in the end it tends to be hard to know what to make of finding enterovirus particularly in gut.
I think a gut enterovirus infection could easily explain ME/CFS symptoms, by the following mechanism:
As you undoubtedly know, the sickness behavior state, which is induced by the inflammatory cytokines IL-1β, TNF-α and IL-6, has symptoms very similar to those of ME/CFS, and it has been proposed that ME/CFS may simply be a chronically maintained state of sickness behavior (at least in part).
We know from Jonathan Kerr's work (see my post
here) on parvovirus B19-triggered ME/CFS symptoms that parvovirus infection induces these exact three inflammatory cytokines in the body. So that's good indication that the IL-1β, TNF-α and IL-6 may play a causal role in precipitating ME/CFS symptoms.
So this is interesting, because we have both an explanatory
theory (the sickness behavior mechanism) and
empirical evidence (Kerr's studies on parvovirus) that IL-1β, TNF-α and IL-6 may be may causing ME/CFS.
And when I checked myself on PubMed, I found that one commonality of nearly all ME/CFS-associated pathogens was the fact they all induce these particular three cytokines. Not all pathogens do this. So that is further evidence of the involvement of these cytokines in ME/CFS.
So what is so special about an enterovirus infection in the stomach? Well, the vagus nerve, which is the nerve that triggers sickness behavior when it detects the cytokine IL-1β, innervates much of the stomach. Thus, if even this low-level "smoldering" enterovirus infection of the stomach is only chronically producing small amounts of IL-1β, the close proximity of this infection to the vagus nerve may cause a significant and chronic triggering of sickness behavior.
So here you have a nice theory of how an enterovirus infection of the stomach may cause ME/CFS.
The above theory is just a variation of Michael VanElzakker vagus nerve infection / sickness behavior theory of ME/CFS.