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dc.contributor.authorFadeev, Eduard
dc.contributor.authorCardozo-Mino, Magda G.
dc.contributor.authorRapp, Josephine Z.
dc.contributor.authorBienhold, Christina
dc.contributor.authorSalter, Ian
dc.contributor.authorSalman-Carvalho, Verena
dc.contributor.authorMolari, Massimiliano
dc.contributor.authorTegetmeyer, Halina E.
dc.contributor.authorButtigieg, Pier Luigi
dc.contributor.authorBoetius, Antje
dc.coverage.spatialArctic Oceanen_US
dc.date.accessioned2021-08-02T14:29:55Z
dc.date.available2021-08-02T14:29:55Z
dc.date.issued2021
dc.identifier.citationFadeev, E., Cardozo-Mino, M.G., Rapp, J.Z., Bienhold, C., Salter, I., Salman-Carvalho, V., Molari, M., Tegetmeyer, H.E., Buttigieg, P.L. and Boetius, A. (2021) Comparison of Two 16S rRNA Primers (V3–V4 and V4–V5) for Studies of Arctic Microbial Communities. Frontiers in Microbiology, 12:637526, 11pp. DOI: 10.3389/fmicb.2021.637526en_US
dc.identifier.urihttps://repository.oceanbestpractices.org/handle/11329/1642
dc.identifier.urihttp://dx.doi.org/10.25607/OBP-1574
dc.description.abstractMicrobial communities of the Arctic Ocean are poorly characterized in comparison to other aquatic environments as to their horizontal, vertical, and temporal turnover. Yet, recent studies showed that the Arctic marine ecosystem harbors unique microbial community members that are adapted to harsh environmental conditions, such as near-freezing temperatures and extreme seasonality. The gene for the small ribosomal subunit (16S rRNA) is commonly used to study the taxonomic composition of microbial communities in their natural environment. Several primer sets for this marker gene have been extensively tested across various sample sets, but these typically originated from low-latitude environments. An explicit evaluation of primer-set performances in representing the microbial communities of the Arctic Ocean is currently lacking. To select a suitable primer set for studying microbiomes of various Arctic marine habitats (sea ice, surface water, marine snow, deep ocean basin, and deep-sea sediment), we have conducted a performance comparison between two widely used primer sets, targeting different hypervariable regions of the 16S rRNA gene (V3–V4 and V4– V5). We observed that both primer sets were highly similar in representing the total microbial community composition down to genus rank, which was also confirmed independently by subgroup-specific catalyzed reporter deposition-fluorescence in situ hybridization (CARD-FISH) counts. Each primer set revealed higher internal diversity within certain bacterial taxonomic groups (e.g., the class Bacteroidia by V3–V4, and the phylum Planctomycetes by V4–V5). However, the V4–V5 primer set provides concurrent coverage of the archaeal domain, a relevant component comprising 10–20% of the community in Arctic deep waters and the sediment. Although both primer sets perform similarly, we suggest the use of the V4–V5 primer set for the integration of both bacterial and archaeal community dynamics in the Arctic marine environment.en_US
dc.language.isoenen_US
dc.rightsAttribution 4.0*
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/*
dc.subject.otherMicrobial communitiesen_US
dc.subject.otherAmplicon sequencingen_US
dc.subject.otherUniversal primersen_US
dc.subject.otherMethod comparisonen_US
dc.subject.otherMolecular observatoryen_US
dc.subject.otherRibosomal RNA (rRNA)
dc.titleComparison of Two 16S rRNA Primers (V3–V4 and V4–V5) for Studies of Arctic Microbial.en_US
dc.typeJournal Contributionen_US
dc.description.refereedRefereeden_US
dc.format.pagerange11pp.en_US
dc.identifier.doi10.3389/fmicb.2021.637526
dc.subject.parameterDisciplineOther biological measurementsen_US
dc.bibliographicCitation.titleFrontiers in Microbiologyen_US
dc.bibliographicCitation.volume12en_US
dc.bibliographicCitation.issueArticle 637526en_US
dc.description.sdg14.aen_US
dc.description.eovMicrobe biomass and diversityen_US
dc.description.methodologyTypeMethoden_US
dc.description.methodologyTypeSpecification of criteriaen_US
dc.description.methodologyTypeReports with methodological relevanceen_US
obps.contact.contactnameEduard Fadeev
obps.contact.contactemaildr.eduard.fadeev@gmail.com
obps.resourceurl.publisherhttps://www.frontiersin.org/articles/10.3389/fmicb.2021.637526/


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Attribution 4.0
Except where otherwise noted, this item's license is described as Attribution 4.0