V3-V4 16S rRNA gene sequencing of gut microbiota of Oncorhynchus tshawytscha
V3-V4 16S rRNA amplicons produced from DNA extracted from intestinal epithelium and content of farmed Chinook salmon, seawater and feed samples, the RNAlater, molecular water (the no-template control NTC), and genomic DNA from the mock microbial community HM-782D were indexed in duplicate (with two distinct dual index pairs) for each sample (Rep1 and Rep2) to assess intra-run variability. Resulting library was sequenced in two separate 600-cycle 65-hour runs (Run1 and Run2) on two different Illumina MiSeq instruments with v3 reagents to produce 2 x 300 bp reads to assess run-to-run variability.