Molecular phylogeny of plant pathogenic fungi based on start codon targeted (SCoT) polymorphism

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dc.authorid0000-0002-3603-2413en_US
dc.authorid0000-0002-7923-8892en_US
dc.authorid0000-0002-4917-3813en_US
dc.authorid0000-0003-2562-4461en_US
dc.authorid0000-0002-3385-2520en_US
dc.contributor.authorPalacıoğlu, Gülsüm
dc.contributor.authorAlkan, Mehtap
dc.contributor.authorDerviş, Sibel
dc.contributor.authorBayraktar, Harun
dc.contributor.authorÖzer, Göksel
dc.date.accessioned2024-07-30T12:19:43Z
dc.date.available2024-07-30T12:19:43Z
dc.date.issued2023en_US
dc.departmentBAİBÜ, Ziraat Fakültesi, Bitki Koruma Bölümüen_US
dc.descriptionSirnak University Scientific Research Projects Coordination Uniten_US
dc.description.abstractBackgroundA number of molecular marker systems have been developed to assess genetic diversity, carry out phylogenetic analysis, and diagnose and discriminate plant pathogenic fungi. The start codon targeted (SCoT) markers system is a novel approach used here to investigate intra and interspecific polymorphisms of phytopathogenic fungi.Materials and methodsThis study assessed genetic variability between and within 96 isolates of ten fungal species associated with a variety of plant species using 36 SCoT primers.ResultsThe six primers generated 331 distinct and reproducible banding patterns, of which 322 were polymorphic (97.28%), resulting in 53.67 polymorphic bands per primer. All primers produced informative amplification profiles that distinguished all fungal species. With a resolving power of 10.65, SCoT primer 12 showed the highest polymorphism among species, followed by primer 33 and primer 29. Polymorphic loci (PPL), Nei's diversity index (h), and Shannon index (I) percentages were 6.25, 0.018, and 0.028, respectively. UPGMA analysis separated all isolates based on morphological classification and revealed significant genetic variation among fungal isolates at the intraspecific level. PCoA analysis strongly supported fungal species discrimination and genetic variation. The other parameters of evaluation proved that SCoT markers are at least as effective as other DNA markers.ConclusionsSCoT markers were effective in identifying plant pathogenic fungi and were a powerful tool for estimating genetic variation and population structure of different fungi species.en_US
dc.description.sponsorshipBackgroundA number of molecular marker systems have been developed to assess genetic diversity, carry out phylogenetic analysis, and diagnose and discriminate plant pathogenic fungi. The start codon targeted (SCoT) markers system is a novel approach used here to investigate intra and interspecific polymorphisms of phytopathogenic fungi.Materials and methodsThis study assessed genetic variability between and within 96 isolates of ten fungal species associated with a variety of plant species using 36 SCoT primers.ResultsThe six primers generated 331 distinct and reproducible banding patterns, of which 322 were polymorphic (97.28%), resulting in 53.67 polymorphic bands per primer. All primers produced informative amplification profiles that distinguished all fungal species. With a resolving power of 10.65, SCoT primer 12 showed the highest polymorphism among species, followed by primer 33 and primer 29. Polymorphic loci (PPL), Nei's diversity index (h), and Shannon index (I) percentages were 6.25, 0.018, and 0.028, respectively. UPGMA analysis separated all isolates based on morphological classification and revealed significant genetic variation among fungal isolates at the intraspecific level. PCoA analysis strongly supported fungal species discrimination and genetic variation. The other parameters of evaluation proved that SCoT markers are at least as effective as other DNA markers.ConclusionsSCoT markers were effective in identifying plant pathogenic fungi and were a powerful tool for estimating genetic variation and population structure of different fungi species.en_US
dc.identifier.citationPalacıoğlu, G., Alkan, M., Derviş, S., Bayraktar, H., & Özer, G. (2023). Molecular phylogeny of plant pathogenic fungi based on start codon targeted (SCoT) polymorphism. Molecular Biology Reports, 50(10), 8271-8279.en_US
dc.identifier.doi10.1007/s11033-023-08735-4
dc.identifier.endpage8279en_US
dc.identifier.issn0301-4851
dc.identifier.issn1573-4978
dc.identifier.issue10en_US
dc.identifier.pmid37578578en_US
dc.identifier.scopus2-s2.0-85168262365en_US
dc.identifier.scopusqualityQ2en_US
dc.identifier.startpage8271en_US
dc.identifier.urihttp://dx.doi.org/10.1007/s11033-023-08735-4
dc.identifier.urihttps://hdl.handle.net/20.500.12491/12287
dc.identifier.volume50en_US
dc.identifier.wosWOS:001048656300003en_US
dc.identifier.wosqualityQ3en_US
dc.indekslendigikaynakWeb of Scienceen_US
dc.indekslendigikaynakScopusen_US
dc.indekslendigikaynakPubMeden_US
dc.institutionauthorAlkan, Mehtap
dc.institutionauthorÖzer, Göksel
dc.language.isoenen_US
dc.publisherSpringeren_US
dc.relation.ispartofMolecular Biology Reportsen_US
dc.relation.publicationcategoryMakale - Uluslararası Hakemli Dergi - İdari Personel ve Öğrencien_US
dc.rightsinfo:eu-repo/semantics/closedAccessen_US
dc.subjectGenetic Diversityen_US
dc.subjectFungien_US
dc.subjectMolecular Markeren_US
dc.subjectPlant Pathogenen_US
dc.subjectSCoT Analysisen_US
dc.subjectMarkersen_US
dc.titleMolecular phylogeny of plant pathogenic fungi based on start codon targeted (SCoT) polymorphismen_US
dc.typeArticleen_US

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