uBiome’s Smart Gut (with transfer to Explorer)

A local friend got their medical provider to order a Smart Gut. This is a version that requires ordering by a medical professional (mainly because it gives medical advise on the results).

Smart Gut focus is known associations with medical conditions. Only bacteria genus and  species associated are shown.

How to Transfer to uBiome Explorer

If you got a Smart Gut done, you will see an option to transfer the data to the Explorer (which is what I usually look at).


The data will not appear immediately, you may need to wait a day or two.


Smart Gut Results

First, as seems typical — no pathogenic (evil species) were found. If they were, traditional medicine would take action.


Items that are Outside of Reference Ranges

These may be too high or too low.  In the past, I have focused on the excessively high one but intended to include these into deep dives (“How to increase….”) before I attempt to create a website allowing people to do the analysis in an automated fashion themselves.



NOTE: We are not given what the ranges are, I can infer estimates if several people with Smart Gut results are willing to share their login with me for a few days.

What Conditions do these suggest?

  • Inversely associated means that a LOW level means increased risk.
  • These findings are not predictive/deterministic, they just indicators of increased risk. For example:
    • 1 /2 markers for constipation
    • 3/ 8 markers for IBS
    • 3 / 8 markers for Crohn’s Disease
    • 4 /9 markers for obesity
  • With increased risk, they preventative steps could be done, like
    • increasing the low (Inversely associated) bacteria,
    • actively monitoring for associated bacteria (there were ZERO found — good news)
  • The [##] after each gives references to the medical study that found the association.
    • A single [#] means that just one study found it — i.e. possible
    • Two [#,#] means that two studies found it — i.e. probable
    • Three [#,#,#] means very probable

Case in point:  4/9 markers for obesity — but this reader reports them self as being thin.

Do not forget DNA: all of the conditions below also have DNA associated with them. Often bad microbiome + good DNA ==> no clinical condition!






Personal Comments

IMHO: if you have less than 75% of the association, but more than 25%, I would be tempted to describe you as having risk of developing. 75% or more without the diagnosis, “borderline”

Ubiome Results

Standard Items:

  • Lactobacillus: 0.31x
    • Lactobacillus gasseri
    • Lactobacillus sp. CR-609S
  • Bifidobacterium: 0
  • Akkermansia:  0x
  • Diversity:  83%ile
  • Firmicutes to Bacteroidetes:  3.0:1 (Normal 2.1:1)

Uncommon Bacteria

Bacteria name Rank % of Samples
Denitratisoma Genus 0.1%
Anaerobacillus Genus 0.1%
Anaerobacterium Genus 0.8%
Acetivibrio Genus 1.0%
Fretibacterium Genus 1.3%
Leptotrichia Genus 1.5%
Ochrobactrum Genus 1.9%
Brucellaceae Family 2.2%
Caldicoprobacter Genus 3.1%
Anaerovorax Genus 3.2%

High Bacteria

Intestinibacter: 11.59 X
Anaerotruncus: 5.76 X
Bilophila: 4.48 X
Intestinimonas: 3.66 X
Flavonifractor: 3.37 X
Gelria: 3.15 X
Eggerthella: 2.99 X
Parabacteroides:  2.43 X
Oscillibacter: 2.39 X
Hydrogenoanaerobacterium: 2.12 X
Shuttleworthia: 2.08 X
Subdoligranulum: 1.92 X
Terrisporobacter: 1.57 X
Pseudobutyrivibrio: 1.56 X




Bottom Line Suggestions

The lists below are done by merging the lists from the deep dives linked above for overgrowth. 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.


  • Allergens
  • Amoxicillin-Clavulanate antibiotics
  • Arginine supplements
  • Barley x2
  • Berberine x 3
  • Bifidobacterim Breve
  • Bifidobacterium catenulatum
  • Bifidobacterium longum.
  • Bifidobacterium pseudocatenulatum
  • Bile
  • Black Tea
  • Canola Oil
  • CVS Maximum Strength Probiotic
  • fermented Korean soybean paste
  • High animal protein/meat diet x2
  • Lactobacillus Casei x2
  • Lactobacillus salivarius
  • Lingonberries
  • Lysine supplements and foods
  • Milk-derived saturated fat
  • Omega 3
  • pomegranate juice
  • Proton-pump inhibitors (PPI)
  • Quercetin w. Resveratrol
  • Resistant Starch
  • Resveratrol (Grapes, wine) x2
  • Rhubarb
  • Saccharomyces boulardii x5
  • stress
  • Walnuts x4
  • Yogurt
  • —-
  • Doxycycline
  • Tetracycline
  • Erythromycin
  • Chloramphenicol


  • Capsaicin(chili peppers)
  • Cranberry x 2
  • Flaxseed x2
  • Gallate (green teas) x2
  • Inulin (Chicory) x5
  • Lactobacillus kefiri x2
  • Lactobacillus paracasei
  • Lactobacillus plantarum
  • Lactobacillus reuteri
  • L-glutamine
  • Metformin
  • Metronidazole antibiotics
  • Oligosaccharide prebiotics
  • Tea Tree Oil
  • Vitamin C
  • Magnesium
  • Calcium
  • xylanase/xylosidase.

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