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Performance of the melting seawater‐ice elution method on the metabarcoding characterization of benthic protist communities

AuthorsReñé, Albert CSIC ORCID ; Auladell Martin, Adria CSIC ORCID ; Reboul, Guillaume; Moreira, David; López-García, Purificación
Issue DateJun-2020
PublisherSociety for Applied Microbiology
CitationEnvironmental Microbiology Reports 12(3): 314-323 (2020)
AbstractMassive amplicon sequencing approaches to characterize the diversity of microbial eukaryotes in sediments are scarce and controls about the effects introduced by different methods to recover DNA are lacking. In this study, we compare the performance of the melting seawater‐ice elution method on the characterization of benthic protist communities by 18S rRNA gene metabarcoding with results obtained by direct cell lysis and DNA purification from sediments. Even though the most abundant operational taxonomic units were recovered by both methods, eluted samples yielded higher richness than samples undergoing direct lysis. Both treatments allowed recovering the same taxonomic groups, although we observed significant differences in terms of relative abundance for some of them. Dinoflagellata and Ciliophora strongly dominated the community in eluted samples (> 80% reads). In directly lysed samples, they only represented 37%, while groups like Fungi and Ochrophytes were highly represented (> 20% reads respectively). Our results show that the elution process yields a higher protist richness estimation, most likely as a result of the higher sample volume used to recover organisms as compared to commonly used volumes for direct benthic DNA purification. Motile groups, like dinoflagellates and ciliates, are logically more enriched during the elution process
Description10 pages, 4 figures, 2 tables, supporting Information This is the peer reviewed version of the following article: Performance of the melting seawater‐ice elution method on the metabarcoding characterization of benthic protist communities, A, Reñé, A. Auladell, G. Reboul, D. Moreira, P. López‐García, Environmental Microbiology Reports12(3): 314-323 (2020) which has been published in final form at This article may be used for non-commercial purposes in accordance with Wiley Terms and Conditions for Use of Self-Archived Versions
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Identifierse-issn: 1758-2229
Appears in Collections:(ICM) Artículos

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