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Increased evolutionary rates and conserved transcriptional response following allopolyploidization in brown algae

2019-01Journal article Restricted
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dc.contributor.authorSousa, Filipe
dc.contributor.authorNeiva, J.
dc.contributor.authorMartins, Neusa
dc.contributor.authorJacinto, Rita
dc.contributor.authorAnderson, Laura
dc.contributor.authorRaimondi, Peter T.
dc.contributor.authorSerrao, Ester
dc.contributor.authorPearson, Gareth
dc.date.accessioned2020-07-24T10:53:29Z
dc.date.available2020-07-24T10:53:29Z
dc.date.issued2019-01
dc.description.abstractGenome mergers between independently evolving lineages, via allopolyploidy, can potentially lead to instantaneous sympatric speciation. However, little is known about the consequences of allopolyploidy and the resultant "genome shock" on genome evolution and expression beyond the plant and fungal branches of the Tree of Life. The aim of this study was to compare substitution rates and gene expression patterns in two allopolyploid brown algae (Phaeophyceae and Heterokonta) and their progenitors in the genus Pelvetiopsis N. L. Gardner in the north-east Pacific, and to date their relationships. We used RNA-seq data, all potential orthologues, and putative single-copy loci for phylogenomic, divergence, and gene expression analyses. The multispecies coalescent placed the origin of allopolyploids in the late Pleistocene (0.35-0.05 Ma). Homoeologues displayed increased nonsynonymous divergence compared with parental orthologues, consistent with relaxed selective constraint following allopolyploidization, including for genes with no evidence of pseudogenization or neofunctionalization. Patterns of homoeologue-orthologue expression conservation and expression level dominance were largely shared with both natural plant and fungal allopolyploids. Our results provide further support for common cross-Kingdom patterns of allopolyploid genome evolution and transcriptional responses, here in the evolutionarily distinct marine heterokont brown algae.
dc.description.sponsorshipFCT/MEC [UID/Multi/04326/2013]
dc.description.sponsorshipDavid and Lucile Packard FoundationThe David & Lucile Packard Foundation
dc.description.sponsorshipBureau of Ocean Energy Management
dc.description.sponsorshipPew Foundation
dc.description.sponsorshipFoundation for Science and Technology (FCT) of PortugalPortuguese Foundation for Science and Technology [PTDC/MAR-EST/6053/2014, EXPL/BIAEVF/2263/2013, Biodiversa/0004/2015, SFRH/BPD/88935/2012, SFRH/BPD/122567/2016]
dc.identifier.doi10.1111/evo.13645
dc.identifier.issn0014-3820
dc.identifier.issn1558-5646
dc.identifier.urihttp://hdl.handle.net/10400.1/14497
dc.language.isoeng
dc.peerreviewedyes
dc.publisherWiley
dc.subjectInterspecific hybridization
dc.subjectPhylogenetic analysis
dc.subjectGenome evolution
dc.subjectRead alignment
dc.subjectCd-Hit
dc.subjectPolyploidy
dc.subjectGenes
dc.subjectPopulations
dc.subjectHybrids
dc.subjectPlants
dc.titleIncreased evolutionary rates and conserved transcriptional response following allopolyploidization in brown algae
dc.typejournal article
dspace.entity.typePublication
oaire.awardURIinfo:eu-repo/grantAgreement/FCT/SFRH/SFRH%2FBPD%2F88935%2F2012/PT
oaire.citation.endPage72
oaire.citation.issue1
oaire.citation.startPage59
oaire.citation.titleEvolution
oaire.citation.volume73
oaire.fundingStreamSFRH
person.familyNamede Portugal da Silveira Teixeira de Sousa
person.familyNameMiranda Neiva
person.familyNameJacinto
person.familyNameSerrao
person.familyNamePearson
person.givenNameFilipe
person.givenNameJoão
person.givenNameRita
person.givenNameEster A.
person.givenNameGareth Anthony
person.identifierM-3818-2013
person.identifier2641191
person.identifierC-6686-2012
person.identifier113536
person.identifier.ciencia-id4711-41AD-D52F
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person.identifier.ciencia-id5B13-B26E-B1EC
person.identifier.ciencia-id3315-9919-1A52
person.identifier.orcid0000-0003-4681-8951
person.identifier.orcid0000-0002-5927-4570
person.identifier.orcid0000-0003-4333-2905
person.identifier.orcid0000-0002-0504-6388
person.identifier.orcid0000-0003-1316-658X
person.identifier.orcid0000-0002-0768-464X
person.identifier.ridJ-9270-2014
person.identifier.ridJ-3911-2013
person.identifier.scopus-author-id54895771800
person.identifier.scopus-author-id7004093604
person.identifier.scopus-author-id55916875600
project.funder.identifierhttp://doi.org/10.13039/501100001871
project.funder.nameFundação para a Ciência e a Tecnologia
rcaap.rightsrestrictedAccess
rcaap.typearticle
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