I have created two new pages to visually illustrate relationships with various bacteria and various autoimmune conditions.
The bigger the bar on the right, the more autoimmune conditions are associated with this bacteria taxonomy.
The other chart is changing the two columns around.
I have written about Sjögren syndrome in several prior posts.
A reader just got an addition of Sjögren syndrome to their diagnosis, so I checked the literature and added what is reported to http://microbiomeprescription.com/
At the phylum level (highest level), there was a 50% match with the literature. The new profile is shown below.
All of the autoimmune profiles come from different studies, often with different measurement methods. The profiles are the best current knowledge but are far from being definitive. The current list are:
ADHD – Attention-deficit syndrome
Alzheimer’s Disease
Autism
Autoimmune Disease
Brain Injury
Chronic Fatigue Syndrome
Diabetes Type 2
Crohn’s Disease
Depression
Fibromyalgia
Gout (Arthritis)
Hashimoto’s thyroiditis
High Blood Pressure
Histamine Issues
Inflammatory Bowel Disease
Irritable Bowel Syndrome
Metabolic Syndrome
Mood Disorders
Rheumatoid arthritis
Schizophrenia
Sjogren’s Syndrome
Systemic Lupus Erythematosus
Ulcerative colitis
This is an education post to facilitate discussing this approach with your medical professionals. It is not medical advice for the treatment of any medical condition. Always consult with your medical professional before doing any changes of diet, supplements or activity. Some items cites may interfere with prescription medicines.
This is post M, that is #1000 post on this blog. In it I will attempt to answer Nick’s comment on Thick Blood, Clots dimension of CFS etc
Nick:
I assume the minimum list are still tests rarely done? It’s interesting reading, especially as my wife’s head symptoms are getting worse, I’m wondering if there’s a blood flow issue and wonder how I could test the theory safely?
First thing, by medical standards, this can only be answered by a hematologist that is willing to do a full comprehensive panel, and an insurance company willing to pay for it.
I recall literature stating that they estimate that only 80-90% of the thick blood issues can be identified by lab tests. My own defect, Factor II or Prothrombin G20210A was only discovered in the 1990’s despite
This diagram shows the cascade — if there is an issue at any one point, then thick blood can occur because of this bottleneck.
Cave Lector, hoc est, ad disputationem de tua professio medicinae tantum.
This is actually one that may be a challenge to test by lab results. The fibrin deposits may have happened due to past events — the results are still there (in theory being slowly dissolved usually) but the cause is no longer there.
Recently I was on antibiotics and used fibrin dissolvers (fibrinolytics) to improve the flow of antibiotics into tissue. I gave my physician the notes below — she was very interested and did not raise any objections to my using them. She was also honest: she was unfamiliar with them and could not give guidance. Notes in blue are precisely what I shared with her.
4000 FU x 4/day
“ a nattokinase/fibrinolytic enzyme and this enzyme may be considered as a new source for thrombolytic agents.” [2011] https://www.ncbi.nlm.nih.gov/pubmed/?term=Nattokinease+fibrinolytics
80 mg x 4/day
“The six lumbrokinase fractions (F1 to F6) with fibrinolytic activities were purified from ..“ [2004] https://www.ncbi.nlm.nih.gov/pubmed/15469696
240,000 SPU’s x 4/day
“ reports suggest it to possess anti-atherosclerotic effects also, due to its fibrinolytic and caseinolytic properties.” [2013] https://www.ncbi.nlm.nih.gov/pubmed/23380245
“concentration of antibiotic in tissue increased by
[1980] https://www.ncbi.nlm.nih.gov/pubmed/7001087?dopt=Abstract
1200 GDU x 4/day
“ studies demonstrate that bromelain exhibits various fibrinolytic, antiedematous, antithrombotic, and anti-inflammatory activities. “ [2012] https://www.ncbi.nlm.nih.gov/pubmed/23304525
*Bromelain has been demonstrated to enhance the potentiation of antibiotics (Altern. Med. Rev. 1998;3:302–5)
“[A PLANT PROTEASE FOR POTENTIATION AND FOR POSSIBLE SUBSTITUTION OF ANTIBIOTICS].” 1965, https://www.ncbi.nlm.nih.gov/pubmed/14295046
Also:
This reckless experiment was how I got my family practice MD to order coagulation tests from Hemex Labs (sold to a larger firm since) and got to know the director there well, Dave Berg.
I looked at a regular aspirin bottle and what the maximum dosage it listed. I did that every day up to the maximum number of days. Logic was simple — unless there are complicating factors (like ulcers), it was generally deemed to be safe.
On Drugs.com it states: 3g- 4g /day depending on condition, for example for a child:
The usual full strength aspirin is 325 mg… so we have 12 tablets/day
Around day 7, I was starting to run up and down the walls! The MD was persuaded of the coagulation dimension to CFS.
Once I demonstrated the hypothesis and switched to grape seed extract. IMHO, keeping on aspirin had too many other risks if taken continuously. See WebMD for more background on grape seed extract.
I have taken this (in fact, I have a kilogram of piracetam on the shelf!!) and take it whenever I sense any cognitive issues (lack of concentration, slowness of thought). I recall trying to tutor a daughter (with coagulation defects) on math and she was unable to correctly add up columns of integers. She took two tablets of piracetam and in about 20 minutes, she could not only add up the integers correctly, but also quickly grasp algebra content that was part of her homework.
It’s coagulation impact is described in this 1993 pubmed article
You will recognized a lot of terms from earlier parts of this post.
This definitely has the best safety profile. This drug is not on the pharmacy lists in the UK, Canada or US, your medical professional may be at a loss to know how to interpret and significant improvement caused by it.
Curcumin is an extract from Turmeric.
“Data showed that curcumin and BDMC(curcumin extract) prolonged aPTT and PT significantly and inhibited thrombin and FXa activities. They inhibited the generation of thrombin or FXa. In accordance with these anticoagulant activities, curcumin and BDMC showed anticoagulant effect in vivo. Surprisingly, these anticoagulant effects of curcumin were better than those of BDMC indicating that methoxy group in curcumin positively regulated anticoagulant function of curcumin. Therefore, these results suggest that curcumin and BDMC possess antithrombotic activities and daily consumption of the curry spice turmeric might help maintain anticoagulant status.” [2012]
Again, we are talking dosage of 8 – 16 gm/day of turmeric for therapeutic impact.
Another relative safe way to test. This article found that extracts performed less well than the original. I have seen the same reported elsewhere and thus prefer the original instead of extracts usually!.
Above are sharing of my experiences. I recall from conversations with Dave Berg that some coagulation defects are very hard to treat.
For more information, see these conversations with Dave Berg:
Usual Disclaimer:
This is an education post to facilitate discussing this approach with your medical professionals. It is not medical advice for the treatment of any medical condition. Always consult with your medical professional before doing any changes of diet, supplements or activity. Some items cites may interfere with prescription medicines.
A reader on her 2nd ubiome result had significant improvement but is also on a very restrictive diet due to severe histamine sensitivities. She asked for me to extract a probiotic centric set of suggestions. The site for upload of ubiome data and analysis is: http://microbiomeprescription.com/
| Sample Id | Earlier | Later |
|---|---|---|
| * All Profiles | 198 | 171 |
| * All Profiles HIGH | 34 | 38 |
| * All Profiles LOW | 164 | 133 |
| * Metabolism Average | 1.02669902912621 | 1.00242718446602 |
| * Metabolism Std Dev | 0.465175253395532 | 0.226425618741316 |
The recommendations despite the high 171 score for all autoimmune profiles was very small.
I have added another choices to filter by prebiotics and probiotics only.
The process becomes one of accepting less confidence. Remember — Confidence value reflects the number of studies finding a relationship, NOT how well it does it.
Our first step is
Restricting to autoimmune takes a few items off the list, but not many.
Trying just high counts and just low counts — we see most of the recommendations come from low counts. High counts are just a few items as shown below.
Turning off aggregation, the list became longer and more detail — for example, citing specific strains.
If there are severe food restrictions, then the latest revision of Suggestions allows you to focus on prebiotics and probiotics exclusively.
In the case of this reader, the reader went to CustomProbiotics (covered in this post) and ordered:
This reader had done this before and found that a single bottle of each lasted about 3 months and then does a new ubiome. Only L. Rhamnosus Powder is in common with the prior order.
Confession: I found a bug in suggestions.
This has been fixed.
This is an education post to facilitate discussing this approach with your medical professionals. It is not medical advice for the treatment of any medical condition. Always consult with your medical professional before doing any changes of diet, supplements or activity. Some items cites may interfere with prescription medicines.
A read wrote:
“Hi Ken. Not been too good recently, I was taking psyllium husk for extra dietary fibre, and I ended up with a symptom flare up, but strange eye symptoms as well.
Had eye checked, immediately sent to hospital because of a cotton wool spot in right eye. Been put on aspirin assumption it was clot based.
Anyway, it reminded me of some 11 years ago when I was trying aspirin and I tried ramping up the dose to 300mg, I had a real bad flare up in symptoms. What microbiome components could react like that?
Also, there’s still some trains of thoughts that imply chlamydia pneumoniae is a possible element of the illness in a subset of patients. We know aspirin can be effective against CPN. Can CPN exist in the gut or is it upper respiratory drainage upsetting the gut?
Could make an interesting post or two:-)”
So we have two causes of flares:
No studies could be found for psyllium seed husk impact alone. We do find that it is high in arabinoxylan.
Going to known impacts of those two, we got the table below (at family level)
| Taxonomy | Rank | Aspirin | Arabinoxylan |
| Bacillaceae | family | Increases | – |
| Bacteroidaceae | family | Decreases | Increases |
| Bifidobacteriaceae | family | Decreases | Increases |
| Clostridiaceae | family | Decreases | Increases |
| Coriobacteriaceae | family | Decreases | – |
| Desulfovibrionaceae | family | Decreases | – |
| Enterobacteriaceae | family | Decreases | – |
| Eubacteriaceae | family | Decreases | Increases |
| Fusobacteriaceae | family | Decreases | Decreases |
| Lachnospiraceae | family | Decreases | Increases |
| Lactobacillaceae | family | – | Increases |
| Peptostreptococcaceae | family | Decreases | – |
| Porphyromonadaceae | family | Decreases | – |
| Prevotellaceae | family | Increases | – |
| Ruminococcaceae | family | Increases | Increases |
| Streptococcaceae | family | Decreases | – |
| Veillonellaceae | family | Decreases | – |
| Verrucomicrobiaceae | family | Decreases | Increases |
At the family level Ruminococcaceae deviation is found in 4 autoimmune profiles but all of them were low When we drop down to the genus level
Unfortunately, aspirin does not impact either of these and Faecalibacterium is increased by Arabinoxylan.
It looks like reaction from two items is insufficient to infer what bacteria are involved, especially when the items have opposite type of effects across a lot of bacteria.
CFS Remission 