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Genus-level phylogeny of cephalopods using molecular markers: current status and problematic areas

Comprising more than 800 extant species, the class Cephalopoda (octopuses, squid, cuttlefish, and nautiluses) is a fascinating group of marine conchiferan mollusks. Recently, the first cephalopod genome (of Octopus bimaculoides) was published, providing a genomic framework, which will enable more de...

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Autores principales: Sanchez, Gustavo, Setiamarga, Davin H.E., Tuanapaya, Surangkana, Tongtherm, Kittichai, Winkelmann, Inger E., Schmidbaur, Hannah, Umino, Tetsuya, Albertin, Caroline, Allcock, Louise, Perales-Raya, Catalina, Gleadall, Ian, Strugnell, Jan M., Simakov, Oleg, Nabhitabhata, Jaruwat
Formato: Online Artículo Texto
Lenguaje:English
Publicado: PeerJ Inc. 2018
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5813590/
https://www.ncbi.nlm.nih.gov/pubmed/29456885
http://dx.doi.org/10.7717/peerj.4331
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author Sanchez, Gustavo
Setiamarga, Davin H.E.
Tuanapaya, Surangkana
Tongtherm, Kittichai
Winkelmann, Inger E.
Schmidbaur, Hannah
Umino, Tetsuya
Albertin, Caroline
Allcock, Louise
Perales-Raya, Catalina
Gleadall, Ian
Strugnell, Jan M.
Simakov, Oleg
Nabhitabhata, Jaruwat
author_facet Sanchez, Gustavo
Setiamarga, Davin H.E.
Tuanapaya, Surangkana
Tongtherm, Kittichai
Winkelmann, Inger E.
Schmidbaur, Hannah
Umino, Tetsuya
Albertin, Caroline
Allcock, Louise
Perales-Raya, Catalina
Gleadall, Ian
Strugnell, Jan M.
Simakov, Oleg
Nabhitabhata, Jaruwat
author_sort Sanchez, Gustavo
collection PubMed
description Comprising more than 800 extant species, the class Cephalopoda (octopuses, squid, cuttlefish, and nautiluses) is a fascinating group of marine conchiferan mollusks. Recently, the first cephalopod genome (of Octopus bimaculoides) was published, providing a genomic framework, which will enable more detailed investigations of cephalopod characteristics, including developmental, morphological, and behavioural traits. Meanwhile, a robust phylogeny of the members of the subclass Coleoidea (octopuses, squid, cuttlefishes) is crucial for comparative and evolutionary studies aiming to investigate the group’s traits and innovations, but such a phylogeny has proven very challenging to obtain. Here, we present the results of phylogenetic inference at the genus level using mitochondrial and nuclear marker sequences available from public databases. Topologies are presented which show support for (1) the monophyly of the two main superorders, Octobrachia and Decabrachia, and (2) some of the interrelationships at the family level. We have mapped morphological characters onto the tree and conducted molecular dating analyses, obtaining congruent results with previous estimates of divergence in major lineages. Our study also identifies unresolved phylogenetic relationships within the cephalopod phylogeny and insufficient taxonomic sampling among squids excluding the Loliginidae in the Decabrachia and within the Order Cirromorphida in the Octobrachia. Genomic and transcriptomic resources should enable resolution of these issues in the relatively near future. We provide our alignment as an open access resource, to allow other researchers to reconstruct phylogenetic trees upon this work in the future.
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spelling pubmed-58135902018-02-16 Genus-level phylogeny of cephalopods using molecular markers: current status and problematic areas Sanchez, Gustavo Setiamarga, Davin H.E. Tuanapaya, Surangkana Tongtherm, Kittichai Winkelmann, Inger E. Schmidbaur, Hannah Umino, Tetsuya Albertin, Caroline Allcock, Louise Perales-Raya, Catalina Gleadall, Ian Strugnell, Jan M. Simakov, Oleg Nabhitabhata, Jaruwat PeerJ Biodiversity Comprising more than 800 extant species, the class Cephalopoda (octopuses, squid, cuttlefish, and nautiluses) is a fascinating group of marine conchiferan mollusks. Recently, the first cephalopod genome (of Octopus bimaculoides) was published, providing a genomic framework, which will enable more detailed investigations of cephalopod characteristics, including developmental, morphological, and behavioural traits. Meanwhile, a robust phylogeny of the members of the subclass Coleoidea (octopuses, squid, cuttlefishes) is crucial for comparative and evolutionary studies aiming to investigate the group’s traits and innovations, but such a phylogeny has proven very challenging to obtain. Here, we present the results of phylogenetic inference at the genus level using mitochondrial and nuclear marker sequences available from public databases. Topologies are presented which show support for (1) the monophyly of the two main superorders, Octobrachia and Decabrachia, and (2) some of the interrelationships at the family level. We have mapped morphological characters onto the tree and conducted molecular dating analyses, obtaining congruent results with previous estimates of divergence in major lineages. Our study also identifies unresolved phylogenetic relationships within the cephalopod phylogeny and insufficient taxonomic sampling among squids excluding the Loliginidae in the Decabrachia and within the Order Cirromorphida in the Octobrachia. Genomic and transcriptomic resources should enable resolution of these issues in the relatively near future. We provide our alignment as an open access resource, to allow other researchers to reconstruct phylogenetic trees upon this work in the future. PeerJ Inc. 2018-02-12 /pmc/articles/PMC5813590/ /pubmed/29456885 http://dx.doi.org/10.7717/peerj.4331 Text en ©2018 Sanchez et al. http://creativecommons.org/licenses/by/4.0/ This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, reproduction and adaptation in any medium and for any purpose provided that it is properly attributed. For attribution, the original author(s), title, publication source (PeerJ) and either DOI or URL of the article must be cited.
spellingShingle Biodiversity
Sanchez, Gustavo
Setiamarga, Davin H.E.
Tuanapaya, Surangkana
Tongtherm, Kittichai
Winkelmann, Inger E.
Schmidbaur, Hannah
Umino, Tetsuya
Albertin, Caroline
Allcock, Louise
Perales-Raya, Catalina
Gleadall, Ian
Strugnell, Jan M.
Simakov, Oleg
Nabhitabhata, Jaruwat
Genus-level phylogeny of cephalopods using molecular markers: current status and problematic areas
title Genus-level phylogeny of cephalopods using molecular markers: current status and problematic areas
title_full Genus-level phylogeny of cephalopods using molecular markers: current status and problematic areas
title_fullStr Genus-level phylogeny of cephalopods using molecular markers: current status and problematic areas
title_full_unstemmed Genus-level phylogeny of cephalopods using molecular markers: current status and problematic areas
title_short Genus-level phylogeny of cephalopods using molecular markers: current status and problematic areas
title_sort genus-level phylogeny of cephalopods using molecular markers: current status and problematic areas
topic Biodiversity
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5813590/
https://www.ncbi.nlm.nih.gov/pubmed/29456885
http://dx.doi.org/10.7717/peerj.4331
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