Molecular footprints of selection effects and whole genome duplication (WGD) events in three blueberry species: detected by transcriptome dataset

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dc.authorid0000-0002-6767-4355en_US
dc.authorid0000-0002-7470-0080en_US
dc.authorid0000-0002-0595-5661en_US
dc.contributor.authorWang, Yunsheng
dc.contributor.authorNie, Fei
dc.contributor.authorShahid, Muhammad Qasim
dc.contributor.authorBaloch, Faheem Shehzad
dc.date.accessioned2021-06-23T19:54:10Z
dc.date.available2021-06-23T19:54:10Z
dc.date.issued2020
dc.departmentBAİBÜ, Ziraat Fakültesi, Tarla Bitkileri Bölümüen_US
dc.description.abstractBackgroundBoth selection effects and whole genome duplication played very important roles in plant speciation and evolution, and to decipher the corresponding molecular footprint has always been a central task of geneticists. Vaccinium is species rich genus that comprised of about 450 species, and blueberry is one of the most important species of Vaccinium genus, which is gaining popularity because of high healthful value. In this article, we aimed to decipher the molecular footprints of natural selection on the single copy genes and WGD events occur in the evolutionary history of blueberry species.ResultsWe identified 30,143, 29,922 and 28,891 putative protein coding sequences from 45,535, 42,914 and 43,630 unigenes assembled from the leaves' transcriptome assembly of 19 rabbiteye (T1), 13 southern highbush (T2) and 22 northern highbush (T3) blueberry cultivars. A total of 17, 21 and 27 single copy orthologs were found to undergone positive selection in T1 versus T2, T1 versus T3, and T2 versus T3, respectively, and these orthologs were enriched in metabolic pathways including "Terpenoid backbone biosynthesis", "Valine, leucine and isoleucine biosynthesis", "Butanoate metabolism", "C5-Branched dibasic acid metabolism" "Pantothenate and CoA biosynthesis". We also detected significant molecular footprints of a recent (about 9.04 MYA), medium (about 43.44 MYA) and an ancient (about 116.39 MYA) WGD events that occurred in the evolutionary history of three blueberry species.ConclusionSome important functional genes revealed positive selection effect in blueberry. At least three rounds of WGD events were detected in the evolutionary history of blueberry species. Our work provides insights about the genetic mechanism of adaptive evolution in blueberry and species radiation of Vaccinium in short geological scale time.en_US
dc.identifier.doi10.1186/s12870-020-02461-w
dc.identifier.issn1471-2229
dc.identifier.issue1en_US
dc.identifier.pmid32493212en_US
dc.identifier.scopus2-s2.0-85086008192en_US
dc.identifier.scopusqualityQ1en_US
dc.identifier.urihttps://doi.org/10.1186/s12870-020-02461-w
dc.identifier.urihttps://hdl.handle.net/20.500.12491/10443
dc.identifier.volume20en_US
dc.identifier.wosWOS:000540311300003en_US
dc.identifier.wosqualityQ1en_US
dc.indekslendigikaynakWeb of Scienceen_US
dc.indekslendigikaynakScopusen_US
dc.indekslendigikaynakPubMeden_US
dc.institutionauthorBaloch, Faheem Shehzad
dc.language.isoenen_US
dc.publisherBmcen_US
dc.relation.ispartofBmc Plant Biologyen_US
dc.relation.publicationcategoryMakale - Uluslararası Hakemli Dergi - Kurum Öğretim Elemanıen_US
dc.rightsinfo:eu-repo/semantics/openAccessen_US
dc.subjectAdaptive Evolutionen_US
dc.subjectPhylogenetic Analysisen_US
dc.subjectPolyploiden_US
dc.subjectUnigeneen_US
dc.subjectVacciniumen_US
dc.titleMolecular footprints of selection effects and whole genome duplication (WGD) events in three blueberry species: detected by transcriptome dataseten_US
dc.typeArticleen_US

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