Gut microbiome · Obesity

The human microbiome, gut bacteria contribute to obesity

The human microbiome, gut bacteria contribute to obesity

The human microbiome, gut bacteria contribute to obesity

January 23, 2026

Gut bacteria contribute to obesity by pulling more calories out of the same food. Obese people carry a higher ratio of Firmicutes to Bacteroidetes, and Firmicutes break down complex fiber far more efficiently, so more energy reaches the body. Cutting refined carbohydrates and eating more fiber shifts that ratio within 72 hours.

We traditionally think of bacteria as dirty, something we want to keep outside of our bodies.  Intestinal bacteria are very important for digestion; they break complex fiber polysaccharides (sugar molecules connected to each other) into simple absorbable sugars by a process called fermentation, converting nutrients into calories.  The large intestine houses over 1400 species of bacteria, numbering over 100 trillion.  Reality is that the human body contains ten times more microbial cells than human cells, and the human body is dependent upon the genetic information encoded in these bacterial cells for specific metabolic pathways.

Our microbial partners have coevolved with us, in a beneficial (symbiotic) relationship, involving nutrient sharing.   The ability to store energy would be a beneficial attribute for ancient humans, who had variable access to food, and when nutrient-dense food supply was available, consuming it and storing it would benefit both the human and its bacterial symbiotes later when food supplies were diminished. However, in modern, developed societies, where there is ready access to large-portion, high-calorie diets, this “benefit” becomes a detriment, and we develop a previously rare condition (historically seen in the wealthy) called overnutrition, overstorage, or obesity.

Obese individuals have a different mix of bacteria in their guts than thin people. The ratio of Firmicutes to Bacteroidetes (called the F/B ratio) is higher in obese people than in lean people, and it drops as those people lose weight. Both Firmicutes and Bacteroidetes bacteria are involved in complex polysaccharide breakdown, but Firmicutes are much more efficient than Bacteroidetes bacteria, and having more Firmicutes bacteria in our gut makes more energy available, leading to increased caloric intake and eventually obesity.  Firmicutes overload is also associated with slowed intestinal motility [chronic constipation].

In studies of genetically identical twins, bacterial populations have been found to differ, depending on whether the twin is lean or obese, with much higher levels of Firmicutes in the obese twins.  In obese patients undergoing gastric bypass surgery, colonic bacteria change to become more like those of normal-weight individuals after the operation, reducing their Firmicutes levels.

Antibiotic overuse may also indiscriminately eradicate the beneficial bacteria in your gut along with the bad ones.  Conventional farmed meats are doped with antibiotics, with nearly 50-70% of all antibiotics produced in the United States used on healthy livestock to promote growth and weight gain in the animal feed.  Consuming these antibiotic-laden meats may be a significant factor enhancing growth and weight in the human population [obesity] as well.   This further stresses the importance of eating grass-fed and organically raised meats of all kinds.

The amazing thing to keep in mind is that you can rapidly change your gut bacteria within 72 hours, to a healthy ratio, simply by immediately eliminating refined carbohydrates and increasing your fiber intake.  Supplements of “get thin bacteria” will soon be available as well.

Frequently asked questions

Can improving your gut microbiome help you lose weight?

Yes. Obese people carry more Firmicutes relative to Bacteroidetes, and Firmicutes pull more energy out of the same food. That ratio drops as people lose weight, and after gastric bypass surgery the colon’s bacteria shift toward those of normal-weight people. Fewer Firmicutes means fewer calories harvested from the food you already eat.

What is the best gut microbiome for weight loss?

A low Firmicutes-to-Bacteroidetes (F/B) ratio, the mix found in lean people. In studies of genetically identical twins, the obese twin carried much higher levels of Firmicutes than the lean twin. A Firmicutes overload also goes along with slowed intestinal motility, or chronic constipation, so a lean-type mix affects more than calories.

How do I reset my gut for weight loss?

Cut out refined carbohydrates immediately and eat more fiber. That change can shift your gut bacteria to a healthier ratio within 72 hours. Protect the bacteria you want by avoiding antibiotic overuse, which wipes out beneficial bacteria along with harmful ones, and choose grass-fed, organically raised meats over conventional meats raised on growth-promoting antibiotics.