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2b-RAD genotyping of the seagrass Cymodocea nodosa along a latitudinal cline identifies candidate genes for environmental adaptation

2022Journal article Open access
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dc.contributor.authorRuocco, Miriam
dc.contributor.authorJahnke, Marlene
dc.contributor.authorSilva, João
dc.contributor.authorProcaccini, Gabriele
dc.contributor.authorDattolo, Emanuela
dc.date.accessioned2022-11-04T10:14:24Z
dc.date.available2022-11-04T10:14:24Z
dc.date.issued2022
dc.description.abstractPlant populations distributed along broad latitudinal gradients often show patterns of clinal variation in genotype and phenotype. Differences in photoperiod and temperature cues across latitudes influence major phenological events, such as timing of flowering or seed dormancy. Here, we used an array of 4,941 SNPs derived from 2b-RAD genotyping to characterize population differentiation and levels of genetic and genotypic diversity of three populations of the seagrass Cymodocea nodosa along a latitudinal gradient extending across the Atlantic-Mediterranean boundary (i.e., Gran Canaria-Canary Islands, Faro-Portugal, and Ebro Delta-Spain). Our main goal was to search for potential outlier loci that could underlie adaptive differentiation of populations across the latitudinal distribution of the species. We hypothesized that such polymorphisms could be related to variation in photoperiod-temperature regime occurring across latitudes. The three populations were clearly differentiated and exhibited diverse levels of clonality and genetic diversity. Cymodocea nodosa from the Mediterranean displayed the highest genotypic richness, while the Portuguese population had the highest clonality values. Gran Canaria exhibited the lowest genetic diversity (as observed heterozygosity). Nine SNPs were reliably identified as outliers across the three sites by two different methods (i.e., BayeScan and pcadapt), and three SNPs could be associated to specific protein-coding genes by screening available C. nodosa transcriptomes. Two SNPs-carrying contigs encoded for transcription factors, while the other one encoded for an enzyme specifically involved in the regulation of flowering time, namely Lysine-specific histone demethylase 1 homolog 2. When analyzing biological processes enriched within the whole dataset of outlier SNPs identified by at least one method, "regulation of transcription" and "signalling" were among the most represented. Our results highlight the fundamental importance signal integration and gene-regulatory networks, as well as epigenetic regulation via DNA (de)methylation, could have for enabling adaptation of seagrass populations along environmental gradients.pt_PT
dc.description.versioninfo:eu-repo/semantics/publishedVersionpt_PT
dc.identifier.doi10.3389/fgene.2022.866758pt_PT
dc.identifier.issn1664-8021
dc.identifier.urihttp://hdl.handle.net/10400.1/18472
dc.language.isoengpt_PT
dc.peerreviewedyespt_PT
dc.publisherFrontiers Mediapt_PT
dc.relationLA/P/0101/2020pt_PT
dc.relationAssociation of European Marine Biological Laboratories Expanded
dc.relationAlgarve Centre for Marine Sciences
dc.relationAlgarve Centre for Marine Sciences
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/pt_PT
dc.subjectSeagrasspt_PT
dc.subjectSNPspt_PT
dc.subject2b-RADpt_PT
dc.subjectoutlier locipt_PT
dc.subjectLatitudept_PT
dc.subjectFloweringpt_PT
dc.title2b-RAD genotyping of the seagrass Cymodocea nodosa along a latitudinal cline identifies candidate genes for environmental adaptationpt_PT
dc.typejournal article
dspace.entity.typePublication
oaire.awardTitleAssociation of European Marine Biological Laboratories Expanded
oaire.awardTitleAlgarve Centre for Marine Sciences
oaire.awardTitleAlgarve Centre for Marine Sciences
oaire.awardURIinfo:eu-repo/grantAgreement/EC/H2020/730984/EU
oaire.awardURIinfo:eu-repo/grantAgreement/FCT/6817 - DCRRNI ID/UIDB%2F04326%2F2020/PT
oaire.awardURIinfo:eu-repo/grantAgreement/FCT/6817 - DCRRNI ID/UIDP%2F04326%2F2020/PT
oaire.citation.titleFrontiers in Geneticspt_PT
oaire.citation.volume13pt_PT
oaire.fundingStreamH2020
oaire.fundingStream6817 - DCRRNI ID
oaire.fundingStream6817 - DCRRNI ID
person.familyNameSilva
person.givenNameJoão
person.identifier82814
person.identifier.ciencia-id8216-527E-1BD4
person.identifier.orcid0000-0002-7211-1661
person.identifier.ridJ-7874-2013
person.identifier.scopus-author-id7403023547
project.funder.identifierhttp://doi.org/10.13039/501100008530
project.funder.identifierhttp://doi.org/10.13039/501100001871
project.funder.identifierhttp://doi.org/10.13039/501100001871
project.funder.nameEuropean Commission
project.funder.nameFundação para a Ciência e a Tecnologia
project.funder.nameFundação para a Ciência e a Tecnologia
rcaap.rightsopenAccesspt_PT
rcaap.typearticlept_PT
relation.isAuthorOfPublication61040b53-b17a-40f6-b42e-f5476a7a6ddb
relation.isAuthorOfPublication.latestForDiscovery61040b53-b17a-40f6-b42e-f5476a7a6ddb
relation.isProjectOfPublicationa6bab18e-16a5-48af-8699-7a2bef8b6fac
relation.isProjectOfPublicationfafa76a6-2cd2-4a6d-a3c9-772f34d3b91f
relation.isProjectOfPublication15f91d45-e070-47d8-b6b8-efd4de31d9a8
relation.isProjectOfPublication.latestForDiscoverya6bab18e-16a5-48af-8699-7a2bef8b6fac

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