Secrets to Human Microbiome: Working with Your Internal and External Microbes for Overall Wellbeing

Right at this very moment, there are literally trillions of microorganisms living on and inside your body. The good news is, not all of them would harm your health. Some are even essential to your overall wellbeing. Quite a revelation, right? If this shocked you, you would love to learn more from this blog post! Welcome to the secret world of human microbiome.

The most common misconception is all bacteria and other microorganisms cause us to get sick. As science progresses, more studies reveal how certain types of bacteria and other microbes help us not only to improve our immune system but also ensure that our body and brain perform at its best. It has also been established that there are ways to make it sure that we “breed” the right microbes inside our body. Before anything else, let’s define terms first.

Definition: Microbes, Microbiota, and Microbiome

Microbe is a generic term for all living microscopic organisms (1). This applies to Bacteria, Fungi, Archea, Viruses, Protists and other Microscopic Animals. Microbiota, on the other hand, is a community or collection of microbes. Microbiome is the entire ecosystem of multiple microbiota. (2) Each human being hosts a unique microbiome that can reveal a lot about his health, well being, and other biological information.

Understanding the Dynamics of Human Microbiome

The human microbiome is a fascinating microscopic jungle. The microbes that we host don’t exclusively live inside us.  They’re also on and around us. There’s actually a layer of microbes around our body and each of us gives off unique sets and amount of microbes to our surrounding. (3) In the future, experts say that our unique microbiome can be used for practical purposes such as identifying people involved in a crime scene by identifying their Microbiome “footprints”. (4)

Understanding the different microbes in one’s microbiome can reveal a lot of information about a person. It’s considered as our “genetic footprint”. By indentifying the microbes in our body, experts can find out our vulnerabilities to certain diseases, hereditary disposition, body type, and other bio profile. Since each of organ houses different microbiota, experts can now determine how a specific organ performs by just studying the communities of microbes in it. For example, our gut can reveal different information about our diseases, mental function, and behavior.

The good news is we can influence how our microbiome affects our overall well being by managing our diet, stress, and lifestyle. We can nourish and breed the “good bugs” in our microbiome in our favor.  The more experts find out the unique microbes in a person’s body, the better they understand how he would react to different stimuli. (5)

To put things into perspective here’s the human microbiome by the numbers:

  • We emit 10 microbes per hour (6)
  • We have at least 10-100 trillion microbes in our body. The majority can be found in out guts. (7)
  • 10:1 is the ratio of human microbes to our human cells. (8)
  • There is about four pounds of biomass inside our gut and more than three million typed of microbes in it. (9)
  • The gut of an average human being has at least 160 bacterial species. There are at least 1,000 known bacteria in human digestive gastrointestinal tract.(10)
  • The average human body has 30-40 trillion cells. The human microbiome at least doubles that number. (11)
  • 90% of our diseases can be traced back to the microbes inside our gut.
  • Human cells are 99.9% identical to one another. 80-90% of each person’s microbiome is different from another.
  • By the time you’re three years old, your entire human Microbiome is expected to be stable. (12)

As scientist find out more about our microbiome, more and more figures will articulate how this wild jungle really looks like.

How Your Gut Health Can Make or Break You

Since 2016, there are more than 17,000 studies about the health of our gut. (13) It’s been getting more attention compared to other organs in our body for a reason. At least 90% of diseases known to man can be traced back on how healthy our gut is. Gastrointestinal microbes have provided experts the insights into many health conditions and also have been linked to following diseases:

  • Ulcerative colitis
  • Inflammatory bowel disease (IBD)
  • Metabolic syndrome
  • Autoimmune diseases
  • Leaky gut syndrome
  • Chronic fatigue syndrome (CFS)
  • Cancer
  • Brain Disorders and cognitive decline (Alzheimer’s and dementia)
  • Cancer
  • Mood Disorders (like depression)
  • Allergies, asthma, and other sensitivities

There are many beneficial microbes inside our gut that fight potential invasion of other bad bacteria. According to Dr. Rodney Berg of Louisiana State University in his study, the gut microbiota influences how our immune system responds to pathogens that harm our health. (14) Generally, babies who received breast milk have stronger immune system than those who just consumed formula milk. Breast milk contains a high amount of microbes with anti-inflammatory properties that has lifelong effects on one’s immunity. (15)

The gut microbes also help us in digesting our food and even production of hormones, essential amino acids, and vitamins. (16 ) So if you want your body to have an efficient way to consume food and stable mental health, keeping the gut healthy should be one of your priorities. It’s a matter of how we “cultivate” these good microbes (probiotics) to our advantage.

The gut microbes are now also directly linked to fertility, brain development, and even longevity.

Hacking Your Gut Microbiota with Probiotic-friendly Diet

Now that we understand the role of our gut in our overall wellbeing, it’s about time to learn how we can help it help us leverage its mechanisms that support good bacteria. One of the ways to ensure we’re helping the good microbes is through our diet.

By keeping a probiotic-friendly diet, we help our gut to perform the functions that it should be doing to keep us healthy. Diet with high fat, refined sugar, and low fiber is thought to weaken the gut’s microbial diversity. (17) Some of the most highly recommended probiotic foods are the following:

  • Yogurt – This is fermented milk with probiotics like bifidobacteria (18) and lactic acid bacteria. Yogurt helps people with hypertension (19). Choose the ones with live bacteria. If you have lactose intolerance, this is not for you.
  • Kefir – This is another fermented milk drink made from cow’s or goat’s milk mixed with Kefir grains. Science says that Kefir is a better version of yogurt because even people with lactose intolerance can consume this beverage without having a problem. There are also studies that conclude it can strengthen our bones (20), improve digestion (21), and protect us from infection (22)
  • Sauerkraut – It’s finely cut fermented cabbage in an airtight container. Make it sure that you choose the unpasteurized Sauerkraut. It’s rich in antioxidants like lutein and zeaxanthin (23)
  • Tempeh – It’s fermented soybean which is high in protein. The fermentation process enhances the amount of vitamin B12 in it. (24)
  • Kimchi – It’s a Korean side dish that is similar to Sauerkraut but it’s spicy and mainly made from fermented cabbage added with other spices and seasonings. It contains lactic acid bacteria that helps our digestive system (25)
  • Miso – It’s a popular Japanese seasoning made from fermented soybean paste. Good source of fiber, several vitamins, phytonutrients and minerals including vitamin K, copper and manganese. There’s a study that says it helps to lower the risk of breast cancer among Japanese women. (26)

Another type of food that you should have in your diet is anti-oxidant food. Top foods with high level of anti-oxidants are the following:

  • Goji berries,
  • Wild blueberries
  • Dark chocolate
  • Pecans, Artichoke
  • Elderberries
  • Kidney beans
  • Cranberries
  • Blackberries
  • Cilantro

Whenever possible, you should also include the following herbs with high level anti-oxidant to your diet:

  • Clove
  • Cinnamon
  • Oregano
  • Turmeric
  • Cumin
  • Parsley (dried)
  • Basil
  • Ginger
  • Thyme

This is not a complete list. There are other foods that you should include in your diet. Needless to say, fresh vegetables should always be included in your diet.

Lifestyle Improvement to Culture the Right Bacteria

Aside from proper diet, there are lifestyle adjustments that you should make to accommodate the good microbes of your body. One of these is managing stress. Stress preoccupies your body by keeping you in a fight or flight mode. In this state of your body, your immune system diverts its energy to focus on the “danger” caused by stress. It’s not actively fighting infections. When you’re susceptible to infection you’re more likely to develop high-level inflammation. Stress triggers the production of compounds called cytokines that worsen your body’s inflammatory response. This might lead to damaging your healthy cells.

The good news is, stress can be easily managed by exercising. It’s a natural stress reliever. You can never go wrong with exercising. There are also studies supporting the role of exercise in improving your gut microbiota especially endurance type exercise. (27)

Another important change that you have to make is the use of antibiotics. This may not be a significant lifestyle change but it is a growing concern for the medical world. There are microbes that become immune to antibiotics over time. (28) Antibiotics are lifesavers but it has to be reserved for severe cases of infections. There are alternatives that your doctors can prescribe instead of using antibiotics all the time. There may be uncalculated risks that may arise from excessive use.


  • The human microbiome is a complex jungle of microscopic organisms that live with our body. There are organisms that help our body function better and there are also some that may cause detriments to our overall wellbeing.
  • Largest microbiota is in our guts. The gut is our second brain because of the influence that it can do on our overall bodily function with the help microbes living there.
  • Gut health can make or break your health.
  • You can improve your gut health by being mindful of your diet, lifestyle, stress level, and minimal use of antibiotics.

Read more on digestion

We’re told to constantly wash our hands growing up – wash before dinner, wash after we use the restroom, and wash after we pet the dog. Many other countless times our parents are urging us to be cleaner, asking us to shower more often and keep a clean and dust free room. As adults, some of us have taken those habits to the extreme, avoiding germs like the plague. Often called germaphobes, these individuals are constantly afraid that germs will make them sick, so they aim to live as sterile of a life as possible.

It’s surprising that there is such sensitivity around poop – after all, how your gut functions, resulting in the elimination of waste, is a crucial indicator of the health of your entire body. A healthy gut contributes not only to your body’s well-being but also to your mental state. Constipation, lack of nutrients, and bowel disorders all have an effect on your moods.

Have you had odd symptoms that negatively affect your health, but they often seem to come and go? Or maybe suddenly you’re experiencing reactions to certain foods that you never used to before, and you’re left clueless as to why? It’s possible that you could have an autoimmune disease, although actually diagnosing it as such can take many years.

If you’ve noticed changes in your body that you can’t explain, what are the chances that it might be related to your intestines? While it might seem hard to believe, things like eczema, anxiety, having a harder time battling the common cold, and a whole host of other issues can be linked to something called leaky gut. (1) Also known as intestinal permeability, it’s caused by a breakdown of the lining of your intestinal wall and it actually allows tiny food particles to pass through the intestine into the bloodstream. This can lead to widespread inflammation and is often the cause of a lot of digestive problems and autoimmune conditions.

Our intestines do more work than we give them credit for, with the ability to process the food we eat and utilize the nutrients for the health of our bodies all while we go about our daily lives. Individuals who may indulge in less than healthy diets could be doing damage to their intestines without even knowing it, and their digestive problems might be a result of something called leaky gut. Termed a medical gray area by physicians across the world, not much is known about this condition except that it can cause symptoms that make life difficult, including gas, bloating, and cramping after eating certain foods. (1) Also called intestinal permeability, it’s thought to be linked to a wide variety of ailments including:

Your digestive system includes the gastrointestinal (GI) tract as well as the liver, pancreas, and gallbladder. When you eat, food first enters your mouth, before passing down the esophagus into the stomach. From here, it travels through the large and small intestines, before reaching the rectum/anus. At every different stage, various enzymes, gut flora, bacteria, the blood supply, and hormones are assisting in the complex digestion process.


Dr. Steve Burlison has a mission to provide the highest quality natural health care in the country to you and your family. Start the conversation today. Get you’re FREE Digestive Disorder or FREE Hormone Balance Report and start healing today.

We are your Functional Medicine experts. We specialize in customizing a wellness plan to help you overcome your health concerns.


  • 1580 S. Milwaukee Ave. Suite-102, Libertyville, IL
  • 1.847.680.9500


Find Us On Facebook!Follow-Us On InstagramCheck out our pins!Subscribe To Our Channel!Come Tweet With Us!Watch and Learn on Vimeo!Google PlusAdd Us To LinkedIn!