I'd summarize the science and say that we know that pathogens like PRV and Tenacibaculum are very common on farms; we know they're being transmitted from farms to wild fish; and we're beginning to understand that in some cases—for example, with PRV it's very clear—that they're linked to disease.
In a more recent paper that ranked all of the different pathogens and tried to consider if these pathogens had an impact on coho survival or their bodily condition—so the healthiness of fish—of all the different pathogens we studied, the two that came out on top were Tenacibaculum and PRV, the two pathogens most closely associated with farms.
I think the science is becoming more and more clear that there is an impact, and we can start to investigate this impact on populations.
The second half of your question was about the science review process. My experience, since publishing the paper you mentioned on PRV, is that these findings are not being considered. I see no evidence that these are being used in the science. There haven't been any official science review processes, and there's not much transparency in what happens on the inside.
What I can tell you is that for a virus like PRV, with all of these links to disease that I've described, DFO still does not consider it as a disease agent. So they're making decisions—and sometimes internally—that go against the international consensus on pathogens such as PRV.