lassesen 1:17 am on February 12, 2018

Kegg Pathway – Metabolism and Microbiome

I have just created a new set of pages to allow people who have done uBiome to share the metabolism information that is also provided there. I put my own and a friend’s thru and was struck by the differences. Almost all of mine was sitting at .95 – 1.05 of normal. Many of her’s were sitting at 0.03, 0.05 of normal.

Short Explanation

Bacteria have a large number of interactions and behaviors. There is a site where this information has been gathered, KEGG PATHWAY Database. uBiome has used this site with your bacteria sample to predict/estimate how well various pathways are working with your current bacteria mixture.

You will find this information under [Advance] on your uBiome page

A video

For more videos, go to this page.

Bottom Line

Adding metabolites WITH symptoms may help discover association between chemical sensitivity and the metabolic functioning, etc. We need uBiomes, symptoms and metabolites to obtain a rich set of data to identify symptoms to both bacteria and to metabolites (i.e. hints to the specific supplements that may help you!)

I have also stubbed out a symptoms to metabolite explorer page.

GENDER AND AGE Has Been Added to Symptoms

If you have entered symptoms, please update it with your gender and age.

Lauren 2:08 am on February 12, 2018

Is ubiome the best test to get even if I already have bioscreen and want to compare for consistency?
- lassesen 2:47 pm on February 12, 2018
  
  It is the one with the most information, available world-wide, at a reasonable out of pocket cost.
  
  Hence, it is the one that I tend to focus on.
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Tom 12:32 am on February 21, 2018

Hi Ken,
It seems I don’t have the expected data on the “Advanced” page on uBiome site. Only download options. Am I missing something?
- lassesen 4:17 am on February 21, 2018
  
  Try pressing F5 or logging off and on.
  
  They use Javascript frameworks and sometimes they do no render.
  
  Worst case, send me your login and I will see if I can find them.
Garz 2:25 pm on April 26, 2018

Ken, you mention your wife also suffered CFS. My Fiance and I both became ill with a CFS like illness at the same time, so this resonates with me.
I can certainly identify with how hard that can be to manage when you are both ill in this way.
I also have a question, I’m not sure if you have posted about it already but, wouldn’t it be unusual for 2 people to get gut dysbiosis at the same time?
Or did you reach any conclusion about what caused you and your wife’s gut to go into dysbiosis at the same time when it is supposed to be relatively rare in the general population?
I am just interested in the similarities and trying to sanity check the approach to make sure I understand the thoughts and assumptions behind it properly.

My appreciation and admiration for your efforts to try to figure this stuff out.
- lassesen 11:39 pm on April 26, 2018
  
  The answer depends on the triggering event — for example, both under stress. A much better example is the Gardia outbreak in Norway.
  https://universityhealthnews.com/daily/energy/giardia-parasite-symptoms-extreme-fatigue-and-more/
  In which cases, a percentage of couples getting it both at the same time is probable.
Garz 2:35 pm on April 28, 2018

Thanks for the response.
So, to clarify, in your case you believe there was a common triggering event that led to the dysbiosis in both your wife and yourself (perhaps combined with already being in a vulnerable state due to stress).
And you think that triggering even in your case was most likely an infection, perhaps with a parasite or similar organism?

would you mind sharing a few more details?

did you and your wife suffer sudden onset or gradual?
did you have any infection symptoms at the onset – fever, chills, vomiting, diarrhea, sore throat, swollen lymph nodes etc?
did anyone else you know suffer similar symptoms at the time or ‘contract’ CFS since?
- lassesen 7:50 pm on April 28, 2018
  
  For myself it was sudden. For the wife it was gradual onset with Irritable Bowel syndrome and acid reflex for years before the onset… With my diagnosis, the MD look at my wife and found that she technically matched the clinical definition for CFS — but far milder than I with severe sudden onset.
  
  So, my kissing her for many years may have seeded some of her bacteria in me, which with my being under stress — seized the opportunity to get out of control..
Garz 9:14 am on April 29, 2018

Interesting – thanks for sharing.
I will share a little of my and my partners own circumstances also:

A previously a fit, active couple, 44 and 45 years old, both in excellent health and working full time in high functioning positions. We were v rarely ill, ate well, exercised regularly and dealt with stress well.
Then around late summer 2014 we started to feel run down, tired and irritable. We thought perhaps our diet could be improved so we reduced sugars, processed food and snacks and ate more fruit and vegetables. This did not seem to help and we continued to feel more fatigue, stressed and run down. Over the next few months we then started to experience a list of odd, seemingly unconnected illnesses and unusual symptoms:
My partner had sudden Extreme joint pain in her shoulder and loss of use of 1st one arm then the other. An MRI showed no obvious cause – acute for around 4 weeks – then only partially resolved. Kidney infection, ear infections (both), fungal infections, increasing fatigue (both), whole body aches (both), GI upset (both), sleep issues.
Then in early 2015 our symptoms seemed to suddenly worsen, both at the same time; we were away in the Lake district on holiday at the time, suddenly experienced overwhelming fatigue (to the point where every daily task became a big challenge), whole body aches (both), joint pain (both), joint swelling with unusual mottled skin discolouration(both), sensitivity to noise and light(both), disorientation, pain around the eyes(both), head/neck ache(both) , skin rashes, sores/canker on scalp (both), gum disease (both), GI symptoms (bloating, churning, wind, constipation alternating with diarrhoea/soft stools)( Both) and weight loss . We both also started getting dizzy when standing up suddenly and my partner even passed out several times. Along with the physical symptoms we experienced strong emotional disturbance. Where in the past we had both been able to deal with stressful situations well, and excelled in doing so in our work, now small concerns became amplified and disproportionate as if life or death, even leading to anxiety attacks and rage in my partner’s case (highly uncharacteristic).
Previously I could eat anything I liked. No food sensitivities at all. If it went down OK it was fine. My Partner had always had a mild reaction if she ate too much bread or starchy food 2 or more days in a row, mild bloating is all.
Since my 20’s I have traveled the world quite a bit, visiting over 30 countries, some of them undeveloped, but never contracted any known disease. My partner has not traveled as extensively.
The only other significant health issue I have experienced is at 42 I suffered gallstones, somewhat uncharacteristic for a 40 year old man who was fit and active and not obese. After many tests the only linked finding is Stomatocytosis (deformed blood cells) cause unknown but genetic defects ruled out. This is transitory and could potentially result in bilirubin sedimentation in the gallbladder.
Subsequent investigations also found Hashimoto’s thyroiditis – which may have been present for some years ( a test was done 5 years previous indicated high TSH but nothing followed up at that time and I had felt fit enough to work, play squash etc at the time).
We knew we had dysbiosis already – via other stool tests and OAT tests. Just never been clear why we would both develop it at the same time and when we have previously tried a thorough dysbiosis treatment including multiple agents for killing over 12 weeks and then rebuilding the gut with probiotics, supplements and food re-introductions. It made us v ill during and then only 1-2 weeks of improvement before falling back as before. This pushed us towards exploring infectious causes for a long time.
Have tried many probiotics to assist and eat lots of fermented foods, fermented pickles, kefir, with little or no benefit. But note zero counts of Lactobacillus Bifio, E.Coli despite this regime.
We both follow extreme Keto diet now and have done so for over 6 months( around 20grams of total carbs from all sources and overall Paleo approach). Some notable improvement but far from a cure and any small deviation from this diet causes large flares in symptoms.
Mutiflor made us both very ill indeed for 1-2 weeks. Most other probiotics just give churning stomach sensations.
I have recently received a Ubiome Explorer and results match your CFS-Dysbiosis definition as far as I can see. Low or no – Lacto, Bifido and E.coli and other mild deviations from ubiome norms. I have uploaded the results to your analysis site.
Seems clear to me something triggered our systems to go into this state, and that something is keeping them stuck in this position.
- lassesen 4:02 am on May 1, 2018
  
  You may be interested in today’s post “Hashimoto’s thyroiditis Microbiome Profile”
  https://cfsremission.com/2018/05/01/hashimotos-thyroiditis-microbiome-profile-added/
  
  It may explain the downhill slope…
Garz 9:17 am on May 6, 2018

am reading now – thanks for that!
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