The effect of filtration method on the efficiency of environmental DNA capture and quantification via metabarcoding

Molecular Ecology Resources
Jianlong LiBernd Hänfling

Abstract

Environmental DNA (eDNA) is a promising tool for rapid and noninvasive biodiversity monitoring. eDNA density is low in environmental samples, and a capture method, such as filtration, is often required to concentrate eDNA for downstream analyses. In this study, six treatments, with differing filter types and pore sizes for eDNA capture, were compared for their efficiency and accuracy to assess fish community structure with known fish abundance and biomass via eDNA metabarcoding. Our results showed that different filters (with the exception of 20-μm large-pore filters) were broadly consistent in their DNA capture ability. The 0.45-μm filters performed the best in terms of total DNA yield, probability of species detection, repeatability within pond and consistency between ponds. However performance of 0.45-μm filters was only marginally better than for 0.8-μm filters, while filtration time was significantly longer. Given this trade-off, the 0.8-μm filter is the optimal pore size of membrane filter for turbid, eutrophic and high fish density ponds analysed here. The 0.45-μm Sterivex enclosed filters performed reasonably well and are suitable in situations where on-site filtration is required. Finally, prefilters are applied only i...Continue Reading

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Citations

Oct 22, 2019·Molecular Ecology Resources·Girish KumarMichelle R Gaither
Oct 16, 2020·The Science of the Total Environment·Shuping WangJianlong Li
Mar 4, 2021·Molecular Ecology Resources·Alfred BurianMichael Sweet
Sep 6, 2020·The Science of the Total Environment·Sofia DuarteFilipe O Costa

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