Development of conventional and real-time PCR assays to detect alternaria burnsii in cumin seed

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dc.authorid0000-0002-3385-2520en_US
dc.authorid0000-0003-2562-4461
dc.contributor.authorÖzer, Göksel
dc.contributor.authorBayraktar, Harun
dc.date.accessioned2021-06-23T19:51:03Z
dc.date.available2021-06-23T19:51:03Z
dc.date.issued2019
dc.departmentBAİBÜ, Ziraat Fakültesi, Bitki Koruma Bölümüen_US
dc.description.abstractAlternaria burnsii is the causal agent of cumin blight, a seed-borne disease of economic concern for all cumin growing areas. Current detection and identification methods for the pathogen are based on visual examination of morphological features, which are time-consuming and laborious. The present study describes conventional and real-time PCR assays for rapid and accurate detection of A. burnsii in cumin seeds. Based on sequence differences in Alternaria allergen a1 (Alt a1) gene, two primer pairs, Ab35/326 and AB177/403, were designed for conventional and real-time PCR assays, respectively. Both primer pairs amplified the expected target PCR fragment from A. burnsii genomic DNA. The sensitivity of conventional PCR with primer pairs Ab35/326 was 1x202f;pg of genomic DNA and allowed the detection of pathogen in cumin seeds samples with 0.2% infestation rate. Real-time PCR assay was highly sensitive and allowed the quantification of 0.1x202f;pg pathogen DNA. Also, this assay confirmed the presence of pathogen in cumin seeds up to 0.1% infestation level. The standard curve (r(2)x202f;= 0.99) showed a good correlation between fungal DNA quantities and Cq values. The specificity of primer pairs was confirmed by the absence of amplified product with DNA of related fungi species and healthy plant tissue. The assays developed in this study provide a rapid and sensitive tool for the detection and quantification of Alternaria burnsii in cumin seed.en_US
dc.identifier.doi10.1007/s10343-019-00466-6
dc.identifier.endpage212en_US
dc.identifier.issn0367-4223
dc.identifier.issn1439-0345
dc.identifier.issue3en_US
dc.identifier.scopus2-s2.0-85066152843en_US
dc.identifier.scopusqualityQ2en_US
dc.identifier.startpage205en_US
dc.identifier.urihttps://doi.org/10.1007/s10343-019-00466-6
dc.identifier.urihttps://hdl.handle.net/20.500.12491/9915
dc.identifier.volume71en_US
dc.identifier.wosWOS:000482240900007en_US
dc.identifier.wosqualityQ4en_US
dc.indekslendigikaynakWeb of Scienceen_US
dc.indekslendigikaynakScopusen_US
dc.institutionauthorÖzer, Göksel
dc.language.isoenen_US
dc.publisherSpringeren_US
dc.relation.ispartofGesunde Pflanzenen_US
dc.relation.publicationcategoryMakale - Uluslararası Hakemli Dergi - Kurum Öğretim Elemanıen_US
dc.rightsinfo:eu-repo/semantics/closedAccessen_US
dc.subjectCuminen_US
dc.subjectAlternaria Blighten_US
dc.subjectPathogen Detectionen_US
dc.subjectConventional PCRen_US
dc.subjectReal-Time PCRen_US
dc.titleDevelopment of conventional and real-time PCR assays to detect alternaria burnsii in cumin seeden_US
dc.typeArticleen_US

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