Gut Biome Diet and Weight Loss Summary Points:

  • The gut biome diet is pivotal in energy balance and weight management.
  • Firstly, despite consuming similar calories, compared to the Western Diet (WD), a Microbiome Enhanced Diet (MBD) led to an additional loss of 116 ± 56 kcals.
  • Secondly, the weight change was greater on the MBD than on the WD, and this change was accompanied by a trend towards greater loss of fat mass on the MBD than on the WD.
  • Moreover, leptin levels, an appetite regulator, were lower on the MDB compared to the WD. Additionally, pancreatic polypeptide (PP), another satiety-promoting hormone, had a 1.4-fold increase in the MBD.
  • In conclusion, the study demonstrates the potential of using whole foods to modulate the gut biome as a simple and useful population-level tool to combat the global obesity epidemic.


Obesity is a complex multifactorial condition influenced by genetic, environmental, and lifestyle factors. Recently, the gut biome has emerged as a potential contributor to obesity. Essentially, the gut biome refers to the vast community of microorganisms in the human gastrointestinal tract.

The human gut is not just a digestive organ; it’s a complex ecosystem teeming with trillions of microorganisms. Interestingly, recent research has illuminated the profound influence of these microbes on our health, particularly in the realm of weight management. (Moschen et al., 2012) Furthermore, the gut biome has a complex ecological community structure, and its composition and function can change over time and in response to various factors, such as diet, age, and disease. (Lozupone et al., 2012)

Understanding the factors that influence the composition and stability of the gut biome is important for developing therapeutic strategies that target the microbiota (Lozupone et al., 2012). For fitness enthusiasts and athletes, understanding the gut’s role may be a game-changer in achieving weight loss goals.

The Gut Microbiome: A Brief Overview

The gut microbiome consists of trillions of microbes, including bacteria, fungi, and viruses. Importantly, these microorganisms play a vital role in digestion, nutrient absorption, and immune function. In fact, imbalances in the gut microbiome have been linked to various health conditions, including obesity. Specifically, the gut bacteria and other microorganisms contribute to the fermentation of dietary fibers and resistant starch in the colon, producing beneficial byproducts such as short-chain fatty acids. These fatty acids provide energy to the intestines and play a key role in maintaining the health of the gut barrier and the immune system.

The relative abundance of different microbial communities can vary greatly among individuals, depending on factors like diet, lifestyle, and genetics. Certain foods, such as yogurt, kefir, sauerkraut, kimchi, asparagus, artichokes, legumes, and resistant starches, can promote a healthy microbiome. Probiotic supplements can also help to restore and maintain a balanced gut microbiota.

Understanding the Gut Biome

Delving deeper, understanding the complex relationship between the gut microbiome and overall health is an active area of research. Scientists have discovered that the gut microbiome can influence brain function, inflammatory bowel disease (IBD), irritable bowel syndrome (IBS), and even weight management. By modulating the gut microbiome through diet and supplements, we can potentially improve gut health and support weight loss efforts.

The gut biome comprises various bacteria and other microorganisms crucial in multiple metabolic processes. (Qin et al., 2010) These microbes are critical in digesting food, producing essential vitamins, and protecting against harmful pathogens.(Moschen et al., 2012) But, as recent research suggests, they also significantly impact body weight.(Turnbaugh et al., 2008) A study published in JAMA Surgery explored the effect of obesity and surgically induced weight loss on the human gut biome. The research found that certain bacteria enhanced their ability to metabolize dietary substrate, increasing host energy intake and weight gain. (Sweeney & Morton, 2013)

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The gut biome comprises various bacteria and other microorganisms crucial in multiple metabolic processes. (Qin et al., 2010) These microbes are critical in digesting food, producing essential vitamins, and protecting against harmful pathogens.(Moschen et al., 2012)

The gut microbiome is involved in the breakdown and absorption of nutrients, producing essential vitamins and metabolites, and regulating inflammation and immune responses. It is a complex and dynamic ecosystem influenced by diet, lifestyle, medications, and genetics. Understanding the gut microbiome and its interactions with the host is an area of active research with implications for the prevention and treatment of various diseases, including obesity, diabetes, and inflammatory bowel diseases.

The Global Obesity Epidemic and the Gut

With obesity rates soaring worldwide, understanding the gut’s role in weight management is more critical than ever. The potential of whole foods to modulate the gut microbiome offers a promising avenue to combat this epidemic. (Hruby & Hu, 2015) Promoting a healthy gut environment can potentially tip the energy balance scales in favor of weight loss.

Obesity has been associated with changes in the gut microbiota, reduced bacterial diversity, and altered representation of bacterial genes and metabolic pathways. These findings suggest deviations from the core microbiome are associated with different physiological states, such as obesity and leanness (Turnbaugh et al., 2008).

A previous study found that individuals with a more diverse gut microbiome tend to have a leaner physique and are less likely to gain weight over time. (Heiman & Greenway, 2016) Furthermore, certain bacterial strains have been associated with reduced body fat and improved metabolic health. (Heiman & Greenway, 2016)

A study in the journal Preventive Nutrition and Food Science examined the relationship between obesity and the gut microbiome and the role of probiotics, prebiotics, and synbiotics in preventing and treating obesity. The research highlighted that the gut microbiome impacts nutrient metabolism and energy expenditure. Supplementation with probiotics, prebiotics, and synbiotics may alter the secretion of hormones, neurotransmitters, and inflammatory factors, preventing triggers leading to weight gain. (Aoun et al., 2020)

Diet, Gut Biome Diet, and Weight Loss: The Connection

A groundbreaking study, “Host-diet-gut microbiome interactions influence human energy balance: a randomized clinical trial,” was recently published in Nature Communications.(Corbin et al., 2023) The study aimed to investigate the potential of using whole foods to modulate the gut microbiome and promote small changes in energy intake and expenditure. The subjects consumed each of the diets.

The study involved 17 weight-stable adults with a BMI of 30 or below (average age of 31; 9 men, 8 women). Over 9 days, the investigators determined the participants’ daily calorie needs. They were then assigned to follow either a microbiome-supporting diet (MBD) or a Western-style diet. Both diets were prepared in the metabolic kitchen and validated by measuring energy content via chemical analysis. The study participants consumed 100% of the provided foods, and diet adherence was monitored throughout the study. The study ensured that participants maintained an energy balance, meaning their energy intake matched their energy expenditure.

One diet was a gut biome diet (MBD), which was high in fiber (approximately 26 grams per 1,000 calories), high in resistant starch, and low in processed foods, which are known to promote the growth of beneficial gut bacteria.

In contrast, the Western-style diet was low in fiber (approximately 6.4 grams per 1,000 calories), low in resistant starch, and high in highly processed foods.

Both diets contained similar calories, protein, fat, and carbohydrates.

The Weight Loss Potential of the Microbiome Enhancer Diet (MBD)

At the end of the study, despite similar calories, they observed a small but notable reduction in body weight in participants on the gut biome diet, attributed to increased fecal energy loss. Compared to the Western Diet (WD), the gut biome diet led to an additional loss of 116 ± 56 kcals in feces daily. The participants absorbed fewer ingested calories on the gut biome diet (89.5% absorbed) than on the Western-style diet (95.4% absorbed). This represented a difference of 116 calories lost in feces between the two diets. This study highlights the important of the gut biome and weight loss.

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Evidence based musclePrecision Nutrition: The Future of Weight Management

While the gut microbiome’s influence on weight is evident, there’s significant inter-individual variability in response to dietary interventions. This calls for a more personalized approach. Precision nutrition aims to tailor nutritional recommendations based on an individual’s genetic, metabolic, and gut microbiome profile. (Davis, 2016) Such an approach could optimize weight loss outcomes and overall health.


In conclusion, we still need to learn a lot about the gut microbiome, but the preliminary findings are intriguing. As fitness enthusiasts and athletes, harnessing this knowledge can provide an edge in achieving weight loss goals. Understanding and nurturing our gut can potentially unlock more effective and sustainable weight loss strategies. As research unravels the gut’s mysteries, one thing is clear: a healthy gut is a cornerstone of a healthy body.


Aoun, A., Darwish, F., & Hamod, N. (2020). The Influence of the Gut Microbiome on Obesity in Adults and the Role of Probiotics, Prebiotics, and Synbiotics for Weight Loss. Preventive Nutrition and Food Science, 25, 113-123.

Corbin, K. D., Carnero, E. A., Dirks, B., Igudesman, D., Yi, F., Marcus, A., Davis, T. L., Pratley, R. E., Rittmann, B. E., Krajmalnik-Brown, R., & Smith, S. R. (2023). Host-diet-gut microbiome interactions influence human energy balance: a randomized clinical trial. Nature Communications, 14(1), 3161.

Davis, C. D. (2016). The Gut Microbiome and Its Role in Obesity. Nutr Today, 51(4), 167-174.

Heiman, M. L., & Greenway, F. L. (2016). A healthy gastrointestinal microbiome is dependent on dietary diversity. Mol Metab, 5(5), 317-320.

Hruby, A., & Hu, F. B. (2015). The Epidemiology of Obesity: A Big Picture. Pharmacoeconomics, 33(7), 673-689.


Lozupone, C. A., Stombaugh, J., Gordon, J. I., Jansson, J. K., & Knight, R. (2012). Diversity, Stability and Resilience of the Human Gut Microbiota. Nature.

Moschen, A. R., Wieser, V., & Tilg, H. (2012). Dietary Factors: Major Regulators of the Gut’s Microbiota. Gut Liver, 6(4), 411-416.

Qin, J., Li, R., Raes, J., Arumugam, M., Burgdorf, K. S., Manichanh, C., Nielsen, T., Pons, N., Levenez, F., Yamada, T., Mende, D. R., Li, J., Xu, J., Li, S., Li, D., Cao, J., Wang, B., Liang, H., Zheng, H., . . . Wang, J. (2010). A Human Gut Microbial Gene Catalogue Established by Metagenomic Sequencing. Nature.

Sweeney, T. E., & Morton, J. M. (2013). The Human Gut Microbiome: A Review of the Effect of Obesity and Surgically Induced Weight Loss. JAMA Surgery, 148(6), 563-569.

Turnbaugh, P. J., Hamady, M., Yatsunenko, T., Cantarel, B. L., Duncan, A. E., Ley, R. E., Sogin, M. L., Jones, W., Roe, B. A., Affourtit, J. P., Egholm, M., Henrissat, B., Heath, A. C., Knight, R., & Gordon, J. I. (2008). A Core Gut Microbiome in Obese and Lean Twins. Nature.

What is the gut biome diet and how does it work?

The gut biome diet focuses on improving the health and diversity of the bacteria in your gut, which plays a crucial role in digestion and overall well-being. Additionally, it involves consuming a variety of whole foods, high in fiber, and fermented foods to promote a healthy gut microbiome.

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