New types of DNA sequencers have become available where it should now be possible to directly genotype individual fish, bypassing the analysis previously required for genotyping of microsatellites and SNPs. One of these newer style sequencers (the Ion Torrent Proton) has been obtained by the MGL. Amplicon sequencing will likely radically change the techniques used to genotype individual fish in stock identification applications and the genetic baseline that can be derived from it can provide a foundation for all international and domestic coho salmon fisheries management applications involving stock identification.