A practical evaluation of sampling filtration and preservation of environmental DNA samples for the water column monitoring.

Offshore industry still largely relies on traditional approaches for regulatory compliance to environmental impact on the water column. Implementing environmental DNA (eDNA) workflow can offer several advantages, but early stages such as sampling and conservation of the samples require standardization and simplification before they can be routinely applied in offshore monitoring programs. In this study, we assessed the effect of several filter types (Durapore disc, Sterivex capsule and Wattera high-capacity capsule; all with 0.22 {micro}m pore size) allowing for different volume of filtration used for sampling eDNA. We also evaluated the effect of 25 days conservation of unfiltered water samples with different preservative solutions (Benzalkonium chloride -BAC, Longmires solution LONGI and a modified Longmires solution without SDS, LNoSDS) as a viable option when immediate filtration and cold storage are not possible. For downstream eDNA evaluation of filter types and preservation, we used quantitative digital PCR on selected target DNA and metabarcoding for qualitative assessment of marine prokaryotic and eukaryotic communities. Overall, filter choice had relatively less effects on quantitative and qualitative information from eDNA compared with water preservation. Sterivex and Durapore were better filter choices for biodiversity assessment. While the Wattera filter allowed processing of larger water volumes and improved quantification of metazoan DNA, handling and processing were more challenging. For water conservation, LNoSDS was the best option. Chemical agents of LONGI and BAC may provide favourable substrates for some tolerant bacterial strains, altering the microbial community composition, with consequences for the overall qualitative evaluation of conserved eDNA. For targeted metazoan eDNA, however, chemical preservation showed clear benefits. This research highlights key considerations and viable options for eDNA sampling and simple preservation workflows without cold storage for implementation in offshore water column monitoring. O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=141 SRC="FIGDIR/small/733101v1_ufig1.gif" ALT="Figure 1"> View larger version (50K): org.highwire.dtl.DTLVardef@1ea7112org.highwire.dtl.DTLVardef@a5768dorg.highwire.dtl.DTLVardef@10a2663org.highwire.dtl.DTLVardef@15e5b40_HPS_FORMAT_FIGEXP M_FIG C_FIG HighlightsO_LINeed for standardization of eDNA workflow for offshore water column monitoring C_LIO_LIImportance of eDNA sampling (filters) and eDNA conservation (preservatives) C_LIO_LIFilter choice does not affect drastically the dominant eDNA communities C_LIO_LIConservation outside cold storage challenging for eDNA-based biodiversity evaluation C_LIO_LIViable options: Sterivex filter for sampling; Longmires (no SDS) for conservation C_LI