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Soil-Based Organisms and the Human Microbiata

September 30, 2025 6 min read

Why the daily repopulation of internal microbial populations are essential to overall health and emotional well being

Topics in this article:

Microbes From Nature

Soil Microbes that Make Us Feel Happy

The Beneficial Role of Pathogenic Microbes and What You Can Do to Reduce Their Numbers Naturally

10,000+ Different Microbial Species in the Human Body, 38 Trillion Total Bacteria

Images of various archaea

Q: If the goal is to replenish the human gut microbe community, why would a probiotic consist of soil-based organisms? 

Soil-based organisms are for soil, are they not?  Why not culture beneficial human-based microbiota instead of soil-based organisms?

A: This is a valid question.  It drives at the difference between the fundamentally scientific approach and the approach designed by Nature.

Microbes From Nature

Bottom line is, the human body was originally made from the "clay" of the Earth.  Clays commonly contain friendly bacteria and archaea, both of which are found throughout the human body (archaea help digest fibrous material, decompose dead cell debris, boost immune response powers, and support digestive balance, among other roles more recently discovered.).

The world of beneficial microbes date back over 3.5 billion years, and still play beneficial roles, including carbon fixation, nitrogen cycling, soil building through organic compound decomposition, and maintaining microbial symbiotic (compatible) and syntrophic (feeding off of each other) communities within the human body.

The organisms that exist in the body today were first derived from the soil, further derived from our mothers during birth and breast feeding, and replenished from the soil when walking barefoot, when digging in the healthy garden earth, or when eating unwashed, self-grown garden produce.

Beneficial bacteria and archaea populations in the gut resemble ratios also found in earthen sources—clay, humate, soil, and ocean environments.

Thus, the best way to preserve these beneficial microbes for human ingestion is in their own natural habitat and their most protective environment—naturally occurring clays and humic earth. 

For this reason our Friendly Flora formula is preserved in a base of Humic/Fulvic Earth and Sacred Clay.

Both friendly bacteria and archaea are particularly abundant within clays, humate (ancient composted forests or sea bed plants), among the sea life in the oceans, and in volcanic vents. 

Diagram of archaea species associated to the human body

Closely related to bacteria, various strains of archaea play a major role in numerous areas of life on and within the Earth: within underground waterways and volcanic flows, with the soils on the surface, within plant life, animal life, and within the human body.  They are part of the microbiota of all organisms.  In the human microbiome, they are particularly helpful in the gut, mouth, and on the skin.

Science has tried to make us believe that only laboratories and chemically-dependent food farms can design something safe for the human body. 

Common sense and science tells us otherwise.

Soil Microbes that Make Us Feel Happy

Soil microbes are typically better and safer at lifting moods than chemical medications.

The soil organism, mycobacterium vaccae, has been scientifically associated with decreasing anxiety and increasing serotonin. This helps explain the joy and serenity experienced by gardeners.

Researchers found that the presence of the bacteria Mycobacterium vaccae (which is common in soil and not pathogenic to humans) created an immune response that stimulated serotonin sensitivity in the certain parts of the brain.  A couple of things to take note of here:  First, not all immune responses are bad.  They are simply signals.  Secondly, this bacteria’s presence in the gut results in actual behavioral modifications via serotonin which has a happy, calming effect.  

Other microbes, like those of the Lactobacillis genre, assist in the digestion of our food, and the assimilation of nutrients. 

Soil-based microbes also benefit the immune system.  This explains why children raised on chemical-free, organically grown farms have fewer allergies and illnesses than children raised in the cities or on farms that use chemicals.  

The Beneficial Role of Pathogenic Microbes and What You Can Do to Reduce Their Numbers Naturally 

For humans, the earth is the primary source of biotics in general.  Well-composted soils mean "already balanced by Nature" in a microbial sense.

Soil biology has thousands of beneficial microbes in it.  It can also have what some would call "non-beneficial microbes" if the soil is polluted or out of balance.  These are referred to as pathogenic microbes, although their real function is to consume the pollutants so that balance can eventually be restored.

The health of a soil and the health of a human body is utterly dependent upon striking a proper balance between pathogenic and beneficial microbes.

Once brought back into balance the pathogenic microbes die off, or are consumed by the friendlies, until they achieve normal background levels. 

They both play a role in the health of the soil—one decomposing dead plant material or the breakdown of pollutants in the soil into harmless components, the other by improving nutrient uptake by the plant roots. 

So in that sense, there are only friendly microbes.

This is the way of Nature in the soil.  This is also the way of Nature in the body.

When the human body gets out of balance from diet, or toxins, or worry, pathogenic microbes can get the upper hand—simply because their natural food source is dominant in the body. 

In some cases these happen to be an excess of hormones from negative thought patterns and emotions.  In other cases there are excesses of sugar, fat, or undigested food feeding the gut flora and parasites.

The answer, rather than take destructive antibiotics or anti-fungals, is to fast from the foods that feed them and take natural immune enhancer and digestive herbs to restore balance in the whole biological terrain.  (Immune Power, Parasite Venom Detox, Digestive Bitters, Herbal C)  

From a mental/emotional standpoint, solutions to life challenges and difficulties are more readily discovered by remembering the infinite nature of life and infinite possibility that remains within your grasp as you shed beliefs in limitation, victimhood, and isolation from the intrinsic powers of Life that live within each one's heart, just waiting for us to tap them.  To grasp this principle in a deeper way go here:  Life Chats: The Secret to Exiting the Matrix

Your beneficial microbes will naturally regain the dominant role when the body is brought back into balance through correct diet, lifestyle, and attitude.

10,000+ Different Microbial Species in the Human Body, 38 Trillion Total Bacteria

Researchers now calculate that more than 10,000 microbial species occupy the human ecosystem, while the total number of bacteria in the human body is estimated to be around 38 trillion, weighing just under 1/2 lb (0.2 kg) in the average body.  The most predominant bacteria in the intestines are the Lactobacillus, the Bifidobacterium, and the Bacillus genera. 

It is for this reason that it is so important to keep friendly microbial numbers steadily multiplying in the body, so as to offset the destructive effects of antibiotics, chemicalized city water, harmful ingredients in food products (like farm chemical sprays and fertilizers, and the new toxic Apeel antifungal preservative spray now approved for organic produce, etc.) 

It is for this purpose our Friendly Flora contains the following eight non-competing species of probiotics supplemented in a protective humate/clay base with several prebiotic sources to activate rapid repopulation of natural gut floral balance (read The Secret to a Successful Probiotic Replenishment Program for a more thorough understanding of the importance of non-competing probiotics and prebiotic sources):

Lactobacillis Acidophilus,
Bifidobacterium Bifidum,
Bacillus Licheniformis,
Bacillus Subtilis,
Lactobacillus Lactis,
Lactobacillus Casei,
Lactobacillus Rhamnosus,
Lactobacillus Plantarum

Several species found in the intestines can be easily found in Nature and cultured in a laboratory for probiotic supplements (thus the source of "soil-based organisms" (SBOs).

Others found in the intestines do not culture well outside of their natural soil or biological environments, thus, the importance of ingesting soil (like clay or humic/fulvic earth) or maintaining regular contact with quality, chemical-free soil to derive the benefits of a broad spectrum of soil-based organisms and their beneficial properties in human health, both physical and psychological.

For all of these reasons, and many more, you can see why we are proponents of deriving our microbes from soil sources, i.e. eating clay and humic earth containing their own variety of naturally occurring soil-based organisms, especially when combined with additional amounts of known species beneficial for human gut health.

It is important for any cultivated beneficial microbes to be housed within a humate/clay base:

  • for protection from stomach acids,
  • for future propagation within the small and large intestines,
  • as well as for a long shelf life without refrigeration.

All of these benefits can be found in our Friendly Flora formula.

All the best of health & happiness,
enjoy the simple gifts from Nature!

Michael King
Michael King

Michael King is a Life Enrichment Consultant, a natural intuitive, a researcher of Nature's most powerful healing resources the world over, the author of "Detoxify, Nourish & Build – Three Essentials for Vibrant Health", the Vital Health News Updates – a periodic newsletter documenting the most life-building natural resources on the planet, The Blessing Transformation, and the co-author of Life Chats with Oversoul – an ongoing dialogue designed to gain clarity and direction while navigating the immense changes going into the New Era. Michael is also an advocate of sustainable gardening, environmental responsibility, and an architect of ways to increase global food production.



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