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Gene Recruitments and Dismissals in the Argonaut Genome Provide Insights into Pelagic Lifestyle Adaptation and Shell-like Eggcase Reacquisition

The paper nautilus or greater argonaut, Argonauta argo, is a species of octopods which is characterized by its pelagic lifestyle and by the presence of a protective spiral-shaped shell-like eggcase in females. To reveal the genomic background of how the species adapted to the pelagic lifestyle and a...

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Autores principales: Yoshida, Masa-aki, Hirota, Kazuki, Imoto, Junichi, Okuno, Miki, Tanaka, Hiroyuki, Kajitani, Rei, Toyoda, Atsushi, Itoh, Takehiko, Ikeo, Kazuho, Sasaki, Takenori, Setiamarga, Davin H E
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9635652/
https://www.ncbi.nlm.nih.gov/pubmed/36283693
http://dx.doi.org/10.1093/gbe/evac140
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author Yoshida, Masa-aki
Hirota, Kazuki
Imoto, Junichi
Okuno, Miki
Tanaka, Hiroyuki
Kajitani, Rei
Toyoda, Atsushi
Itoh, Takehiko
Ikeo, Kazuho
Sasaki, Takenori
Setiamarga, Davin H E
author_facet Yoshida, Masa-aki
Hirota, Kazuki
Imoto, Junichi
Okuno, Miki
Tanaka, Hiroyuki
Kajitani, Rei
Toyoda, Atsushi
Itoh, Takehiko
Ikeo, Kazuho
Sasaki, Takenori
Setiamarga, Davin H E
author_sort Yoshida, Masa-aki
collection PubMed
description The paper nautilus or greater argonaut, Argonauta argo, is a species of octopods which is characterized by its pelagic lifestyle and by the presence of a protective spiral-shaped shell-like eggcase in females. To reveal the genomic background of how the species adapted to the pelagic lifestyle and acquired its shell-like eggcase, we sequenced the draft genome of the species. The genome size was 1.1 Gb, which is the smallest among the cephalopods known to date, with the top 215 scaffolds (average length 5,064,479 bp) covering 81% (1.09 Gb) of the total assembly. A total of 26,433 protein-coding genes were predicted from 16,802 assembled scaffolds. From these, we identified nearly intact HOX, Parahox, Wnt clusters, and some gene clusters that could probably be related to the pelagic lifestyle, such as reflectin, tyrosinase, and opsin. The gene models also revealed several homologous genes related to calcified shell formation in Conchiferan mollusks, such as Pif-like, SOD, and TRX. Interestingly, comparative genomics analysis revealed that the homologous genes for such genes were also found in the genome of the shell-less octopus, as well as Nautilus, which has a true outer shell. Therefore, the draft genome sequence of Arg. argo presented here has helped us to gain further insights into the genetic background of the dynamic recruitment and dismissal of genes to form an important, converging extended phenotypic structure such as the shell and the shell-like eggcase. Additionally, it allows us to explore the evolution of from benthic to pelagic lifestyles in cephalopods and octopods.
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spelling pubmed-96356522022-11-07 Gene Recruitments and Dismissals in the Argonaut Genome Provide Insights into Pelagic Lifestyle Adaptation and Shell-like Eggcase Reacquisition Yoshida, Masa-aki Hirota, Kazuki Imoto, Junichi Okuno, Miki Tanaka, Hiroyuki Kajitani, Rei Toyoda, Atsushi Itoh, Takehiko Ikeo, Kazuho Sasaki, Takenori Setiamarga, Davin H E Genome Biol Evol Research Article The paper nautilus or greater argonaut, Argonauta argo, is a species of octopods which is characterized by its pelagic lifestyle and by the presence of a protective spiral-shaped shell-like eggcase in females. To reveal the genomic background of how the species adapted to the pelagic lifestyle and acquired its shell-like eggcase, we sequenced the draft genome of the species. The genome size was 1.1 Gb, which is the smallest among the cephalopods known to date, with the top 215 scaffolds (average length 5,064,479 bp) covering 81% (1.09 Gb) of the total assembly. A total of 26,433 protein-coding genes were predicted from 16,802 assembled scaffolds. From these, we identified nearly intact HOX, Parahox, Wnt clusters, and some gene clusters that could probably be related to the pelagic lifestyle, such as reflectin, tyrosinase, and opsin. The gene models also revealed several homologous genes related to calcified shell formation in Conchiferan mollusks, such as Pif-like, SOD, and TRX. Interestingly, comparative genomics analysis revealed that the homologous genes for such genes were also found in the genome of the shell-less octopus, as well as Nautilus, which has a true outer shell. Therefore, the draft genome sequence of Arg. argo presented here has helped us to gain further insights into the genetic background of the dynamic recruitment and dismissal of genes to form an important, converging extended phenotypic structure such as the shell and the shell-like eggcase. Additionally, it allows us to explore the evolution of from benthic to pelagic lifestyles in cephalopods and octopods. Oxford University Press 2022-10-26 /pmc/articles/PMC9635652/ /pubmed/36283693 http://dx.doi.org/10.1093/gbe/evac140 Text en © The Author(s) 2022. Published by Oxford University Press on behalf of Society for Molecular Biology and Evolution. https://creativecommons.org/licenses/by/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Research Article
Yoshida, Masa-aki
Hirota, Kazuki
Imoto, Junichi
Okuno, Miki
Tanaka, Hiroyuki
Kajitani, Rei
Toyoda, Atsushi
Itoh, Takehiko
Ikeo, Kazuho
Sasaki, Takenori
Setiamarga, Davin H E
Gene Recruitments and Dismissals in the Argonaut Genome Provide Insights into Pelagic Lifestyle Adaptation and Shell-like Eggcase Reacquisition
title Gene Recruitments and Dismissals in the Argonaut Genome Provide Insights into Pelagic Lifestyle Adaptation and Shell-like Eggcase Reacquisition
title_full Gene Recruitments and Dismissals in the Argonaut Genome Provide Insights into Pelagic Lifestyle Adaptation and Shell-like Eggcase Reacquisition
title_fullStr Gene Recruitments and Dismissals in the Argonaut Genome Provide Insights into Pelagic Lifestyle Adaptation and Shell-like Eggcase Reacquisition
title_full_unstemmed Gene Recruitments and Dismissals in the Argonaut Genome Provide Insights into Pelagic Lifestyle Adaptation and Shell-like Eggcase Reacquisition
title_short Gene Recruitments and Dismissals in the Argonaut Genome Provide Insights into Pelagic Lifestyle Adaptation and Shell-like Eggcase Reacquisition
title_sort gene recruitments and dismissals in the argonaut genome provide insights into pelagic lifestyle adaptation and shell-like eggcase reacquisition
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9635652/
https://www.ncbi.nlm.nih.gov/pubmed/36283693
http://dx.doi.org/10.1093/gbe/evac140
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