The Acidaminococcus genus was created in 1969 and actually counts as two species with standing in nomenclature: A. fermentans and A. intestini. Cells belonging to this genus are Gram-negative, anaerobic cocci, generally isolated from the digestive tract of mammals [5], [6]. [2017]

For updated information see Microbiome Prescription

DataPunk.Net Data

Nothing

PubMed Data

There are 110+  studies on PubMed

Disease

• Rosacea ” reduced abundance of Peptococcaceae family unknown genus, Methanobrevibacter (genus), Slackia (genus), Coprobacillus (genus), Citrobacter (genus), and Desulfovibrio (genus), and increased abundance of Acidaminococcus(genus), Megasphaera (genus),” [2017]
• ” type 1 diabetes mellitus … the composition of Haemophilus, Lachnospira, Dialister, and Acidaminococcus was decreased.” [2016]

Diet

• “Acidaminococcus, Bifidobacterium, Megasphaera and Mitsuokella were greater (P< 0·05) in moderate-protein, moderate-carbohydrate-fed kittens. (compared to High-protein, low-carbohydrate ) [2013]
• “that glutamate is fermented … via the hydroxyglutarate pathway by Acidaminococcus fermentans” [1974]

Prebiotics

Probiotics

• ” Bacillus natto and Lactobacillus acidophilus …Haemophilus decreased, Ruminococcus decreased, Clostridium colinum decreased, Acidaminococcus increased and Megamonas increased individually.” [2008]

Antibiotics

• “Fosfomycin ..14% of Acidaminococcus fermentans strains were resistant. no Acidaminococcus fermentans strains showed resistance to the (penicillin G) antibiotic at this concentration.” [1992]

Bottom Line

Avoid

• Bacillus natto (likely all bacillus)
• Lactobacillus acidophilus
• Glutamate

Take

• High-protein, low-carbohydrate diet

A reader asked me about this probiotic sold at https://biohmhealth.com.

“BIOHM contains B. breve, L. acidophilus, L. rhamnosus, S. boulardii and Amylase”

It appears to be directed at fungal infection.

Is it good for CFS?

Well, S. boulardii encourages the growth of many bacteria genus  seen in CFS that are already overgrown!!

“Saccharomyces boulardii is a tropical strain of yeast first isolated from lychee and mangosteen fruit in 1923 by French scientist Henri Boulard.” DataPunk.Net

A few examples:

• https://atomic-temporary-42474220.wpcomstaging.com/2017/10/18/reducing-dorea-genus/
• https://atomic-temporary-42474220.wpcomstaging.com/2017/10/29/reducing-blautia-genus/
• https://atomic-temporary-42474220.wpcomstaging.com/2017/10/18/reducing-ruminococcus-genus/
• https://atomic-temporary-42474220.wpcomstaging.com/2017/10/29/decreasing-roseburia-genus/
• https://atomic-temporary-42474220.wpcomstaging.com/2017/10/15/decreasing-pseudobutyrivibrio-genus/
• https://atomic-temporary-42474220.wpcomstaging.com/2017/10/15/decreasing-oscillospira-genus/
• https://atomic-temporary-42474220.wpcomstaging.com/2017/10/10/decreasing-subdoligranlum/

For Lactobacillus acidophilus, the same issue

• https://atomic-temporary-42474220.wpcomstaging.com/2017/10/20/decreasing-bacteroides-genus/
• https://atomic-temporary-42474220.wpcomstaging.com/2017/10/18/reducing-ruminococcus-genus/
• “Moreover, Ruminococcus obeum, Clostridium clostridioforme, Roseburia intestinalis, Lachnospiraceae bacterium 14-2T and Coprococcus eutactus were significantly higher in Lactobacillus acidophilus ” [2017]

Bottom Line

Unless your microbiota shifts happen to land between all of the above bacteria genus, this probiotics is likely more harmful than good for CFS patients. It is high risk without a microbiome analysis to determine suitability first.

The short form of the patient history is ” I’m very sick from CFS and MCS and Lyme, I’ve been sick since I was 11 years old, now I’m 34 years old.”

Standard Items

• Bifidobacterium < 0.01
• Lactobacillus 0.07x
• Akkermansia: 0.00x
• Firmicutes to Bacteroidetes: 1:2, Normal is 2.1:1
• Biodiversity: 41%ile — much lower than most.

High Bacteria

• Sutterella: https://cfsremission.wordpress.com/2017/10/13/decreasing-sutterella-genus/
• Barnesiella: https://cfsremission.wordpress.com/2017/10/15/decreasing-barnesiella-genus/
• Pseudobutyrivibrio: https://cfsremission.wordpress.com/2017/10/15/decreasing-pseudobutyrivibrio-genus/
• Odoribacter: https://cfsremission.wordpress.com/2017/10/19/decreasing-odoribacter-genus/
• Butyricimas: https://cfsremission.wordpress.com/2017/10/14/decreasing-butyricimonas-genus/
• Kluyvera: https://cfsremission.wordpress.com/2017/10/31/reducing-kluyvera-genus/
• Bacteroides: https://cfsremission.wordpress.com/2017/10/20/decreasing-bacteroides-genus/

Rare Bacteria

Bottom Line

Combining all of the lists and tossing out things that appear on both side, we have the following lists. I have skipped rare bacteria because of the number of over growths found. This was a pretty clean merge — often the same item appeared multiple times in one list or the other.

The lists below are done by merging the lists from the deep dives linked above. Some items may encourage one genus and discourage another genus — those are removed (unless it seems that it strongly predominates on one). The impact on Lactobacillus, Bifidobacterium and E.Coli are intentionally ignored [See this post for the logic]. This is all based on applying logic to the results of studies — thus theoretical. This is an addition (not a replacement) to this overview post.

Working off the overgrowth only (I will revisit the rare bacteria when I have more time). It was interesting that some of the probiotics appeared multiple times for different genus as Avoid or Take — which left me a warm feeling. Two of the “fake sugars” are bad (Aspartame (Nutrasweet) and Stevia) and two are good (Sucralose (Splenda) and Xylitol)

Avoid

• BPA bottles
• Aspirin (other NSAID’s are fine)
• Glutten
• Oligofructose
• Inulin (common in many probiotics) 😦
• barley and oat
• Black Tea
• Saccharomyces boulardii
• Allergens
• Bacillus subtilis
• Bifidobacterium pseudocatenulatum
• Bifidobacterium catenulatum
• Lactobacillus acidophilus La-5
• Bifidobacterium animalis subsp. lactis B-12
• Clostridium butyricum (i.e. Miyarisan) probiotics
• Fermented Korean soybean paste
• stress
• animal-based diet
• Aspartame (Nutrasweet)
• Stevia
• Low fat diets
• Tannic acid
• Gallic acid
• Red wine, Grape Seed Extract
• Fructo-oligosaccharides
• Saccharin
• L-citrulline
• Resistant starch (type IV)
• High meat diet
• Broad beans and lupin seeds
• gum arabic
• L-Serine
• L-Proline
• L-Glutamic acid ( monosodium glutamate – MSG)

Take

• E.Coli Probioitics
• Lactobacillus casei strain Shirota (Yakult brand)
• Lactobacillus kefiri
• Lactobacillus paracasei
• Lactobacillus salivarius
• Bifidobacterium Longum probiotics
• Bifidobacterium longum BB536
• Bacillus licheniformis
• High Fat diet
• Bile supplements
• L-glutamine
• Sucralose (Splenda)
• Xylitol
• ^{L-Phenylalanine (Good sources of phenylalanine are eggs, chicken, liver, beef, milk, and soybeans.[5]})
• Pomegranate ellagitannins (Far more takes than avoids)
• Garlic

This is an education post to facilitate discussing this approach with your medical professionals. It is not medical advice for the treatment of CFS. Always consult with your medical professional before doing any changes of diet, supplements or activity. Some items cites may interfere with prescription medicines.

This genus is always associated with disease. It is usually subject to aggressive antibiotic treatment.  It appears to be present is some 20-30% of CFS patient’s uBiome seen so far.

For updated information see Microbiome Prescription

DataPunk.Net Data

“Enterobacteriaceae like Kluyvera are not very friendly and tend to thrive in the inflamed gut. ”

INHIBITED BY

• L-Phenylalanine
• Pomegranate ellagitannins

ENHANCED BY

• Aspartame
• L-Serine
• L-Proline
• L-Glutamic acid

ANTIBIOTIC RESISTANCE

• Spectinomycin
• Streptomycin
• Monobactam
• Cephalosporin
• Penicillin
• Ceftazidime

PubMed Data

There are 230+ studies on PubMed — this is just from a select sampling.

Disease

Diet

• Ineffectual: Lemongrass, Artemesia vulgaris  (wormwood), Nutmeg oil, Selinum wallichianum Essential oil (or) Milk Parsley [2015]
• study which shows that oil of Mexican oregano works against kluyvera cryocrescens. the active ingredient of Mexican oregano and common oregano are the same, carvacrol. From a reader, Study

Prebiotics

Probiotics

Antibiotics

• “. Successful treatment options include third-generation cephalosporins, aminoglycosides, betalactams with beta-lactamase inhibitors and carbapenems. ” [2015]
• “In contrast, the resistance to ampicillin, extended-spectrum penicillins, and first- and second-generation cephalosporins is significant. Kluyvera is a potentially virulent pathogen that deserves aggressive treatment designed with an awareness of the organism’s antimicrobial resistance patterns.” [2001]

Bottom Line

This is a tough genus to reduce without using antibiotics. No known probiotics impacts it.

Avoid

• Aspartame (Nutrasweet)
• L-Serine
• L-Proline
• L-Glutamic acid ( monosodium glutamate – MSG) and possibly gluten

Take

• L-Phenylalanine (Good sources of phenylalanine are eggs, chicken, liver, beef, milk, and soybeans.[5])
• Pomegranate ellagitannins
• Oregano (Mexican or common)

A reader forwarded me two reports, one from a male and one from a female. No notes on the people (I am fine with that). The report appear to be superior to uBiome on two counts:

• It’s a professional grade report from a clinical laboratory
• It reports down to the strain level on occasion.

This second post is on the male. (See this post for the female)

• Low Bifidobacteria
• No Lactobacillus
• No E. coli
• Low Akkermansia muciniphila (less than 1/100 of 1% of typical)

So standard CFS profile on these

Copying the data to Excel allow me to get similar numbers as I do from uBiome reports.

High Levels

We have a lot more with the male than the female.

The greatest impact (volume of metalites produced) appears to be (in order) from  Blautia, Bacteroides uniformis , Ruminococcus, Roseburia.  I have done just the 8 highest below (for the moment — I may return to expand more in the future).

• Blautia:   https://atomic-temporary-42474220.wpcomstaging.com/2017/10/29/reducing-blautia-genus/
• Bacteroides: https://cfsremission.wordpress.com/2017/10/20/decreasing-bacteroides-genus/
• Ruminococcus: https://cfsremission.wordpress.com/2017/10/18/reducing-ruminococcus-genus/
• Roseburia: https://cfsremission.wordpress.com/2017/10/29/decreasing-roseburia-genus/
• Dorea :  https://cfsremission.wordpress.com/2017/10/18/reducing-dorea-genus/
• Oscillospira: https://cfsremission.wordpress.com/2017/10/15/decreasing-oscillospira-genus/
• Anaerostipes:   https://cfsremission.wordpress.com/2017/10/07/decreasing-anaerostipes-genus/
• Eggerthella: https://cfsremission.wordpress.com/2017/10/19/decreasing-eggerthella-genus/

Bottom Line

Combining all of the lists and tossing out things that appear on both side, we have the following lists. There are two genus cited above that I have not done a deep dive into. I have skipped rare bacteria because of the number of over growths found. This was a pretty clean merge — often the same item appeared multiple times in one list or the other.

The lists below are done by merging the lists from the deep dives linked above. Some items may encourage one genus and discourage another genus — those are removed (unless it seems that it strongly predominates on one). The impact on Lactobacillus, Bifidobacterium and E.Coli are intentionally ignored [See this post for the logic]. This is all based on applying logic to the results of studies — thus theoretical. This is an addition (not a replacement) to this overview post.

Avoid

• Animal-based diet
• Arabinoxylans
• Arginine supplements
• Bacillus probiotics
• Berberine.
• Bifidobacterium adolescentis
• Bifidobacterium Animalis  subsp lactis BB-12
• Broad beans  and lupin seeds
• Brown rice
• Butyrate producing probiotics
• Chili pepers
• Cholic acid
• Dietary fiber
• Dopamine
• Favone
• Fluoroquinolone
• Fructo-oligosaccharides
• Gallic acid
• Glucose foods (fructose [fruit sugar] appears to be fine)
• Gum arabic
• Gynostemma pentaphyllum
• Helminth infections
• High grain diet
• Inulin
• Lactobacillus acidophilus
• Lactobacillus fermentum
• Lactobacillus plantarum
• L-citrulline
• Metformin
• N-Acetyl-D-glucosamine
• Omega 3
• Polydextrose
• Polymannuronic acid
• Resistant maltodextrin.
• Rosemary
• Saccharin
• Saccharomyces boulardii
• Safflower oil
• Salt
• Sodium butyrate
• Soy
• Stevia
• Stress
• Tannic acid

Take

• Bifidobacterium longum BB536
• Bile acid
• Epinephrine
• Flaxseed
• Fructo-oligosaccharides
• Galactooligosaccharides
• Garlic
• Lactobacillus paracasei (24 billion viable /daily)
• Lactobacillus casei strain Shirota (Yakult brand)
• Lactobacillus kefiri LKF01 
• l-glutamine
• Low carbohydrate diet
• Mutaflor (E.Coli Nissle 1917)
• Oral Iron Supplements
• Oranges (pectin/flavanones)
• Polymannuronic acid
• Proton-pump inhibitors (PPI)
• Streptococcus probiotics
• Sucralose (Splenda)
• Tea Tree Oil
• Vitamin D3

This is an education post to facilitate discussing this approach with your medical professionals. It is not medical advice for the treatment of CFS. Always consult with your medical professional before doing any  changes of diet, supplements or activity. Some items cites may interfere with prescription medicines.