Phylogenetic divergences in brown rot fungal pathogens of Monilinia species from a worldwide collection: inferences based on the nuclear versus mitochondrial genes

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dc.authoridOzkilinc, Hilal/0000-0003-0791-975X
dc.contributor.authorSilan, Ece
dc.contributor.authorOzkilinc, Hilal
dc.date.accessioned2025-01-27T20:45:43Z
dc.date.available2025-01-27T20:45:43Z
dc.date.issued2022
dc.departmentÇanakkale Onsekiz Mart Üniversitesi
dc.description.abstractBackground Phylogenetic analyses for plant pathogenic fungi explore many questions on diversities, relationships, origins, and divergences of populations from different sources such as species, host, and geography. This information is highly valuable, especially from a large global sampling, to understand the evolutionary paths of the pathogens worldwide. Monilinia fructicola and M. laxa are two important fungal pathogens of stone fruits that cause the widespread disease commonly known as brown rot. Three nuclear genes (Calmodulin, SDHA, TEF1 alpha) and three mitochondrial genes (Cytochrome_b, NAD2, and NAD5) of the two pathogen species from a worldwide collection including five different countries from four different continents were studied in this work. Results Both Maximum Likelihood and Bayesian approaches were applied to the data sets, and in addition, Maximum Parsimony based approaches were used for the regions having indel polymorphisms. Calmodulin, SDHA, NAD2, and NAD5 regions were found phylogenetically informative and utilized for phylogenetics of Monilinia species for the first time. Each gene region presented a set of haplotypes except Cytochrome_b, which was monomorphic. According to this large collection of two Monilinia species around the world, M. fructicola showed more diversity than M. laxa, a result that should be carefully considered, as M. fructicola is known to be a quarantine pathogen. Moreover, the other two mitochondrial genes (NAD2 and NAD5) did not have any substitution type mutations but presented an intron indel polymorphism indicating the contribution of introns as well as mobile introns to the fungal diversity and evolution. Based on the concatenated gene sets, nuclear DNA carries higher mutations and uncovers more phylogenetic clusters in comparison to the mitochondrial DNA-based data for these fungal species. Conclusions This study provides the most comprehensive knowledge on the phylogenetics of both nuclear and mitochondrial genes of two prominent brown rot pathogens, M. fructicola and M. laxa. Based on the regions used in this study, the nuclear genes resolved phylogenetic branching better than the mitochondrial genes and discovered new phylogenetic lineages for these species.
dc.description.sponsorshipScientific Research Projects Coordination Unit of Canakkale Onsekiz Mart University [FYL-2019-3125]; TUBITAK [217Z134]
dc.description.sponsorshipThis study was supported by the Scientific Research Projects Coordination Unit of Canakkale Onsekiz Mart University (Project Number: FYL-2019-3125). The part of this study including sequencing analyses and phylogenetics of the samples from Turkey was supported by the TUBITAK 217Z134 project number, granted to Dr. H. OZKILINC.
dc.identifier.doi10.1186/s12862-022-02079-6
dc.identifier.issn2730-7182
dc.identifier.issue1
dc.identifier.pmid36271324
dc.identifier.scopus2-s2.0-85140331070
dc.identifier.scopusqualityQ1
dc.identifier.urihttps://doi.org/10.1186/s12862-022-02079-6
dc.identifier.urihttps://hdl.handle.net/20.500.12428/24694
dc.identifier.volume22
dc.identifier.wosWOS:000871041000001
dc.identifier.wosqualityQ3
dc.indekslendigikaynakWeb of Science
dc.indekslendigikaynakScopus
dc.indekslendigikaynakPubMed
dc.language.isoen
dc.publisherBMC
dc.relation.ispartofBmc Ecology and Evolution
dc.relation.publicationcategoryinfo:eu-repo/semantics/openAccess
dc.rightsinfo:eu-repo/semantics/openAccess
dc.snmzKA_WoS_20250125
dc.subjectPhylogenetics
dc.subjectMonilinia
dc.subjectMitochondrial gene evolution
dc.subjectNuclear gene evolution
dc.titlePhylogenetic divergences in brown rot fungal pathogens of Monilinia species from a worldwide collection: inferences based on the nuclear versus mitochondrial genes
dc.typeArticle

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