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Data from: Treated like dirt: Robust forensic and ecological inferences from soil eDNA after challenging sample storage

Citation

Frøslev, Tobias Guldberg et al. (2022), Data from: Treated like dirt: Robust forensic and ecological inferences from soil eDNA after challenging sample storage, Dryad, Dataset, https://doi.org/10.5061/dryad.k0p2ngfbs

Abstract

We investigated the effect of storage duration and conditions on the assessment of the soil biota with eDNA metabarcoding. We extracted eDNA from freshly collected soil samples and again from the same samples after storage under contrasting temperature conditions and contrasting exposure (open/closed tubes). We used four different primer sets targeting bacteria, fungi, protists (cercozoans), and general eukaryotes. We quantified differences in richness, evenness, and community composition. Subsequently, we tested whether we could correctly infer habitat type and original sample identity after storage using a large reference dataset.

This repository contains the un-demultiplexed fastq sequences.

Methods

A soil sample was split into 108 smaller samples, that were stored in different ways (temperature, exposure and time). Biodiversity changes were assessed with metabarcoding using 4 different markers.

This repository contains the paired end Illumina MiSeg fastq data for all amplicons in the study.

Usage Notes

Information for reproducing the analyses is given in the GitHub repository (https://github.com/tobiasgf/sample_storage) and in the article.

The data should ideally be analysed with dada2.

The demultiplexed samplewise paired reads are deposited in ENA/SRA under the project number: PRJEB56039 (https://www.ebi.ac.uk/ena/browser/view/PRJEB56039).

Funding

Innovation Fund Denmark, Award: 6151-00002B

Aage V. Jensens Fonde