From medical literature I have added several hundred drugs and their likely impact on the microbiome. A common problem with CFS patients is that they are only aware of some trademark name and not the standard scientific name.

I have started (it’s a long process) adding the common or trademark names to various drugs — for example Antivirals:

Now becomes

This process will likely take a few weeks to complete.

Antivirals and CFS

I have posted about this in the past ,”Valganciclovir antiviral and CFS[2016]” and  “Valacyclovir, EBV and CFS [2016]”.

I decided to look at the microbiome shifts seen with the valacyclovir hydrochloride  antiviral,  And was quite surprise to see a high number of bacteria taxonomy are reduced — which may account for the success reported in the above post “All patients were treated subsequently with valacyclovir, with 93% having a positive response” [2014]. The other antiviral, Valcyte or Valganciclovir, is not in my sources.

So, the question must be asked — was it’s antiviral nature OR microbiome modification nature that causes the reported improvement?

I am just finishing a course of high dosage antibiotics for cellulitis that sent me to the hospital last week. With the http://microbiomeprescription.azurewebsites.net website data, I realized that I do not need to do random things to recover from the antibiotics.

First, the antibiotic that I was using was a cephalosporin i antibiotics that antibiotics and many many antibiotics and prescription drugs are listed at http://microbiomeprescription.com/Library/GutModifiers.

Clicking on it showed what changed:

cephalosporin i antibiotics

• beta-lactam antibiotics

The following are impacted

I just added a link below the table:

Recommendations to contradict the shifts

When I click this, it takes me to the recommendations page.

Recommendations from cephalosporin i antibiotics Lab Results

etc,

Bottom Line

I have recommendations of what to take and to avoid that are specific to the antibiotic / prescription drug that I took! No random picking of stuff from the air.

In the near future, I will extend this to allow microbiome information from ubiome to be incorporated (i.e.  if you are low, and the prescription item increases it — then we attempt no correction).

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.

On my commute today I had a conversation with an old colleague whose teenage daughter had a physical brain trauma(included cerebral ischemia) in January. As she described her symptoms, I recognized a lot of symptoms that are often seen with CFS. I also recall reading some articles about gut shifts seen with physical trauma.

Cognitive impairment is common with CFS and other autoimmune conditions.

• The bidirectional gut-brain–microbiota axis as a potential nexus between traumatic brain injury, inflammation, and disease.[2017]
• The Gut Microbiome and Mental Health: Implications for Anxiety- and Trauma-Related Disorders.[2018]
• “Specifically, Bacteroidales and Clostridiales, the two most prevalent bacterial taxa in mouse gut (Eckburg et al., 2005; Krych et al., 2013), were inversely regulated by traumatic spinal cord injury (SCI): Bacteroidales decreased while Clostridiales increased (Fig. 2, B and C). Significant changes in these taxa were accompanied by lesser but consistent changes in minor taxa, including Anaeroplasmatales, Turicibacterales, and Lactobacillales (Fig. 2 A). Open-field locomotor (Basso mouse scale [BMS]) scores were negatively correlated with the relative abundance of Clostridiales and Anaeroplasmatales, suggesting that the proportion of these bacteria can predict the magnitude of functional recovery and might be useful as a biomarker of injury severity” [2016]
• In conclusion, our results are the first to show specific changes in the microbiota due to a change in brain function, and also to surgical stress following tissue injury, with the likely involvement of the autonomic nervous system and goblet cells under certain conditions.  [2016]
• “Higher percentages of Clostridiales and lower expression of Bacteroidales in high-energy diets were related to the poorer cognitive flexibility in the reversal trials. ” [2015]
• Clostridium butyricum attenuates cerebral ischemia/reperfusion injury in diabetic mice via modulation of gut microbiota.[2016]
• Dysbiotic microbiome in patients with stroke and TIA: ↑ genera Enterobacter, Megasphaera, Oscillibacter, and Desulfovibrio; ↓ genera Bacteroides, Prevotella, and Faecalibacterium correlating with disease severity. ↓ TMAO in stroke/TIA group compared with patients with asymptomatic atherosclerosis [14]

Bottom Line

The number of bacteria taxonomy identified is lower than with other conditions but it is definitely work creating a profile on. An example with the demo ubiome result is shown below.

Analysis Web Site:  http://microbiomeprescription.azurewebsites.net

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.

Today I got a comment from someone with Hashimoto’s thyroiditis, often co-morbid with CFS, IBS etc.  I thought that I would check to see if there had been any microbiome work done on this condition. I was delighted to see a February, 2018 article, “Alterations of the Gut Microbiota in Hashimoto’s Thyroiditis Patients.”  and converted it results into a profile that can be applied to uBiome results.

This is added to the existing series shown below

• ADHD – Attention-deficit syndrome
• Alzheimer’s Disease
• Autism
• Autoimmune Disease
• 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
• Systemic Lupus Erythematosus
• Ulcerative colitis

Analysis Web Site:  http://microbiomeprescription.azurewebsites.net

A reader wrote gave me access to their latest uBiome

“I’ve been following your probiotics protocol. I’ve been taking L. Reuterii, a mix of bifidobacterium and symbioflor 2.

Comparing the Before and Now Samples

Overall, there have been a significant improvement is the all profiles with Gout being the sole item with significant increase.

Bacteria Shifts

Apart from two phylum (small populations usually), things have improved. As I have mentioned before — recovery is not a straight line recovery. It is moving from one island to the next until you back to your original harbor.

Class

Moving down to the class level, we see better clarity. Remember the criteria was to focus on items > 150%.  All of them went down

Looking at High Family items we see that we succeed in reducing them.

So where do we go next?

The latest result have good list of changes:

As well as avoids

It is interesting to note that bacillus probiotics is on the take list, but one specific one is on the avoid list: bacillus subtilis probiotic

Some concerns

Candidatus Saccharibacteria: 31x normal only (14.49% of Samples) phylum have this

Candidatus Saccharimonas 22x normal only (0.97% of Samples) genus

The only known item to reduce this are macrolides, for example azithromycin.

For the very high Methanobacteriaceae (35.75% of Samples) family, we see coconut (lauric acid and myristic acid) and bile are items that will decrease it

Bottom Line

It was nice to see objective improvement in the microbiome by following earlier suggestions. The suggestions were successful for reducing high bacteria (the specific goal sought).

The new analysis sight allows both high and low to be adjusted for. We will likely see in a few months what the latest recommendations caused to change.

REMEMBER: Adjust for one shift may induce other shifts.

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.