian Schmidt-Roach were collected as part of a project undertaken at the Australian Institute of Marine Science, Townsville.
dc.language English
dc.subject Generation
dc.subject Non-model Organisms
dc.subject Science & Technology - Other Topics
dc.subject 3-million Years
dc.subject Population Genomics
dc.subject Mitochondrial Genome
dc.subject Multidisciplinary Sciences
dc.subject Reef-building Corals
dc.subject Coral Genus Pocillopora
dc.subject Species Delimitation
dc.subject Phenotypic Plasticity
dc.subject Scleractinian Corals
dc.title A genomic glance through the fog of plasticity and diversification in Pocillopora
dc.type journal article
dc.identifier.doi 10.1038/s41598-017-06085-3
dc.identifier.wos WOS:000405907800045

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