Genome-enabled phylogenetic and functional reconstruction of an araphid pennate diatom Plagiostriata sp. CCMP470, previously assigned as a radial centric diatom, and its bacterial commensal

Abstract Diatoms are an ecologically fundamental and highly diverse group of algae, dominating marine primary production in both open-water and coastal communities. The diatoms include both centric species, which may have radial or polar symmetry, and the pennates, which include raphid and araphid s...

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Autores principales:	Shinya Sato, Deepak Nanjappa, Richard G. Dorrell, Fabio Rocha Jimenez Vieira, Elena Kazamia, Leila Tirichine, Alaguraj Veluchamy, Roland Heilig, Jean-Marc Aury, Olivier Jaillon, Patrick Wincker, Zoltan Fussy, Miroslav Obornik, Sergio A. Muñoz-Gómez, David G. Mann, Chris Bowler, Adriana Zingone
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2020
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/8f2e1213263a4ce898769792c4c31ced
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spelling	oai:doaj.org-article:8f2e1213263a4ce898769792c4c31ced2021-12-02T17:52:33ZGenome-enabled phylogenetic and functional reconstruction of an araphid pennate diatom Plagiostriata sp. CCMP470, previously assigned as a radial centric diatom, and its bacterial commensal10.1038/s41598-020-65941-x2045-2322https://doaj.org/article/8f2e1213263a4ce898769792c4c31ced2020-06-01T00:00:00Zhttps://doi.org/10.1038/s41598-020-65941-xhttps://doaj.org/toc/2045-2322Abstract Diatoms are an ecologically fundamental and highly diverse group of algae, dominating marine primary production in both open-water and coastal communities. The diatoms include both centric species, which may have radial or polar symmetry, and the pennates, which include raphid and araphid species and arose within the centric lineage. Here, we use combined microscopic and molecular information to reclassify a diatom strain CCMP470, previously annotated as a radial centric species related to Leptocylindrus danicus, as an araphid pennate species in the staurosiroid lineage, within the genus Plagiostriata. CCMP470 shares key ultrastructural features with Plagiostriata taxa, such as the presence of a sternum with parallel striae, and the presence of a highly reduced labiate process on its valve; and this evolutionary position is robustly supported by multigene phylogenetic analysis. We additionally present a draft genome of CCMP470, which is the first genome available for a staurosiroid lineage. 270 Pfams (19%) found in the CCMP470 genome are not known in other diatom genomes, which otherwise does not hold big novelties compared to genomes of non-staurosiroid diatoms. Notably, our DNA library contains the genome of a bacterium within the Rhodobacterales, an alpha-proteobacterial lineage known frequently to associate with algae. We demonstrate the presence of commensal alpha-proteobacterial sequences in other published algal genome and transcriptome datasets, which may indicate widespread and persistent co-occurrence.Shinya SatoDeepak NanjappaRichard G. DorrellFabio Rocha Jimenez VieiraElena KazamiaLeila TirichineAlaguraj VeluchamyRoland HeiligJean-Marc AuryOlivier JaillonPatrick WinckerZoltan FussyMiroslav ObornikSergio A. Muñoz-GómezDavid G. MannChris BowlerAdriana ZingoneNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 10, Iss 1, Pp 1-12 (2020)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Shinya Sato Deepak Nanjappa Richard G. Dorrell Fabio Rocha Jimenez Vieira Elena Kazamia Leila Tirichine Alaguraj Veluchamy Roland Heilig Jean-Marc Aury Olivier Jaillon Patrick Wincker Zoltan Fussy Miroslav Obornik Sergio A. Muñoz-Gómez David G. Mann Chris Bowler Adriana Zingone Genome-enabled phylogenetic and functional reconstruction of an araphid pennate diatom Plagiostriata sp. CCMP470, previously assigned as a radial centric diatom, and its bacterial commensal
description	Abstract Diatoms are an ecologically fundamental and highly diverse group of algae, dominating marine primary production in both open-water and coastal communities. The diatoms include both centric species, which may have radial or polar symmetry, and the pennates, which include raphid and araphid species and arose within the centric lineage. Here, we use combined microscopic and molecular information to reclassify a diatom strain CCMP470, previously annotated as a radial centric species related to Leptocylindrus danicus, as an araphid pennate species in the staurosiroid lineage, within the genus Plagiostriata. CCMP470 shares key ultrastructural features with Plagiostriata taxa, such as the presence of a sternum with parallel striae, and the presence of a highly reduced labiate process on its valve; and this evolutionary position is robustly supported by multigene phylogenetic analysis. We additionally present a draft genome of CCMP470, which is the first genome available for a staurosiroid lineage. 270 Pfams (19%) found in the CCMP470 genome are not known in other diatom genomes, which otherwise does not hold big novelties compared to genomes of non-staurosiroid diatoms. Notably, our DNA library contains the genome of a bacterium within the Rhodobacterales, an alpha-proteobacterial lineage known frequently to associate with algae. We demonstrate the presence of commensal alpha-proteobacterial sequences in other published algal genome and transcriptome datasets, which may indicate widespread and persistent co-occurrence.
format	article
author	Shinya Sato Deepak Nanjappa Richard G. Dorrell Fabio Rocha Jimenez Vieira Elena Kazamia Leila Tirichine Alaguraj Veluchamy Roland Heilig Jean-Marc Aury Olivier Jaillon Patrick Wincker Zoltan Fussy Miroslav Obornik Sergio A. Muñoz-Gómez David G. Mann Chris Bowler Adriana Zingone
author_facet	Shinya Sato Deepak Nanjappa Richard G. Dorrell Fabio Rocha Jimenez Vieira Elena Kazamia Leila Tirichine Alaguraj Veluchamy Roland Heilig Jean-Marc Aury Olivier Jaillon Patrick Wincker Zoltan Fussy Miroslav Obornik Sergio A. Muñoz-Gómez David G. Mann Chris Bowler Adriana Zingone
author_sort	Shinya Sato
title	Genome-enabled phylogenetic and functional reconstruction of an araphid pennate diatom Plagiostriata sp. CCMP470, previously assigned as a radial centric diatom, and its bacterial commensal
title_short	Genome-enabled phylogenetic and functional reconstruction of an araphid pennate diatom Plagiostriata sp. CCMP470, previously assigned as a radial centric diatom, and its bacterial commensal
title_full	Genome-enabled phylogenetic and functional reconstruction of an araphid pennate diatom Plagiostriata sp. CCMP470, previously assigned as a radial centric diatom, and its bacterial commensal
title_fullStr	Genome-enabled phylogenetic and functional reconstruction of an araphid pennate diatom Plagiostriata sp. CCMP470, previously assigned as a radial centric diatom, and its bacterial commensal
title_full_unstemmed	Genome-enabled phylogenetic and functional reconstruction of an araphid pennate diatom Plagiostriata sp. CCMP470, previously assigned as a radial centric diatom, and its bacterial commensal
title_sort	genome-enabled phylogenetic and functional reconstruction of an araphid pennate diatom plagiostriata sp. ccmp470, previously assigned as a radial centric diatom, and its bacterial commensal
publisher	Nature Portfolio
publishDate	2020
url	https://doaj.org/article/8f2e1213263a4ce898769792c4c31ced
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Genome-enabled phylogenetic and functional reconstruction of an araphid pennate diatom Plagiostriata sp. CCMP470, previously assigned as a radial centric diatom, and its bacterial commensal

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