Category Archives: Conditions

Unknown's avatar lassesen 4:41 am on October 20, 2017  

Decreasing Bacteroides genus

“Bacteroides induce higher IgA production than Lactobacillus by increasing activation-induced cytidine deaminase expression in B cells in murine Peyer’s patches.[2009]”

For updated information see Microbiome Prescription

DataPunk.Net Data

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ANTIBIOTIC RESISTANCE

PubMed Data

There are 650+ studies on PubMed. This page is still incomplete, more work to do.

  • Disease
    • “rheumatoid arthritis (RA) is in article presented. The signs of III degree dysbiosis, by reducing the concentration of Bacteroides spp.,” [2014]
    • inflammatory bowel disease …  increased significantly,  [2013]
  • Diet
    • “Grape seed extract..increased levels of … Bacteroides . [2013]
    • “Garlic (Allium sativum) … a rapid killing effect of between 1 and 3 log CFU/ml reduction in cell numbers was observed with Bacteroides ovatus, Bifidobacterium longum ” [2012]
    • “Bacteroides were significantly higher for gum arabic than for inulin.” [2008]
    • “Broad beans (Vicia faba) and lupin seeds (Lupinus albus)  ..the microbial groups that increased significantly (P < 0.05) were … Bacteroides-Pretovella [2015]
    • “There was a decrease in the population of staphylococci, bacteroides, Escherichia coli, and total coliforms in most bowel regions with the L. casei ASCC 292, fructooligosaccharide, and maltodextrin  diet ” [2006]
    • “Genistein[soy] reduced growth rate of Bacteroides fragilis” [2017] – slows, did not reduce.
  • Prebiotics
    • ” polydextrose (PDX) and galactooligosaccharide (GOS) …no difference was seen in … Bacteroides” [2011]
  • Probiotics
    • “Lactobacillus acidophilus La-5 and Bifidobacterium
      BB-12 …Bacteroides were significantly increased” [2015]
    • ” bacteroides were significantly increased following Lactobacillus plantarum LP‑Onlly  administration. ” [2017]
    • ” L. casei CCFM419 dramatically increased the abundance of Bacteroidetes” [2017]
    • “Lactobacillus casei strain Shirota (LcS)-…a significant decline in the Bacteroides fragilis group, ” [2017]
    • “Lactobacillus kefiri LKF01 ..Bacteroides…. were significantly reduced ” [2017]
    • “Bacillus licheniformis-B. subtilis mixture …attenuated E. coli-induced expansion of Bacteroides uniformis” [2017]
    • “Bifidobacterium infantis 1222 highly inhibited the growth of B. vulgatus in the coculture ” [2003]
    • ” Lactobacillus salivarius ssp. salivarius UCC118….. no effect” [2001]
    • “VSL-3… while enterococci, coliforms, Bacteroides and Clostridium perfringens did not change significantly. ” [2001]
    • “Bacillus subtilis CSL2 …Bacteroidetes were more highly abundant ” [2017]
    • “The probiotica containing live combined Bifidobacterium, Lactobacillus and Enterococcus could increase bifidobacterium count (P<0.01) and lactobacillus count (P<0.05); decrease bacteroides count “[2006] – species behind pay wall 😦
    • ” Intake of yogurt with Bifidobacterium longum BB536 reduced the enterotoxigenic B. fragilis.” [2012]
  • adhesion inhibition (a good thing to reduce – does not mean kill): [2007]
    adh

Bottom Line

Avoid

Take

Unknown's avatar lassesen 4:30 am on October 19, 2017  

Decreasing Odoribacter genus

“Members of the Odoribacter sp. can cause health problems such as abdominal abscess in humans and periodontal problems in domestic animals [1],[3]. More often, however, their presence is shown to be beneficial for the prevention of several diseases such as hypertension [1],[3]. As a member of the human intestinal microbiome, Odoribacter sp. can also modulate the host’s blood glucose concentration and blood pressure [4],[5].Thus, they are classified as atypical pathogens.” [src]

For updated information see Microbiome Prescription

DataPunk.Net Data

No data

PubMed Data

There are 35+ studies on PubMed.

Disease:

Diet:

  • “Low Vitamin D…Odoribacter were depleted” [2015]
  • “pomegranate juice…positively correlated with Odoribacter genus.” [2015]
  • “the number of Odoribacter_f was increased in doenjang-treated mice (a fermented Korean soybean paste)” [2014]
  • “stress significantly increased the relative abundance of Odoribacter,” [2015]
  • “the animal-based diet caused a significant increase in the relative abundance of Bilophila, Odoribacter,”
  • “the levels of Odoribacter were significantly increased by 3.3 fold at the time point of 24 h after allergen challenge“

Prebiotics:

  • “oligosaccharide treatment increased the levels of Lactobacillus and Bifidobacterium and decreased the levels of Odoribacter, ” [2017]

Probiotics:

  • “Bacillus subtilis CGMCC 1.1086 …the relative abundance of Alistipes, Odoribacter, Ruminococcus, Blautia and Desulfovibrio were higher, ” [2016]
  • “edible bifidobacteria (Bifidobacterium longum, B. infantis, B. animalis, B. bifidum, B. adolescentis or B. breve) .. decreasing the abundance of Alistipes, Odoribacter and Clostridium. ” [2017]
  • “Bifidobacterium pseudocatenulatum LI09 and Bifidobacterium catenulatum LI10, .. attenuated the D-GalN-induced Odoribacter depletion.”[2017]  – increased that is

Bottom Line

Avoid

  • Allergens
  • Bifidobacterium pseudocatenulatum
  • Bifidobacterium catenulatum
  • pomegranate juice
  • fermented Korean soybean paste
  • stress
  • animal-based diet
  • Vitamin D3

Take

  • Bifidobacterium longum, B. infantis, B. animalis, B. bifidum, B. adolescentis or B. breve — study only dealt with mixture 😦
  • Oligosaccharide prebiotics
Unknown's avatar lassesen 3:33 am on October 19, 2017  

Decreasing Eggerthella genus

” the gut bacterium Eggerthella lenta modifies the cardiac drug digoxin, and renders it inactive …implicated a role for arginine in regulating the growth of the organism”[2013]

For updated information see Microbiome Prescription

DataPunk.Net Data

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ANTIBIOTIC RESISTANCE

PubMed Data

There are 120+ studies on PubMed.

  • Disease:
  • Diet:
    • Low Vitamin D… Eggerthella was enriched.[2015]
    • “the daily consumption of red wine polyphenol…significantly increased the number of … Eggerthella lenta, ” [2012]
    • The tea tree oil was the most active to Eggerthella” [2016]
  • Probiotics:
  •  Antibiotics:
    • “all were susceptible to amoxicillin-clavulanate, cefoxitin, metronidazole, piperacillin-tazobactam, ertapenem, and meropenem, 91% were susceptible to clindamycin, 74% were susceptible to moxifloxacin, and 39% were susceptible to penicillin.” [2015]

Bottom Line

Avoid

  • Grape seed extract, wine, Resveratrol
  • Arginine supplements

Take

  • Vitamin D
  • Tea Tree Oil
Unknown's avatar lassesen 2:58 am on October 19, 2017  

Decreasing Parasutterella Genus

For updated information see Microbiome Prescription

DataPunk.Net Data

No Information

PubMed Data

There are 15+ studies on PubMed.

  • Disease:
    • “Crohn’s disease … as large increases in Proteobacteria including Parasutterella spp. and Methylobacterium spp.” [2015]
    • “Hypothyroid Hashimoto’s thyroiditis …elevated genera of the diseased group included Escherichia-Shigella and Parasutterella. ” [2017]
    • “increase with food allergy” [2016]
    • “high in autism disorder [2013]
  • Diet:
    • “enzymatically modified resistant starch ….decreased abundance of Ruminococcus, Parasutterella, ” [2015]
    • “alchohol …indicated that a reduction of Porphyromonadaceae and Parasutterella” [2017]
    • “Vitamin K2 .. significantly enriched ” [2017]
    • High Fat diet reduces [2017]
    • ” both berberine and metformin … significantly increased Parasutterella” [2015]
    • “Glucevia®, a Fraxinus angustifolia Vahl samara extract… enrichment of different taxonomic groups (Burkholderiales, Sutterellacae, Parasutterella, ” [2017]
  • Probiotics:
    • “Bifidobacterium pseudocatenulatum LI09 and Bifidobacterium catenulatum LI10… enrichment of the opportunistic pathogen Parasutterella” [2017]
    • “Lactobacillus paracasei subsp. paracasei NTU 101  … no effect” [2017]
  •  Antibiotics:
    • “florfenicol and azithromycin…here were declines in Alistipes, Desulfovibrio, Parasutterella and Rikenella in both the antibiotic groups. ” [2017]

Bottom Line

Avoid

  • Berbine
  • Metformin
  • Vitamin K2
  • Bifidobacterium pseudocatenulatum
  • Bifidobacterium catenulatum

Take

  • Alchohol
  • Enzymatically modified resistant starch
Unknown's avatar lassesen 4:57 am on October 18, 2017  

Reducing Ruminococcus Genus

Short form: This genus overgrowth is strongly associated with IBS and we also know a lot about which probiotics increases and decreases it growth.

For updated information see Microbiome Prescription

DataPunk.Net Data

Parent means this bacteria parent, Ruminococcaceae is influenced (this and other siblings may be my inference).

INHIBITED BY

ENHANCED BY

ANTIBIOTIC RESISTANCE

PubMed Data

There are 1000+ studies on PubMed. THIS POST IS ONLY PARTIALLY COMPLETE

  • Disease
    • “Ruminococcus torques (R. torques)-like (94% similarity in 16S rRNA gene sequence) phylotype was associated with severity of bowel symptoms [in IBS].  ” [2010]
    • “Ruminococcus productus-Clostridium coccoides … were higher among IBS patients”[2015]
    • “Ruminococcus albus, and Eubacterium rectale. Lactobacillus and bifidobacterium numbers were linked with low clinical activity indices in of ulcerative colitis ” [2013]
    • “children diagnosed with diarrhea predominant irritable bowel syndrome …dominated by genus Ruminococcus ” [2012]
    • “significant increases in the numbers of … Ruminococcus, .. in food sensitization (FS) in children [2016]
  •  Diet:
    • “polydextrose …to significantly increase the known butyrate producer Ruminococcus intestinalis ” [2012]
    • “quercetin…had the strongest impact on Ruminococcus gauvreauii,” [2012]
      • “quercetin did not prevent growth of Ruminococcus gauvreauii, ” [2016]
    • “barley β-glucans..Ruminococcus sp. increased, ” [2015]
    • “The soy protein group had the highest relative abundance of Ruminococcus but the lowest relative abundance of Lactobacillus. ” [2017]
    • “high-salt diet increased Firmicutes/Bacteroidetes ratio, the abundances of genera Lachnospiraceae and Ruminococcus” [2017]
  • Prebiotics:
    • Resistant maltodextrin..intake was associated with statistically significant increases (P < 0.001) in various operational taxonomic units matching closest to ruminococcus,[2014]
  • Probiotics:
    • “Lactobacillus acidophilus   and Bifidobacterium longum ..significantly promote the growth of Ruminococcus gnavus, Ruminococcus torques, [2015]
    • “Lactobacillus salivarius Ren ..reduced the amount of Ruminococcus sp., ” [2015]
    • “L. paracasei DG …with an ∼55% decrease in Ruminococcus (P = 0.016) ” [2014]
    • “Lactobacillus rhamnosus GG …causing an increase in the abundance of Prevotella, Lactococcus, and Ruminococcus, ” [2016] [2014]
    • “The number of Ruminococcus albus was lower in .. Lactobacillus plantarum  and a mixture of Lactobacillus plantarum GF103 and Bacillus subtilis B27 ” [2017]
    • “Ruminococcus obeum, Clostridium clostridioforme, Roseburia intestinalis, Lachnospiraceae bacterium 14-2T and Coprococcus eutactus were significantly higher in Lactobacillus acidophilus birds ” [2017]
    • “Lactobacillus rhamnosus HN001 and Bifidobacterium longum ..with a decrease in Roseburia faecis and Ruminococcus gnavus abundance. ” [2017]
    • ” (e.g., Ruminococcus spp. and Clostridium spp.) that overgrew in the SI microbiota of the mice administered with L. plantarum ” [2016]
    • “B. subtilis  the relative abundance of … Ruminococcus, …were higher, ” [2016]

Bottom Line

Inconclusive (Specific Strains?) – should avoid

  • Lactobacillus plantarum
  • Lactobacillus rhamnosus
  • Bifidobacterium longum
  • Bacillus subtilis

Avoid

Take