Is next generation sequencing an alternative to cultivation-based methods for investigating fungal diversity in indoor air samples?

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dc.authoridASAN, Ahmet/0000-0002-4132-3848;
dc.authorwosidONURDAG, Fatma KAYNAK/T-2518-2017
dc.authorwosidÖkten, Suzan/HJH-6316-2023
dc.authorwosidASAN, Ahmet/AAG-4792-2019
dc.authorwosidOkten, Suzan/HGV-1334-2022
dc.contributor.authorOkten, Suzan
dc.contributor.authorSen, Burhan
dc.contributor.authorOnurdag, Fatma Kaynak
dc.contributor.authorKolukirik, Mustafa
dc.contributor.authorAsan, Ahmet
dc.date.accessioned2024-06-12T11:02:21Z
dc.date.available2024-06-12T11:02:21Z
dc.date.issued2020
dc.departmentTrakya Üniversitesien_US
dc.description.abstractThe direct effect of fungi on human health makes the fungal diversity in the air an important and necessary subject for examination. Studies that determine fungal diversity generally depends on culture methods. Developed culture-independent methods eliminate many disadvantages of existing culture-dependent methods. In our study, duplicate air samples were collected on 5 different days at a Microbiology Research Laboratory to compare these methods. Samples were collected in 3 different groups: (A) culture method and ITS-targeted Sanger DNA sequencing with 100 L samples, (B) culture method and ITS-targeted Sanger DNA sequencing with 1000 L samples, (C) filter method and next generation sequencing with 1000 L air sample. The Groups A, B and C defines culture, isolation and SANGER DNA-based methods, culture and next generation sequencing methods and directly next generation sequencing methods, respectively. Method-A failed to represent real fungal diversity. Method-B did represent the diversity but did not truly represent relative abundance of the species. Method-C can be completed in 2 days whereas Method-A and B can be completed in 2 weeks and 1 week, respectively. In conclusion, we recommend direct DNA isolation which is followed by ITS-targeted NGS in order to study fungal diversity in indoor air environments.en_US
dc.description.sponsorshipTrakya University [2015/66]en_US
dc.description.sponsorshipThis study was conducted by 2015/66 coded Trakya University Scientific Research Project.en_US
dc.identifier.doi10.1007/s10453-020-09642-y
dc.identifier.endpage440en_US
dc.identifier.issn0393-5965
dc.identifier.issn1573-3025
dc.identifier.issue3en_US
dc.identifier.scopus2-s2.0-85083976033en_US
dc.identifier.scopusqualityQ2en_US
dc.identifier.startpage433en_US
dc.identifier.urihttps://doi.org/10.1007/s10453-020-09642-y
dc.identifier.urihttps://hdl.handle.net/20.500.14551/21252
dc.identifier.volume36en_US
dc.identifier.wosWOS:000529859600001en_US
dc.identifier.wosqualityQ3en_US
dc.indekslendigikaynakWeb of Scienceen_US
dc.indekslendigikaynakScopusen_US
dc.language.isoenen_US
dc.publisherSpringeren_US
dc.relation.ispartofAerobiologiaen_US
dc.relation.publicationcategoryMakale - Uluslararası Hakemli Dergi - Kurum Öğretim Elemanıen_US
dc.rightsinfo:eu-repo/semantics/closedAccessen_US
dc.subjectFungal Diversityen_US
dc.subjectIndoor Airen_US
dc.subjectNGSen_US
dc.subjectITSen_US
dc.titleIs next generation sequencing an alternative to cultivation-based methods for investigating fungal diversity in indoor air samples?en_US
dc.typeArticleen_US

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