How “Fad” Diets Affect the Gut Microbiota

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  • Fad Diets – What are They?
  • The Gut Microbiota
  • Do Particular Food Groups Affect the Gut Microbiota?
  • What can happen when the Gut Microbiota is Disrupted?

Image Credit: Gino Santa Maria / Shutterstock

Fad Diets – What are They?

Today, there are many diets being promoted that promise quick weight loss, which are commonly not based on strong scientific evidence.

These diets can be classed as “fad diets”, and quite often they involve the elimination of a particular food or food group, or focus on eating a particular type of food.

For example, some fad diets may eliminate carbohydrates, while others may focus on high fat intake. These diets can lead to weight loss, but there is evidence to suggest that this weight loss may not be sustained.

The Gut Microbiota

The human gut is colonized by numerous microorganisms, including bacteria, archaea, and eukaryotes. This collection of microorganisms is defined as the “microbiota”, and thus the collection of microorganisms living in the human gut can be defined as the human gut microbiota.

The microbiota serves many crucial functions, including strengthening the gut and shaping the gut epithelium, providing protection against pathogens, regulating host immunity, and providing nutrients to the host.

Microbiome in human gut – Illustration Credit: Alpha Tauri 3D Graphics / Shutterstock

Do Particular Food Groups Affect the Gut Microbiota?

There are numerous factors that can affect the composition of the gut microbiota, and one major factor that shapes the gut microbiota is diet. So, would eliminating food groups affect the gut microbiota?

Effects of (digestible) carbohydrates and fiber

Carbohydrates can be broadly divided into those that are digestible to humans (sugars, starch) and whose that are not (fiber). From here on, the term carbohydrate will be used to describe digestible carbohydrates, and the term fiber will be used to describe non-digestible carbohydrates.

Several studies have found that the presence of digestible carbohydrates is essential in maintaining the gut microbiota, and that limiting carbohydrate can reduce the diversity in the gut microbiota.

More specifically, a study found that the gut microbiota of people who ate dates, which contain a mixture of sugars, had an increase in the number of Bifidobacteria in their gut microbiota, accompanied by a reduction in the number of Bacteroidetes. This was also seen in another study using lactose, which also showed a reduction Clostridia species.

Bifidobacteria species have the capability to synthesize folate, a vitamin needed for DNA synthesis and repair in the host.

Clostridia species, particularly those in the Clostridium cluster XIVa, have been linked to irritable bowel syndrome.

Due to their non-digestible nature, fiber travels to our gut undigested. This means that fiber is accessible to the gut microbiota, and thus can be called “microbiota accessible carbohydrates”.

Studies have shown that a diet low in fiber is associated with a reduction in gut microbiota diversity, and that this could be reversed by increasing fiber intake.

Species affected include Bifidobacterium and lactic acid bacteria such as Lactobacilli, whose increase was associated with an increased fiber intake. Furthermore, Sonnenburg and co. found that a low fiber diet led to a reduced production of short-chain fatty acids by the gut microbiota, which means that their anti-inflammatory effects would be reduced.

Effects of fats

Several studies have found that a high-fat diet leads to an increase in anaerobic microbes and Bacteroides in the gut microbiota.

A study by Fava and co. found that a low-fat diet lead to an increase in Bifidobacterium, and this increase was associated with a decrease in fasting glucose and total cholesterol levels.

Bacteria Bifidobacterium, gram-positive anaerobic rod-shaped bacteria which are part of normal flora of human intestine are used as probiotics and in yoghurt production. Illustration Credit: Kateryna Kon / Shutterstock

The ketogenic diet was initially developed to treat epilepsy, and has recently become popular in the non-epileptic population. This is high-fat, low-carbohydrate diet and research has shown that it affects the gut microbiota in a similar way to other carbohydrate eliminating diets.

Of note, a study by Olson and co. found that the ketogenic diet increases the level of Akkermansia and Parabacteroides, which was shown to be behind the anti-seizure effects of the ketogenic diet. Interestingly, Akkermansia is a bacterial species that may be both beneficial or harmful.

Some initial studies found that Akkermansia can help rebuild the integrity of the gut epithelium, but other more recent studies have shown an association between Akkermansia and Parkinson’s disease, multiple sclerosis, and Alzhemer’s.

What Can Happen When the Gut Microbiota is Disrupted?

While the definition of a “healthy gut microbiota” is still being debated, studies have shown that certain diets can negatively influence the gut microbiota. Dietary changes may also lead to an imbalance in its diversity, known as “dysbiosis of the gut microbiota”.

Now, studied have shown that dysbiosis of the gut microbiota can have consequences for the host. This includes inflammatory bowel disease, irritable bowel syndrome, celiac disease, as well as other non-intestinal disorders such as asthma and cardiovascular disease.


  • Fad Diets
  • Thursby and Juge (2017) Introduction to the human gut microbiota. Biochem. J
  • Clements (2018) Eating for a Trillion: Can your microbiome be the key to long-lasting weight loss?
  • Sonnenburg and Sonnenburg (2014) Starving our Microbial Self: The Deleterious Consequences of a Diet Deficient in Microbiota-Accessible Carbohydrates. Cell Metabolism…/S1550-4131(14)00311-8
  • Olson et al. (2018) The Gut Microbiota Mediates the Anti-Seizure Effects of the Ketogenic Diet. Cell…/S0092-8674(18)30520-8
  • Cirstea et al. (2018) Good Bug, Bad Bug: Breaking through Microbial Serotypes. Cell Host and Microbe…/S1931-3128(17)30544-9
  • Singh et al. (2017) Influence of diet on the gut microbiome and implications for human health. Journal of Translational Medicine…/s12967-017-1175-y
  • Carding et al. (2015) Dysbiosis of the gut microbiota in disease. Microb Ecol Health Dis
  • Lloyd-Price et al. (2016) The healthy human microbiome Genome Medicine

Further Reading

  • All Microbiome Content
  • The Human Microbiome Project (HMP)
  • How Does the Diet Impact Microbiota?
  • Achievements of the Human Microbiome Project
  • Human Microbiome

Last Updated: Sep 24, 2019

Written by

Dr. Maho Yokoyama

Dr. Maho Yokoyama is a researcher and science writer. She was awarded her Ph.D. from the University of Bath, UK, following a thesis in the field of Microbiology, where she applied functional genomics toStaphylococcus aureus . During her doctoral studies, Maho collaborated with other academics on several papers and even published some of her own work in peer-reviewed scientific journals. She also presented her work at academic conferences around the world.

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