16S rRNA sequencing of microbial communities in and around post-slaugtered farmed Atlantic salmon
Samples were taken from the digestive system of farmed Atlantic salmon straight after slaughter.  Skin mucus and liquid and mucus from the abdominal cavity was sampled from another 17 salmon, taken of the processing line just before the final cleaning stage, over a 7 days period during cold storage. Ice from the storage boxes was also sampled during this period. DNA was extracted from all samples using Qiagen kits appropriate for the various sample types. Library preparation was done largely according to the Illumina "16S Metagenomic Sequencing Library Preparation" document. The final library was loaded on a MiSeq instrument for sequencing.