Another reader asked me to review and provide comments for their CFS MD (who is also well known in the community). As always, these are suggestions based on my model and my own experience and intended to be review by a knowledgeable professional before implementing.
What’s interesting is that my sickness started with IBD and a Chron’s diagnosis, but both were later deemed false after tons of testing. Around 2003 I lost 40 pounds and couldn’t eat anything without diarrhea and extreme pain and nausea. But all of my gastro symptoms were healed by diet, some short rounds of antibiotics and pancreatic enzymes. I haven’t had GI complaints in ages, almost eight years now of almost perfect GI health. Every other symptom has been on a gradual decline leaving me pretty disabled, especially in the brain functioning area.”
I know people who had a CFS diagnosis, treatment and then ended up with “atypical Crohn’s Disease”, complete with fistulas. My belief is that we are talking often about a microbiome dysfunction that evolves over time with the population in the gut determining symptoms, etc. The symptoms are likely determined by the specific strains of species which is well beyond current medical knowledge — but with further improvements of microbiome testing and Big Data analysis could be realized within 10 years if well funded. Ten years is tooooo long to wait for me (and others), so we have to go back to old school approach and infer and do the best that we can given limited knowledge and even more limited treatment options.
- Lab: Doctor’s Data (same lab as the prior review)
- Expected/Beneficial flora
- 4+ Bacteroides fragilis group
- 3+ Bifidobacterium spp.
- 3+ Escherichia coli
- 1+ Lactobacillus spp.
- 1+ Enterococcus spp.
- 3+ Clostridium spp.
- Commensal Flora
- 1+ Alpha hemolytic strep
- Normal flora
- 1+ Geotrichum spp (a fungi)
- Secretory IgA – borderline low
This is not the typical CFS shift.
Our own friend after antibiotics: Clostridum
This seems to be best ascribed as a side-effect of antibiotics. First thought is Prescript Assist (no studies, but some MD’s appear to believe it helps). There are no clear results on the effectiveness “the authors of this study chose to omit any trials involving the use of probiotics for the prevention or treatment of CDI.” Other choices are:
- Use of Bacillus subtilis PXN21 Spores for Suppression of Clostridium difficile Infection Symptoms in a Murine Model.
- Baker’s yeast ( Saccharomyces boulardii) 
This species has been associated with neurological changes:
- Microbiota modulate behavioral and physiological abnormalities associated with neurodevelopmental disorders. 
- Toward effective probiotics for autism and other neurodevelopmental disorders. 
Bifidobacterium longum BB536 appears to reduce the bad ones, this is the species available in Japan.
- Effect of the oral intake of yogurt containing Bifidobacterium longum BB536 on the cell numbers of enterotoxigenic Bacteroides fragilis in microbiota. 
In terms of herbs:
- Anti-Bacteroides fragilis substance from rhubarb.
- Cinnamomum cassia (Blume) 
- Antimicrobial activities of clove and thyme extracts.  – some impact, but not much
- Avoid Echinacea purpurea (encourages) Echinacea purpurea supplementation stimulates select groups of human gastrointestinal tract microbiota. 
Suggestion based on my own experience with Cognitive Issues
When I was starting to suffer loss of cognitive issues, I hit the fibrinolytic and anti-hypercoagulation supplements hard, and that kept me working for several months. When I stopped them, the cognitive collapse was quick and severe. I stopped because I was starting to bruise very easily. My belief is that the coagulation was cause by gut bacteria. I seem totally free of coagulation issue today.
During the recovery, there was a dramatic improvement over two weeks of cognitive issues from taking Haritaki, Neem and Tulsi. One of the studies I found indicated that some of these was used by traditional Indian medicine men (tribals) for cognitive issues with their patients — so I speculate that it is effective against some of the bacteria causing cognitive issues.
I’m going to run on the herb – cognitive issue tangent here.
- History and experience: a survey of traditional chinese medicine treatment for Alzheimer’s disease. 2014
- Lycium barbarum polysaccharides prevent memory and neurogenesis impairments in scopolamine-treated rats. 
- “Neem may have some neuronal protective effect.”
My general impression is that the following herbs should be tried (one per week, working up to 6 “00” capsules per day if tolerated), noting any cognitive or mode changes from each (if you have a significant other — ask them to record their observations and not report to you until you are done.
- Magnolia Bark
All of them appear to impact bacteria that alter mode or cognitive functions. I have noticed that some probiotics can also alter mood on occasion — however, since we are dealing with overgrowth — I believe the use of herbs may be a wiser course.
Once the cycle has been done — you may wish to cycle with the ones that had the most desired impact.
As always, review with your medical professionals, take detail notes, and best wishes on whatever experiments you proceed with.