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What Does Research Show About the Importance of Our Gut Microbiome

gastrointestinal-health

January 20, 2025
Render of an intestine

A biome is a unique ecosystem characterized by the organisms that live in it. Each person has a miniature biome living on and inside them made of microorganisms — tiny living organisms too small to see with your naked eye. Most people have about ten times more microorganisms living on their bodies than human cells.

While some microorganisms can cause disease, the organisms in your gut play an important role in many essential functions that keep you healthy. Continue reading to learn more about the importance of your gut microbiome.

What Is Your Gut Microbiome?

Your gut is another way of saying your gastrointestinal (GI) system or your digestive system. It includes your stomach, small and large intestines, and colon. Your gut microbiome includes all of the microorganisms that naturally live inside of your gut.

Each person has a completely unique gut microbiome that includes trillions of microorganisms, including many different species of:

  • Bacteria
  • Viruses
  • Fungi
  • Parasites

Research so far has mostly focused on the bacteria present in your gut. Although viruses, fungi, and parasites also have important functions, we know the most about what the bacteria in your gut do. Bacteroidetes and Firmicutes species are often the focus of research.

The first organisms in your gut microbiome are those you inherit from your birth mother during vaginal birth or breastfeeding. Your gut microbiome continues to develop as you’re exposed to new microorganisms in your diet and environment.

Most of the microorganisms found in your gut are beneficial to you. However, a small number are pathogenic — harmful microbes that cause disease. Everyone has some pathogenic microbes. When you’re healthy, the helpful and pathogenic microbes coexist in a balance that doesn’t cause any problems. If the balance is disturbed for any reason, it can throw off the balance between helpful and harmful microbes and cause problems. We’ll talk about what factors can disturb this balance later in this article.

What Does Your Gut Microbiome Do?

Some health experts describe the gut microbiome as an invisible organ. Your gut microbiome has many functions in several different body systems.

Digestive System

The microbes that live in your digestive system help you break down your food and make important nutrients you need to stay healthy.

Breaking Down Fiber and Carbohydrates

The bacteria that live in your gut help you break down fiber and some complex carbohydrates that your body has difficulty doing on its own. Not only do the bacteria help us break down fiber, but they make short-chain fatty acids (SCFAs) as a byproduct. SCFAs help to keep the lining of your gut healthy. Additionally, they can act as an anti-inflammatory and help to regulate your immune system — we’ll discuss this more below.

Making Vitamins

Gut bacteria also help us make certain essential vitamins, including:

  • Vitamin B1 — also known as thiamine. This vitamin helps convert sugar into energy and keeps your nerves healthy.
  • Vitamin B9 — also known as folate. This vitamin helps make red blood cells.
  • Vitamin B12 — also known as cyanocobalamin, this vitamin helps with nerve function, RBC formation, and energy production
  • Vitamin K — a vitamin that’s essential to helping your blood clot properly

Although you can get these vitamins from the food you eat, your gut microbiome makes sure you have enough of these important vitamins.

Recycling Bile

The bacteria in your gut help to break down bile so it can be reabsorbed and sent back to your liver in a process called enterohepatic circulation. Bile is a digestive fluid made by your liver that helps you break down and absorb fats. Once the bile has done its job, your gut bacteria help recycle it.

Without gut bacteria, your liver might not be able to make enough bile. Without bile, you will have trouble getting the nutrients you need from food.

Immune System

Your immune system is a network of organs and cells that help protect you from pathogens and help you heal. At first, it may seem strange that bacteria and viruses actually help your body in the fight against other bacteria and viruses that can cause illness. However, your gut microbiome plays an important part in this process.

Immune System Training

Recognizing and attacking foreign invaders — such as bacteria and viruses — is one of your immune system’s main jobs. The beneficial bacteria and viruses in your gut can help train your immune system to tell the difference between beneficial bacteria and harmful ones.

Outcompeting Harmful Bacteria

Another way that your gut microbiome helps protect you from harmful pathogens is by taking up more real estate on and in your body. The more good bacteria you have living in your gut, the less room there is for harmful ones. Research has found this is helpful in preventing infections from harmful bacteria, such as Clostridioides difficile (C. diff) and Helicobacter pylori (H. pylori).

Reducing Inflammation

The SCFAs that your gut bacteria produce as they help break down fiber can also help reduce inflammation and prevent infection. One way SCFAs do this is by helping to maintain the barrier between your gut and your bloodstream. This helps to prevent bacteria inside your gut from escaping and entering the rest of your body.

SCFAs can help suppress unwanted inflammation that can harm your body. Harmful inflammation can occur in autoimmune disease, where your immune system mistakenly attacks your own healthy tissues.

Nervous System

Render of a nervous system of a brain

Your nervous system is the part of your body that helps you think, move, and feel. It consists of your brain, spinal cord, and nerves.

The microbiomes in your gut play an important part in the gut–brain axis — a two-way communication between your digestive system and your brain. Bacteria can encourage your body to make certain neurotransmitters (chemical signals your brain uses to communicate) and other chemicals that are released into your bloodstream and travel to your brain.

Researchers have learned that the microbes in your gut play an important role in disorders of gut–brain interaction, previously known as functional gastrointestinal disorders. One example of a disorder of gut–brain interaction is irritable bowel syndrome (IBS), which affects up to 15% of people in the United States (US).

Endocrine System

Your endocrine system is a network of organs that regulate hormones. Hormones are chemicals that help different organs in your body communicate with each other. Almost every aspect of your health is regulated by hormones.

The endocrine cells in your gut make up the largest part of your endocrine system. These cells help regulate hormones related to your metabolism and hunger. It’s believed that your gut microbiome can interact with the endocrine cells in your gut to affect hormone levels.

What Factors Can Affect Your Gut Microbiome?

When the balance of your gut microbiome is disrupted, it’s called dysbiosis. You may have dysbiosis if you have too few beneficial bacteria, too many harmful bacteria, or a lack of diversity in your gut microbiome. Dysbiosis in your gut can cause symptoms such as bloating, stomach pain, and changes in bowel habits (the frequency and consistency of your poop). Several factors can affect your microbiome and cause dysbiosis.

Diet

The microbes in your gut help you break down the food you eat, so it makes sense that your diet can have a direct effect on them. Your gut bacteria need fiber to survive. In exchange for dietary fiber, the bacteria give us beneficial SCFAs. A low-fiber diet makes it harder for beneficial bacteria to thrive and make SCFAs.

Research in mice has found that a diet high in fat can change the microbiome in a way that predisposes the mice to obesity and conditions related to obesity. Another study in mice found that eating the artificial sweetener sucralose (often sold as Splenda) can change the types of microbes in the gut and encourage inflammation. More research is needed to find out how these dietary habits may affect humans.

Antimicrobials

Antimicrobials are drugs that kill microbes that cause infection. Collateral damage to your gut microbiome is a common side effect of taking antibiotics (antimicrobials that kill bacteria). While antibiotics can help kill bacteria causing disease, they may also kill some of the good bacteria in your gut. This imbalance can result in an overgrowth of harmful bacteria, such as C. diff, which can cause potentially life-threatening diarrhea.

Chemicals

Exposure to certain chemicals can disrupt your gut bacteria, such as:

  • Traffic-related air pollution
  • Flame retardants
  • Heavy metals
  • Pesticides

If you’re exposed to these chemicals, it may change your gut microbiome, affecting your risk of developing health conditions such as Alzheimer’s disease and heart disease.

Stress

High stress levels over a long period of time can cause dysbiosis that triggers inflammation. This inflammation may affect health conditions such as depression and inflammatory bowel disease (IBD).

What Health Conditions Are Related to Your Gut Microbiome?

As researchers have continued to learn more about how important your gut microbiome is to your health, they have also discovered how dysbiosis can affect it. A link between several health conditions and your gut microbiome has been discovered.

Inflammatory Bowel Disease

A person suffering from a stomach pain

IBD is a group of autoimmune conditions that can cause severe symptoms such as diarrhea, stomach pain, bleeding, and weight loss.

Several studies have discovered that people with IBD have less diversity in their gut microbiome. This means that there are fewer types of bacteria. This is so common in people with IBD that it’s even part of the criteria to diagnose the disease.

Obesity and Related Health Conditions

Several studies in humans and mice have found that certain changes in the gut microbiome are linked to the development of overweight and obesity. Researchers are still learning how gut bacteria can influence this. It’s thought that it may be related to SCFAs and inflammation.

Your gut microbiome can also influence the development of other health conditions related to obesity, including high blood pressure and diabetes.

Heart Disease

Certain bacteria have been linked to the development of heart disease. Studies have found that people with heart disease often have dysbiosis, with fewer good bacteria and more harmful bacteria. Some of the harmful bacteria can make a chemical called trimethylamine-N-oxide (TMAO). TMAO plays an important role in the development of atherosclerosis (hardening of the arteries), a leading cause of heart disease.

Liver Disease

Researchers have found that specific changes in the gut microbiome are linked to a liver disease called metabolic dysfunction-associated steatotic liver disease (MASLD), previously known as non-alcoholic fatty liver disease (NAFLD). MASLD is a condition linked to obesity that causes fat buildup in the liver that can eventually lead to serious liver problems and liver failure in some people.

Neurological Disorders

Neurological disorders are conditions that affect your brain or nerves. Recent research has found that dysbiosis may make people more susceptible to several neurological disorders, including:

Cancer

Studies have found that there may be a link between colon cancer and alterations in the gut microbiome. Researchers don’t know exactly how gut bacteria may affect the development of colon cancer. It’s thought that it may have to do with changes in the immune system.

Infections

If you have fewer good bacteria in your gut, it may be easier for harmful bacteria to find room to grow. Dysbiosis can also affect your immune system.

How Can You Take Care of Your Gut Microbiome?

Now that you know more about how your gut microbiome can affect your health, you may be wondering what you can do to help prevent dysbiosis.

Here are a few tips to help promote a healthy gut microbiome:

Talk to your physician about other ways you can help protect your gut microbiome based on your individual needs.

Articles authored by Dr. Connor are intended to facilitate awareness about health and wellness matters generally and are not a substitute for professional medical attention or advice from your own healthcare practitioner, which is dependent on your detailed personal medical condition and history. You should always speak with your own qualified healthcare practitioner about any information in any articles you may read here before choosing to act or not act upon such information.
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