The laboratory protocol for metabarcoding of soft sediment macrobenthos of the North Sea includes guidelines to prevent contamination and step-by-step information to conduct blending, extraction, PCR, clean-up, index PCR, and pooling of indexes products.
Protocol for DNA-based sampling of macrobenthos in soft sediments
The following protocol is based on experience by several partners of the GEANS soft sediment pilot (ILVO, Naturalis, Senckenberg, Aarhus University) in several sampling campaigns. The samples obtained using this protocol were successfully analyzed in the lab for different studies optimizing the DNA metabarcoding lab protocol (Derycke et al. 2021; Van den Bulcke et al. 2021; Van den Bulcke et al. 2023) and for the GEANS pilot project comparing bulk DNA with morphological identifications (https://www.geans.eu/outreach/fact-sheets).
Citation: GEANS, 2023. Protocol for DNA-based sampling of macrobenthos in soft sediments.https://www.geans.eu/sites/geans.eu/files/managed/Protocol%20for%20DNA-based%20sampling%20of%20macrobenthos%20in%20soft%20sediments.pdf
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Laboratory protocol for DNA metabarcoding of soft sediment macrobenthos from the North Sea
The protocol below uses organismal DNA and is based on results of two pilot tests conducted by ILVO with macrobenthos from field samples from the Belgian part of the North Sea that were first morphologically identified.
Citation: GEANS, 2021. Laboratory protocol for DNA metabarcoding of soft sediment macrobenthos from the North Sea.https://www.geans.eu/sites/geans.eu/files/managed/laboratory-protocol-for-dna-metabarcoding-of-soft-sediment-macrobenthos-from-the-north-sea.pdf
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