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Unravelling hybridization in Phytophthora using phylogenomics and genome size estimation

2021-07-01Journal article Open Access
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dc.contributor.authorVan Poucke, Kris
dc.contributor.authorHaegeman, Annelies
dc.contributor.authorGoedefroit, Thomas
dc.contributor.authorFocquet, Fran
dc.contributor.authorLeus, Leen
dc.contributor.authorHorta Jung, Marília
dc.contributor.authorNave, Corina
dc.contributor.authorRedondo, Miguel A.
dc.contributor.authorHusson, Claude
dc.contributor.authorKostov, Kaloyan
dc.contributor.authorLyubenova, Aneta
dc.contributor.authorChristova, Petya
dc.contributor.authorChandelier, Anne
dc.contributor.authorSlavov, Slavcho
dc.contributor.authorde Cock, Arthur
dc.contributor.authorBonants, Peter
dc.contributor.authorWerres, Sabine
dc.contributor.authorPalau, Jonàs O.
dc.contributor.authorMarçais, Benoit
dc.contributor.authorJung, Thomas
dc.contributor.authorStenlid, Jan
dc.contributor.authorRuttink, Tom
dc.contributor.authorHeungens, Kurt
dc.date.accessioned2021-07-01T08:59:03Z
dc.date.available2021-07-01T08:59:03Z
dc.date.issued2021-07-01
dc.date.updated2021-07-01T04:11:11Z
dc.description.abstractThe genus Phytophthora comprises many economically and ecologically important plant pathogens. Hybrid species have previously been identified in at least six of the 12 phylogenetic clades. These hybrids can potentially infect a wider host range and display enhanced vigour compared to their progenitors. Phytophthora hybrids therefore pose a serious threat to agriculture as well as to natural ecosystems. Early and correct identification of hybrids is therefore essential for adequate plant protection but this is hampered by the limitations of morphological and traditional molecular methods. Identification of hybrids is also important in evolutionary studies as the positioning of hybrids in a phylogenetic tree can lead to suboptimal topologies. To improve the identification of hybrids we have combined genotyping-by-sequencing (GBS) and genome size estimation on a genus-wide collection of 614 Phytophthora isolates. Analyses based on locus- and allele counts and especially on the combination of species-specific loci and genome size estimations allowed us to confirm and characterize 27 previously described hybrid species and discover 16 new hybrid species. Our method was also valuable for species identification at an unprecedented resolution and further allowed correct naming of misidentified isolates. We used both a concatenation- and a coalescent-based phylogenomic method to construct a reliable phylogeny using the GBS data of 140 non-hybrid Phytophthora isolates. Hybrid species were subsequently connected to their progenitors in this phylogenetic tree. In this study we demonstrate the application of two validated techniques (GBS and flow cytometry) for relatively low cost but high resolution identification of hybrids and their phylogenetic relations.pt_PT
dc.description.versioninfo:eu-repo/semantics/publishedVersionpt_PT
dc.identifier.citationIMA Fungus. 2021 Jul 01;12(1):16pt_PT
dc.identifier.doi10.1186/s43008-021-00068-wpt_PT
dc.identifier.eissn2210-6359
dc.identifier.urihttp://hdl.handle.net/10400.1/16689
dc.language.isoengpt_PT
dc.peerreviewedyespt_PT
dc.publisherInternational Mycological Associationpt_PT
dc.relation.publisherversionhttps://imafungus.biomedcentral.com/articles/10.1186/s43008-021-00068-wpt_PT
dc.rights.holderThe Author(s)
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/pt_PT
dc.titleUnravelling hybridization in Phytophthora using phylogenomics and genome size estimationpt_PT
dc.typejournal article
dspace.entity.typePublication
oaire.awardURIinfo:eu-repo/grantAgreement/FCT/3599-PPCDT/BIODIVERSA%2F0002%2F2012/PT
oaire.citation.issue1pt_PT
oaire.citation.startPage16pt_PT
oaire.citation.titleIMA Funguspt_PT
oaire.citation.volume12pt_PT
oaire.fundingStream3599-PPCDT
person.familyNameHorta Jung
person.givenNameMarília
person.identifier.orcid0000-0003-2219-8647
person.identifier.ridE-7624-2013
person.identifier.scopus-author-id16312454300
project.funder.identifierhttp://doi.org/10.13039/501100001871
project.funder.nameFundação para a Ciência e a Tecnologia
rcaap.rightsopenAccesspt_PT
rcaap.typearticlept_PT
relation.isAuthorOfPublication2fee8729-b025-4c5e-bc83-397229a037ef
relation.isAuthorOfPublication.latestForDiscovery2fee8729-b025-4c5e-bc83-397229a037ef
relation.isProjectOfPublication0d25f6e5-6ebb-49f9-a476-f8fe3cfca59f
relation.isProjectOfPublication.latestForDiscovery0d25f6e5-6ebb-49f9-a476-f8fe3cfca59f

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