These protocols describe methods to extract and sequence high molecular weight genomic DNA from the Atlantic salmon (Salmo salar) as an example of fish blood and tissues. We found that samples extracted from blood stored in ethanol at a final concentration of 90% typically generated the highest sequencing output. Further, we observed that shearing the sample could also be used to increase sequencing output at the expense of read N50. In order to obtain maximum sequencing data from the flow cell, we recommend the use of the Flow Cell Wash Kit. Sequencing performance was assessed using the Ligation Sequencing Kit.