Simply Health ME E60 – Gut Micro-Biome

Gut Micro-Biome


Taken from Lecture by Gerard Mullin, MD Johns Hopkins University School of Medicine for OMA 2018 conference in DC

Disruptions in Gut Microbiome are linked to range of chronic conditions

  • Certain strains of bacteria predispose you to diseases and you have less of the good stuff

Child and Adult Obesity, Anxiety, Arthritis, Asthma, Autism, Autoimmune disorders, Cardiovascular*, Chronic fatigue, Chronic kidney disease, Depression, Diabetes (type 1 and type 2), Eczema and Most all OTHER IMMUNE ISSUES (i.e increase infections) *Fatty Liver, Fibromyalgia, Hypercholesterolemia, ITP, Metabolic Syndrome, Mood disorders, Multiple Sclerosis, Myoclonus dystonia, *Obesity, Oxalic kidney Stones, Parkinson’s Disease, Senile Dementia, etc

Gastrointestinal Gallstones, Colorectal Cancer, SIBO, Enteropathies, Hepatic Encephalopathy, *IBS, IBD, FMF, Gastric cancer and lymphoma, *Recurrent Clostridium difficile infection Non-GI

  • Obesity especially. E.g mouse studies


One is increase gut permeability

You want a good mucosal layer in your GI tract to protect your body from pathogenic bacteria.

We actually know some of the strains of bacteria predispose to these diseases

Depending on the bacteria you have. One kind of bacteria (firmicutes) are more efficiently at breaking down food / fermenting foods and extracting calories. (tend towards weight gain)

Low carb AND low fat diets decrease firmicutes

High carb and high fat diet (SAD) increases firmicutes and decreases good bacteria.

Whole body chronic inflammation

Disruptions caused by

  • Antibiotics (giving antibiotics to cattle make them fat)
    1. Also influences people eating the meat

Too sanitary an environment
No breast milk
Circadian rhythm disruptions (travel, shift work)


What to do about it

Probiotic pills

Too many options and benefits probably depend on your genetics.

Only take if you are also taking antibiotics or if you are treating something specifically    (like h.pylori)

Watch Diet

  • Change the makeup of gut microbiome
  • Unprocessed food
  • Cutting down on sugar
  • If eat carbohydrates make sure it also has fiber
  • Fruits / veggies
  • Add probiotics in your diet (fermented food)
  • Swap some of your saturated fat out for polyunsaturated
  • Studies done in SAD diet
  • Saturated fat tends to increase firmicutes
  • Polyunsaturated increases bacteroides.
  • If eating meat, opt for meat with no antibiotics.


  • Eat during day. Dysbiosis caused by NIGHT eating.
  • Stress disrupts microbiome
  • Sleep disruptions do it
  • Being too sedentary does it


  • Support good bacteria
  • They actually kill pathogenic bacteria
  • Compete for nutrition with bad bacteria.
  • BUT if you have IBS, SIBO these are not a good thing (i.e low fodmap diet)
    • Only do it short term (8-12 weeks)

One reason Roux-en Y Gastric Bypass Surgery works because of changes in the microbiome.

You can still do low carb or keto healthily but not if you’re living on bacon.

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