Data from: New environmental metabarcodes for analysing soil DNA: potential for studying past and present ecosystems ...

Metabarcoding approaches use total and typically degraded DNA from environmental samples to analyse biotic assemblages and can potentially be carried out for any kinds of organisms in an ecosystem. These analyses rely on specific markers, here called metabarcodes, which should be optimized for taxon...

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Bibliographic Details
Main Authors: Epp, Laura S., Boessenkool, Sanne, Bellemain, Eva P., Haile, James, Esposito, Alfonso, Riaz, Tiayyba, Erséus, Christer, Gusarov, Vladimir I., Edwards, Mary E., Johnsen, Arild, Stenøien, Hans K., Hassel, Kristian, Kauserud, Håvard, Yoccoz, Nigel G., Bråthen, Kari Anne, Willerslev, Eske, Taberlet, Pierre, Coissac, Eric, Brochmann, Christian
Format: Dataset
Language:English
Published: Dryad 2012
Subjects:
Enchytraeidae
Bryophyta
primers
Holocene
Norway
Yar
Northern Norway
Varanger
Online Access:https://dx.doi.org/10.5061/dryad.37s6bb42
https://datadryad.org/stash/dataset/doi:10.5061/dryad.37s6bb42
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Summary:Metabarcoding approaches use total and typically degraded DNA from environmental samples to analyse biotic assemblages and can potentially be carried out for any kinds of organisms in an ecosystem. These analyses rely on specific markers, here called metabarcodes, which should be optimized for taxonomic resolution, minimal bias in amplification of the target organism group and short sequence length. Using bioinformatic tools, we developed metabarcodes for several groups of organisms: fungi, bryophytes, enchytraeids, beetles and birds. The ability of these metabarcodes to amplify the target groups was systematically evaluated by (1) in silico PCRs using all standard sequences in the EMBL public database as templates, (2) in vitro PCRs of DNA extracts from surface soil samples from a site in Varanger, northern Norway, and (3) in vitro PCRs of DNA extracts from permanently frozen sediment samples of late-Pleistocene age (~ 16 000–50 000 yr BP) from two Siberian sites, Duvanny Yar and Main River. Comparison of ... : Epp_etal_metabarcodes_dryadThis file contains all consensus sequences retrieved from clones of environmental samples and referred to in Table S6 of the Supplementary material. ...

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