Mussels collected from sites 3 and 4 were chosen for 18S rDNA metabarcoding analysis due to the opposite characteristics of their habitats of origin. Individuals analyzed from site 3 were designated as MF (Mussel Farm) and from site 4 as WT. Nucleic acids were extracted from gut samples using PureLink microbiome DNA Purification kit (Invitrogen, Waltham, MA, USA) according to the manufacturer´s instructions. DNA concentration and purity were analyzed with an Infinite® 200 PRO Nanoquant (Tecan Group Ltd., Männedorf, Switzerland), Qubit 3.0 (Thermo Scientific, Waltham, MA, USA), and a Bioanalyzer Instrument (Agilent Technologies, Santa Clara, CA, USA) with GQN ≥7.
Sequencing was performed on Illumina Miseq (Illumina, San Diego, CA, USA) using Nextera XT v3 600 cycle kit at Fraunhofer Foundation (Santiago, Chile). Samples were amplified by dual-indexing Illumina fusion primers that targeted the 18S rDNA V4 region for eukaryotes [58 (link)]. The manufacturer’s recommended protocol was used to perform the sequencing reaction on Illumina Miseq platform. Sequence reads data were archived at NCBI Sequence Read Archive (SRA) with the BioProject number: PRJNA762938.
Sequencing was performed on Illumina Miseq (Illumina, San Diego, CA, USA) using Nextera XT v3 600 cycle kit at Fraunhofer Foundation (Santiago, Chile). Samples were amplified by dual-indexing Illumina fusion primers that targeted the 18S rDNA V4 region for eukaryotes [58 (link)]. The manufacturer’s recommended protocol was used to perform the sequencing reaction on Illumina Miseq platform. Sequence reads data were archived at NCBI Sequence Read Archive (SRA) with the BioProject number: PRJNA762938.
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