Hidden species diversity and mito-nuclear discordance within the Mediterranean cone snail, Lautoconus ventricosus

The Mediterranean cone snail, Lautoconus ventricosus, is currently considered a single species inhabiting the whole Mediterranean basin and the adjacent Atlantic coasts. Yet, no population genetic study has assessed its taxonomic status. Here, we collected 245 individuals from 75 localities througho...

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Autores: Abalde, Samuel, Crocetta, Fabio, Tenorio, Manuel J., D'Aniello, Salvatore, Fassio, Giulia, Rodríguez Flores, Paula C., Uribe, Juan E., Afonso, Carlos M.L., Oliverio, Marco, Zardoya, Rafael
Tipo de recurso: artículo
Estado:Versión publicada
Fecha de publicación:2023
País:España
Institución:Consejo Superior de Investigaciones Científicas (CSIC)
Repositorio:DIGITAL.CSIC. Repositorio Institucional del CSIC
OAI Identifier:oai:digital.csic.es:10261/331329
Acceso en línea:http://hdl.handle.net/10261/331329
Access Level:acceso abierto
Palabra clave:Cryptic species
Mito-nuclear discordance
Species delimitation
Phylogenomics
SNPs
Mitochondrial genomes
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spelling Hidden species diversity and mito-nuclear discordance within the Mediterranean cone snail, Lautoconus ventricosusAbalde, SamuelCrocetta, FabioTenorio, Manuel J.D'Aniello, SalvatoreFassio, GiuliaRodríguez Flores, Paula C.Uribe, Juan E.Afonso, Carlos M.L.Oliverio, MarcoZardoya, RafaelCryptic speciesMito-nuclear discordanceSpecies delimitationPhylogenomicsSNPsMitochondrial genomesThe Mediterranean cone snail, Lautoconus ventricosus, is currently considered a single species inhabiting the whole Mediterranean basin and the adjacent Atlantic coasts. Yet, no population genetic study has assessed its taxonomic status. Here, we collected 245 individuals from 75 localities throughout the Mediterranean Sea and used cox1 barcodes, complete mitochondrial genomes, and genome skims to test whether L. ventricosus represents a complex of cryptic species. The maximum likelihood phylogeny based on complete mitochondrial genomes recovered six main clades (hereby named blue, brown, green, orange, red, and violet) with sufficient sequence divergence to be considered putative species. On the other hand, phylogenomic analyses based on 437 nuclear genes only recovered four out of the six clades: blue and orange clades were thoroughly mixed and the brown one was not recovered. This mito-nuclear discordance revealed instances of incomplete lineage sorting and introgression, and may have caused important differences in the dating of main cladogenetic events. Species delimitation tests proposed the existence of at least three species: green, violet, and red + blue + orange (i.e., cyan). Green plus cyan (with sympatric distributions) and violet, had West and East Mediterranean distributions, respectively, mostly separated by the Siculo-Tunisian biogeographical barrier. Morphometric analyses of the shell using species hypotheses as factor and shell length as covariate showed that the discrimination power of the studied parameters was only 70.2%, reinforcing the cryptic nature of the uncovered species, and the importance of integrative taxonomic approaches considering morphology, ecology, biogeography, and mitochondrial and nuclear population genetic variation.This work was mainly supported by the Spanish Ministry of Science, Industry, and Innovation (CGL2016-75255-C2-1-P (AEI/FEDER, UE) and PID2019-103947GBC22/AEI/10.13039/501100011033 to RZ; BES-2014-069575 and EEBB-I-16-11775 to SA), the Comunidad de Madrid (2019-T2/AMB-13166 to JEU), and partially complemented by the European Union (TD1209 ALIEN Challenge to Rhodes and Crete COST Actions to FC).Peer reviewedElsevierMinisterio de Economía y Competitividad (España)Comunidad de MadridEuropean CommissionConsejo Superior de Investigaciones Científicas [https://ror.org/02gfc7t72]202320232023info:eu-repo/semantics/articlehttp://purl.org/coar/resource_type/c_6501Publisher's versioninfo:eu-repo/semantics/publishedVersionhttp://hdl.handle.net/10261/331329reponame:DIGITAL.CSIC. Repositorio Institucional del CSICinstname:Consejo Superior de Investigaciones Científicas (CSIC)Inglés#PLACEHOLDER_PARENT_METADATA_VALUE##PLACEHOLDER_PARENT_METADATA_VALUE#info:eu-repo/grantAgreement/MINECO//CGL2016-75255-C2-1-PS2019/AMB-13166/AtraccióndeTalentoInvestigadorhttps://doi.org/10.1016/j.ympev.2023.107838Síinfo:eu-repo/semantics/openAccessoai:digital.csic.es:10261/3313292026-05-22T06:33:51Z
dc.title.none.fl_str_mv Hidden species diversity and mito-nuclear discordance within the Mediterranean cone snail, Lautoconus ventricosus
title Hidden species diversity and mito-nuclear discordance within the Mediterranean cone snail, Lautoconus ventricosus
spellingShingle Hidden species diversity and mito-nuclear discordance within the Mediterranean cone snail, Lautoconus ventricosus
Abalde, Samuel
Cryptic species
Mito-nuclear discordance
Species delimitation
Phylogenomics
SNPs
Mitochondrial genomes
title_short Hidden species diversity and mito-nuclear discordance within the Mediterranean cone snail, Lautoconus ventricosus
title_full Hidden species diversity and mito-nuclear discordance within the Mediterranean cone snail, Lautoconus ventricosus
title_fullStr Hidden species diversity and mito-nuclear discordance within the Mediterranean cone snail, Lautoconus ventricosus
title_full_unstemmed Hidden species diversity and mito-nuclear discordance within the Mediterranean cone snail, Lautoconus ventricosus
title_sort Hidden species diversity and mito-nuclear discordance within the Mediterranean cone snail, Lautoconus ventricosus
dc.creator.none.fl_str_mv Abalde, Samuel
Crocetta, Fabio
Tenorio, Manuel J.
D'Aniello, Salvatore
Fassio, Giulia
Rodríguez Flores, Paula C.
Uribe, Juan E.
Afonso, Carlos M.L.
Oliverio, Marco
Zardoya, Rafael
author Abalde, Samuel
author_facet Abalde, Samuel
Crocetta, Fabio
Tenorio, Manuel J.
D'Aniello, Salvatore
Fassio, Giulia
Rodríguez Flores, Paula C.
Uribe, Juan E.
Afonso, Carlos M.L.
Oliverio, Marco
Zardoya, Rafael
author_role author
author2 Crocetta, Fabio
Tenorio, Manuel J.
D'Aniello, Salvatore
Fassio, Giulia
Rodríguez Flores, Paula C.
Uribe, Juan E.
Afonso, Carlos M.L.
Oliverio, Marco
Zardoya, Rafael
author2_role author
author
author
author
author
author
author
author
author
dc.contributor.none.fl_str_mv Ministerio de Economía y Competitividad (España)
Comunidad de Madrid
European Commission
Consejo Superior de Investigaciones Científicas [https://ror.org/02gfc7t72]
dc.subject.none.fl_str_mv Cryptic species
Mito-nuclear discordance
Species delimitation
Phylogenomics
SNPs
Mitochondrial genomes
topic Cryptic species
Mito-nuclear discordance
Species delimitation
Phylogenomics
SNPs
Mitochondrial genomes
description The Mediterranean cone snail, Lautoconus ventricosus, is currently considered a single species inhabiting the whole Mediterranean basin and the adjacent Atlantic coasts. Yet, no population genetic study has assessed its taxonomic status. Here, we collected 245 individuals from 75 localities throughout the Mediterranean Sea and used cox1 barcodes, complete mitochondrial genomes, and genome skims to test whether L. ventricosus represents a complex of cryptic species. The maximum likelihood phylogeny based on complete mitochondrial genomes recovered six main clades (hereby named blue, brown, green, orange, red, and violet) with sufficient sequence divergence to be considered putative species. On the other hand, phylogenomic analyses based on 437 nuclear genes only recovered four out of the six clades: blue and orange clades were thoroughly mixed and the brown one was not recovered. This mito-nuclear discordance revealed instances of incomplete lineage sorting and introgression, and may have caused important differences in the dating of main cladogenetic events. Species delimitation tests proposed the existence of at least three species: green, violet, and red + blue + orange (i.e., cyan). Green plus cyan (with sympatric distributions) and violet, had West and East Mediterranean distributions, respectively, mostly separated by the Siculo-Tunisian biogeographical barrier. Morphometric analyses of the shell using species hypotheses as factor and shell length as covariate showed that the discrimination power of the studied parameters was only 70.2%, reinforcing the cryptic nature of the uncovered species, and the importance of integrative taxonomic approaches considering morphology, ecology, biogeography, and mitochondrial and nuclear population genetic variation.
publishDate 2023
dc.date.none.fl_str_mv 2023
2023
2023
dc.type.none.fl_str_mv info:eu-repo/semantics/article
http://purl.org/coar/resource_type/c_6501
Publisher's version
info:eu-repo/semantics/publishedVersion
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv http://hdl.handle.net/10261/331329
url http://hdl.handle.net/10261/331329
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.relation.none.fl_str_mv #PLACEHOLDER_PARENT_METADATA_VALUE#
#PLACEHOLDER_PARENT_METADATA_VALUE#
info:eu-repo/grantAgreement/MINECO//CGL2016-75255-C2-1-P
S2019/AMB-13166/AtraccióndeTalentoInvestigador
https://doi.org/10.1016/j.ympev.2023.107838
Sí
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.publisher.none.fl_str_mv Elsevier
publisher.none.fl_str_mv Elsevier
dc.source.none.fl_str_mv reponame:DIGITAL.CSIC. Repositorio Institucional del CSIC
instname:Consejo Superior de Investigaciones Científicas (CSIC)
instname_str Consejo Superior de Investigaciones Científicas (CSIC)
reponame_str DIGITAL.CSIC. Repositorio Institucional del CSIC
collection DIGITAL.CSIC. Repositorio Institucional del CSIC
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