For updated information see Microbiome Prescription

DataPunk.Net Data

NUTRIENTS/ SUBSTRATES

• D-Glucose

INHIBITED BY

• Stigmastanol
• β-sitosterol
• Navy bean (Cooked)

ENHANCED BY

• Whole grain diet
• Partial Sleep Deprivation

INHIBITED BY

• Bifidobacterium
• Faecalibacterium
• Escherichia

PubMed Data

There are about 80+ articles on PubMed.

• Disease
  • “The abundance of Collinsella correlated strongly with high levels of alpha-aminoadipic acid and asparagine as well as production of the proinflammatory cytokine IL-17A. A role for Collinsella in altering gut permeability and disease severity was confirmed in experimental arthritis.” [2016]
  • “Genus Collinsella…found to be significantly increased in type 2 diabetes compared to the other groups ” [2015]
  • “the genus Collinsella was enriched in patients with symptomatic atherosclerosis,” [2012]
  • “Collinsella have been correlated or causally related to rheumatic disease.” [2016]
  • “At the genus level, we observed significant increases in the numbers of … Collinsella,… in the Food Sensitive group. ” [2016]
  • “Unaffected relatives of patients with Crohn’s Disease had less Collinsella aerofaciens ” [2011]
  • “a positive correlation was detected between serum cholesterol and Collinsella (Coriobacteriaceae). ” [2013]
  • “Collinsella aerofaciens, an abundant actinobacterium, were significantly
    decreased in all IBS subtypes compared with the Healthy Controls.” [2010]
• Diet:
  • “Collinsella decreased significantly at week 4 compared to baseline[ with pomegranate extract] . ” [2015]
  • “decreased, along with Collinsella aerofaciens, on reduced carbohydrate weight loss (WL) diet.” [2011]
  • “The the fibre-rich macrobiotic Ma-Pi 2 diet , but not the control diet, was also effective in counteracting the increase of possible pro-inflammatory groups, such as Collinsella and Streptococcus, in the gut ecosystem, ” [2016]
  • “certain bacterial groups was lower (…Collinsella ..)  among vegetarians,” [2014]
  • “bacteria related to Collinsella and members of the Clostridium clusters IV and XI increased  in the group consuming refined wheat breads. ” [2013]
  • “In addition, the genera Eggerthella, Collinsella and Corynebacterium within Actinobacteria, along with bacteria related to Bacteroides vulgatus and Prevotella oralis, were stimulated after the  non-starch polysaccharides  diet.” [2014]
• Prebiotics:
  •  Collinsella sp., were detected in microbiota of the rats fed raffinose. [2016]
  • “The synbiotic increased relative abundances of the Collinsella, ” [2014]
• Probiotics:
  • “Lactobacillus reuteri DSM 17938  … lower Collinsella and higher Enterococcus and Coprococcus abundance at 4 months.” [2016]
•  Antibiotics:
  • ” Collinsella spp., and Eubacterium spp. showed variable resistance to penicillin. ” [2014]
• “lower numbers of Collinsella spp. were evident in the elderly subjects with non-steroidal anti-inflammatory drugs (NSAID) compared both with young adults and the elderly without NSAID, suggesting that the use of NSAID along with age may also influence the composition of intestinal microbiota. ” [2010]
• “per oral iron replacement treatment was associated with decreased abundances of operational taxonomic units assigned to the species Faecalibacterium prausnitzii, Ruminococcus bromii, Dorea sp. and Collinsella aerofaciens.” [2017]
• “The relative proportions of …Collinsella, … were significantly correlated with weight loss induced by tea extracts” [2017]

Bottom Line

Avoid

• wheat

Take

• oral iron supplements
• Green or black tea
• pomegranate (walnuts is likely helpful too)
• NSAIDs (see list here), I prefer aspirin as first choice.

For updated information see Microbiome Prescription

Another high bacteria genus — this appears to occur in only 1/4 of the CFS uBiomes that I have seen.

For updated information see Microbiome Prescription

DataPunk.Net Data

NUTRIENTS/ SUBSTRATES

• D-Glucose

INHIBITED BY

• Gallate 

ENHANCED BY

• Walnuts 
• Saccharomyces boulardii
• Berberine 

INHIBITED BY

• Bifidobacterium
• Faecalibacterium
• Escherichia

PubMed Data

There are some 28+ articles on PubMed.

• Disease:
  • “At the genus level, we observed significant increases in the numbers of Sphingomonas, Sutterella, Bifidobacterium, Collinsella, Clostridium sensu stricto, Clostridium IV, Enterococcus, Lactobacillus, Roseburia, Faecalibacterium, Ruminococcus, Subdoligranulum, and Akkermansia in the Food Sensitive group. ” [2016]
  • “Behçet’s syndrome patients were significantly depleted in the genera Roseburia and Subdoligranulum.” [2015]
• Diet:
  • “a low fermentable substrate diet ..increased abundance of bacterial taxa belonging to the genera Sporobacter (P<0.05) and Subdoligranulum” [2014]
  • higher (Subdoligranulum) among vegetarians, indicating the association of dietary type with bacterial community composition. [2014]
  • “Omega3 ..remarkable increase in ..and Subdoligranulum (4.93% versus 7.57%). ” [2016]
• Prebiotics:
  • ” short-chain fructo-oligosaccharides (scFOS) on the gut bacterial populations…Subdoligranulum variabile-like species were elevated” [2010]
  • “The inhibitory effect of xylooligosaccharide (XOS) on other opportunistic pathogens, such as Clostridia, Streptococcaceae, and Subdoligranulum, further supports that XOS can potentially promote an optimal gut microbiota profile” [2015]
  • ” A negative correlation was detected between inulin utilization and Subdoligranulum (r = −0.73, p ≤ 0.01) [2013]
• Probiotics:
  • ” Lactobacillus salivarius SMXD51…subdoligranulum sp. increase.” [2017]
  • Subdoligranulum was higher in mice supplemented with L. casei (p < 0.05), whereas it tended to be higher in mice supplemented with B. breve (p = 0.05), as compared with control mice” [2016]
• Antibiotics:
  • “Vancomycin targets …as for the low levels of Subdoligranulum.” [2015]

Bottom Line

Avoid

• Lactobacillus salivarius
• Lactobacillus Casei
• Bifidobacterim Breve
• Omega 3
• Walnuts (and likely no  pomegranate – both are high urolithin)
• Saccharomyces boulardii
• Berberine

Take

• Inulin

While there is no direct evidence, I would suggest trying some of the probiotics for Anaerostipes.

A friend  has very high Anaerostipes and Clostridium genus. If you look at my posts on these:

• https://atomic-temporary-42474220.wpcomstaging.com/2017/10/07/decreasing-anaerostipes-genus/
• https://atomic-temporary-42474220.wpcomstaging.com/2017/10/07/decreasing-clostridium-genus/

You will see that Inulin and other common prebiotics encourages their growth.

The following probiotics reduces them:

•  Lactobacillus paracasei
• Streptocuccus thermophilus

I went to find such and found that all of the usual commercial ones included inulin or similar 😦 A nasty dilemma!

A friend referred me to Custom Biotics, and after an email exchange they confirmed that these were 100% probiotics (at 400 BFCU per gram!!) without these prebiotics.

Price wise: 400 BCFU x 50 gm = 20,000 BCFU for $115 or 11500/20000 =  1/2 cent per BCFU which is 1/10 of the cost most commercial probiotis, see this post for price comparison.

While there may be ‘sticker shock’ at the price per bottle — it is CHEAP per BCFU if you know the specific probiotic you want.

I was also very glad to receive information on the strains

This genus may be associated with MCS (see this post). High levels are seen with Irritable bowel syndrome patients negative for Blastocystis carriage [2016].

For updated information see Microbiome Prescription

DataPunk.Net Data

Nothing 😦

PubMed Data

There are just 20 citations on PubMed.

• “At the genus level, there were declines in Christensenella, Gordonibacter and Anaerotruncus in the florfenicol group” [2017]
• “Pomegranate polyphenols enhanced urolithin and propionate production, as well as Akkermansia and Gordonibacter prevalence with the highest effect in the descending colon” [2017] [2017]
  • “Walnuts act like pomegrantes” [2017]
• “In vitro susceptibilities to penicillin, metronidazole, vancomycin, and amoxicillin-clavulanate were determined using the Etest method….The fever gradually subsided after 3 days of amoxicillin-clavulanate, and the patient’s general condition gradually improved. ” [2010]

Bottom Line

Avoid

• pomegranate
• walnuts

known.

Take

In my last post, the reader was high in the Alistipes genus.  Ian Lipkin et. al [2017] study  [Index to all posts on Study] found a strain of this was low in this study, and I did a post on  Increasing one specific strain of Alistipes. Remember that CFS is determined from having a few of a list of symptoms. In my model, symptoms are caused by shifts of bacteria. Different shifts, different symptom sets.

For updated information see Microbiome Prescription

DataPunk.Net Data

NUTRIENTS/ SUBSTRATES

• D-Glucose
• L-Tryptophan
• Thiamine

INHIBITED BY

• Plant-rich diet
• Tannin
• Cranberry bean flour
• Gallate
  

ENHANCED BY

• High fat diet
• High fruit intake
• High meat diet

INHIBITED BY

• Faecalibacterium

PubMed Data

There are just 100 pub med articles in total on Alistipes.

• Symptoms: “Most notably, the major depressive disorder groups had increased levels of Enterobacteriaceae and Alistipes but reduced levels of Faecalibacterium.” [2015]
• Probiotics:
  • “The findings show that the six species of Bifidobacterium differed in their ability to relieve constipation. B. longum, B. infantis and B. bifidum were the most effective in relieving constipation, B. adolescentis and B. breve were partially effective and B. animalis was not effective. Furthermore, edible Bifidobacterium treated constipation by increasing the abundance of Lactobacillus and decreasing the abundance of Alistipes, Odoribacter and Clostridium. .” [2017]
  • ” the relative abundance of Alistipes, Odoribacter, Ruminococcus, Blautia and Desulfovibrio were higher … In the caeca of broilers fed with B. subtilis ” [2016]
  • “Fecal Alistipes sp., Clostridium sp., Roseospira sp., beta proteobacterium were decreased and Bifidobacterium was increased after supplementing with B. subtilis natto. ” [2014]
• Antibiotics:
  • “At the genus level, there were declines in Christensenella, Gordonibacter and Anaerotruncus in the florfenicol group, in Lactobacillus in the azithromycin group, and in Alistipes, Desulfovibrio, Parasutterella and Rikenella in both the antibiotic groups. ” [2017] – Note: zithro decrease lactobacillus
  • “In general, the community changes induced by the three β-lactam antibiotics showed consistency in inhibiting Papillibacter, Prevotella and Alistipes while inducing massive growth of Clostridium.” [2015]
• “At the genus level, oligosaccharide treatment increased the levels of Lactobacillus and Bifidobacterium and decreased the levels of Odoribacter, Alistipes and Bacteroides” [2017]

Bottom Line

Avoid

• Generic Bacillus probiotics

Take

• Bifidobacterum Bifidum
• Bifidobacterum Infantis
• Bifidobacterum Longum
• Faecalibacterium prausnitzii
• Bacillus subtilis natto
• Faecalibacterium prausnitzii
• Cranberry bean flour (or fresh cranberries)
• Tannin and Gallate   — green tea see this web page.