Autoimmune Disease

Autoimmune disease can be thought of as a case of mistaken identity: the immune system targets normal proteins as if they were harmful foreign invaders and becomes overactive. Autoimmune disorders are diseases that occur when the body produces an inappropriate immune response against its own tissues. At the core of the immune system is the ability to tell the difference between self and non-self: what’s you and what’s foreign.

Normally, the immune system responds to a specific pathogen, like a cold virus, and once that pathogen is cleared, the immune system can settle down to its normal state. A flaw can make the body unable to tell the difference between self and non-self. When this happens, the body makes autoantibodies that attack normal cells by mistake. At the same time special cells called regulatory T cells fail to do their job of keeping the immune system from unnecessarily staying on high alert, resulting in chronic inflammation. The result is a misguided attack on your own body. This causes the damage we know as autoimmune disease. The body parts that are affected depend on the type of autoimmune disease. There are more than 80 known types.


Although each disease is unique, many share hallmark symptoms, such as fatigue, dizziness, and low-grade fever. For many autoimmune diseases, symptoms come and go, or can be mild sometimes and severe at others. When symptoms go away for a while, it’s called remission. Flares are the sudden and severe onset of symptoms.

Overall, autoimmune diseases are common, affecting more than 40 million Americans. They are a leading cause of death and disability. Yet some autoimmune diseases are rare, while others, such as Hashimoto’s disease, affect many people.

Autoimmune diseases can affect anyone. Yet certain people are at greater risk, including:

Women of childbearing age — More women than men have autoimmune diseases, which often start during their childbearing years.

Iodine absorption falls in the human gut when estrogen levels rise from any cause.

This helps explain why women have much higher rates of autoimmune diseases like Multiple Sclerosis and Hashimoto’s as well as hypothyroidism, than men. It also explains why women have less myelin formation than men in adulthood. Women have less iodine absorption by design. Women have higher estrogen levels to bear children. Lower levels of myelination allow women to be “more sensitive” to environmental triggers to pass that information to their offspring’s DNA. This now explains why women also make Diiodothyronine (T2) thyroid hormone from their ovaries and breasts. This helps them offset their decreased ability to absorb iodine from their guts.

In women, iodine is also critical in making breast milk, tears and saliva. The higher your estrogen level, or the lower your sex-hormone binding globulin (SHBG) level, the more likely your eyes, mouth, skin and vagina will be dry. You also won’t make a lot of breast milk to feed a child. Your ability to sweat will also be altered.

During child bearing years, women are designed to be more sensitive to environmental triggers by evolutionary design, to pass environmental information on to their offspring. But once women have exhausted their egg supply from their ovaries, their estrogen levels plummet, and this allows them to increase the absorption of iodine from their gut. This is why autoimmune diseases tend to improve as women become post-menopausal and when they are pregnant.

Progesterone predominates in both situations, and it supports two important nerve growth and maintenance factors, brain derived neurotrophic factor (BDNF) and nerve growth factor (NGF) along with myelin repair. This also should give many women pause before they jump to take birth control pills, which usually have some real or fake estrogens in them. This is also why breast cancer is related to low iodine and low vitamin D levels. It is another reason to think twice about estrogen replacement for post menopausal women, and consider progesterone instead.

Iodine and progesterone favor water retention and brain growth. This is why high progesterone levels are favored in the third trimester of human pregnancy. This also supports myelin regrowth. Consistent high progesterone also favors subcutaneous fat growth for the child, so women should not use an excessive amount of exogenous progesterone supplementation in menopause. Fat men have the same concerns since they have excess estrogen production due to the aromatization of testosterone by fat cells.

People with a family history of autoimmune disease— Some autoimmune diseases run in families, such as lupus and multiple sclerosis. It is also common for different types of autoimmune diseases to affect different members of a single family. Inheriting certain genes can make it more likely to get an autoimmune disease. But a combination of genes and other factors may trigger the disease to start.

People who are around certain things in the environment — Certain events or environmental exposures may cause some autoimmune diseases, or make them worse. Non-native EMF,  chemical solvents, and viral and bacterial infections are linked to many autoimmune diseases.

People of certain races or ethnic backgrounds — Some autoimmune diseases are more common or more severely affect certain groups of people more than others. For instance, type 1 diabetes is more common in white people. Lupus is most severe for African-American and Hispanic people.

A three legged stool of autoimmune disease

Dr. Alessio Fasano, a world-renowned gastroenterologist, expert in autoimmune disease, and pioneer in understanding celiac disease, describes autoimmunity as a three-legged stool, meaning that three essential components are usually present in order for someone to develop an autoimmune disease:

1. Genetic predisposition: certain genes make individuals more likely to develop certain diseases.
2. A trigger: specific antigen, or protein, that the immune system recognizes as a threat (real or not), that sets off the cascade of over-activation. In the case of Celiac Disease, the trigger is gluten.
3. Intestinal permeability (also referred to as “leaky gut”): this increased permeability means that the normally tightly knit cells of the intestines are weakened and “leaky”. This allows large compounds, such as proteins from food or bacteria, entry into our bloodstream. Leaky gut can occur due to any number of reasons such a food sensitivities, gut infections, or chronic stress.

An additional component of the ‘trigger’ component mentioned above concerns the epigenetic effects that will lead to the development of autoimmune diseases. These various environmental ‘conditions of existence’ have a powerful effect on the operations of the immune system, with the results being either positive or negative as discussed in this post.

Modulating the Immune System

The immune system is the major protective arm of the body. It contains two major parts, cell mediated immunity and humoral immunity. These two parts of the immune system are imperative for protection of organ systems, integrating development of the organism as it grows from a fetus to an adult, and how the system adapts to pathogens it faces as it grows and ages. Moreover, this system has so much complexity that is can also be turned back upon itself and cause huge issues for the organism with autoimmune diseases. These can wreak havoc and cause early death and disease if not kept in check. This system works in tight balance and is built with many redundancies to protect from malfunction, but malfunction does happen if the cell faces the wrong environments with a mismatch. Examples would be the effect of human immunodeficiency virus (HIV) on cell mediated immunity, the lack of a functioning brain-gut axis, graft versus host disease, molecular mimicry, low vitamin D levels, or failures of the complement system in humoral immune response.

The immune system functions because of adequate amounts of circulating antibodies. Antibodies are proteins with a unique concave region (combining site) in which they can combine with foreign proteins (antigens). Antigens are most often surface molecules found on the membrane of invading or diseased cells. After the antigen and antibody combine, the new complex produces a number of changes that inactivate or kill the invading cell. This function is known as humoral or antibody-mediated immunity. Lymphocytes are the most numerous cells of the immune system and are responsible for antibody production. B-cells are lymphocytes that produce humoral immunity.

T-cells are lymphocytes formed in the thymus shortly before and after birth. When T-cells come into contact with foreign antigens, the antigen binds to protein on the surface of the T-cell, making it sensitized. Sensitized T-cells destroy invading pathogens by releasing a specific and toxic poison to the cells of bound antigens. T-cells can also indirectly destroy toxic invaders by releasing a substance that attracts macrophages to the area that will ingest and destroy (phagocytose) the pathogen. This function is known as cell-mediated immunity. T-cells regulate natural killer cell activity and the body’s inflammatory response to disease.

T-cells can further divide into T helper lymphocytes (Th) and cytotoxic T cells (Tc) or suppressor cells. In response to a foreign pathogen, T-cells secrete communication molecules known as lymphokines, cytokines, interleukins, and interferons. T-helper cells assist B-cells and further divide into two special lines of defense. These are Th1 and Th2 (two types of T helper cells). When one of these lines (Th1 or Th2) over-expresses, an opportunity for immune dysregulation occurs, resulting in either a hyper-immune response causing autoimmune disease or a hypo-immune response leading to uncontrollable infection.

In a healthy body, circulating antibodies attack and destroy pathogenic invaders by means of humoral or cell-mediated immunity. In autoimmune disease, circulating antibodies seek, attack, and destroy self-antigens found in healthy tissue.

In response to various epigenetic trigger(s), the immune system may begin producing antibodies that instead of fighting infections, attack the body’s own tissues. Any disease in which cytotoxic cells are directed against self-antigens in the body’s tissues is considered autoimmune in nature. Examples of autoimmune diseases include:
Rheumatoid arthritis. The immune system produces antibodies that attach to the linings of joints. Immune system cells then attack the joints, causing inflammation, swelling, and pain. If untreated, rheumatoid arthritis causes gradually causes permanent joint damage.
Systemic lupus erythematosus (lupus). People with lupus develop autoimmune antibodies that can attach to tissues throughout the body. The joints, lungs, blood cells, nerves, and kidneys are commonly affected in lupus.
Inflammatory bowel disease (IBD). The immune system attacks the lining of the intestines, causing episodes of diarrhea, rectal bleeding, urgent bowel movements, abdominal pain, fever, and weight loss. Ulcerative colitis and Crohn’s disease are the two major forms of IBD.
Multiple Sclerosis (MS). The immune system attacks nerve cells, causing symptoms that can include pain, blindness, weakness, poor coordination, and muscle spasms.
• Type 1 diabetes mellitus. Immune system antibodies attack and destroy insulin-producing cells in ,,the pancreas. By young adulthood, people with type 1 diabetes require insulin injections to survive.
Guillian Barre syndrome. The immune system attacks the nerves controlling muscles in the legs and sometimes the arms and upper body. Weakness results, which can sometimes be severe.
Psoriasis. In psoriasis, overactive immune system blood cells called T-cells collect in the skin. The immune system activity stimulates skin cells to reproduce rapidly, producing silvery, scaly plaques on the skin.
Grave’s disease. The immune system produces antibodies that stimulate the thyroid gland to release excess amounts of thyroid hormone into the blood (hyperthyroidism). Symptoms of Graves’ disease can include bulging eyes as well as weight loss, nervousness, irritability, rapid heart rate, weakness, and brittle hair.
Hashimoto’s thyroiditis. Antibodies produced by the immune system attack the thyroid gland, slowly destroying the cells that produce thyroid hormone. Low levels of thyroid hormone develop (hypothyroidism), usually over months to years. Symptoms include fatigue, constipation, weight gain, depression, dry skin, and sensitivity to cold.
Myasthenia gravis. Antibodies bind to nerves and make them unable to stimulate muscles properly. Weakness that gets worse with activity is the main symptom of myasthenia gravis.
Vasculitis. The immune system attacks and damages blood vessels in this group of autoimmune diseases. Vasculitis can affect any organ, so symptoms vary widely and can occur almost anywhere in the body.

Autoimmune Classifications

Disease                                                                   Antibody Action on

Myasthenia gravis                                                  Acetylcholine receptors

Graves’ disease                                                       Thyroid-stimulating hormone receptor

Thyroiditis                                                              Thyroid

Insulin-resistant diabetes (T2D)                             Insulin receptor

Asthma                                                                   Beta-2 adrenergic receptors

Juvenile insulin-dependent diabetes (T1D)           Pancreatic islet cells

Pernicious anemia                                                 Gastric parietal cells

Addison’s disease                                                  Adrenal cells

Idiopathic hypoparathyroidism                             Parathyroid cells

Spontaneous infertility                                          Sperm

Premature ovarian failure                                      Interstitial cells, corpus luteum cells

Pemphigus                                                             Intercellular substance of skin

Primary biliary cirrhosis                                        Mitochondria

Autoimmune hemolytic anemia                             Erythrocytes

Idiopathic thrombocytopenic purpura                    Platelets

Idiopathic neutropenia                                           Neutrophils

Vitiligo                                                                   Melanocytes

Osteosclerosis and Meniere’s disease                    Type-II collagen

Chronic active hepatitis                                         Nuclei of hepatocytes

Goodpasture’s syndrome                                        Basement membranes

Rheumatoid arthritis                                              Gamma globulin, virus-related antigens

Sjogren’s syndrome                                               Nuclei and centromeres

Systemic lupus erythematosus                              Nuclei, DNA, RNA, erythrocytes, etc.

Scleroderma                                                          Nuclei and centromeres

Polymyositis                                                         Nuclei, RNA

A healthy immune system recognizes, identifies, remembers, attacks, and destroys bacteria, viruses, fungi, parasites, cancer cells, or any health-damaging agents not normally present in the body. A defective immune system, on the other hand, wreaks havoc throughout the host by directing antibodies against its own tissues.


Epigenetics is any mechanism that affects genes without changing the nucleotide sequence of the DNA and involves the study of changes in the regulation of gene activity and expression. Epigenetics refers to both heritable changes in gene activity and expression (in the progeny of cells or of individuals) and also stable, long-term alterations in the transcriptional potential of a cell that are not necessarily heritable. In other words, epigenetic changes can modify the activation of certain genes, but not the sequence of DNA.

So the term epigenetics could be described as referring to those things that have influence over our genes, leading to gene expression or gene silencing. Epigenetic influences would include chemicals, nutrients, electromagnetic radiation, including various wavelengths of light, along with any other environmental influence on the body’s biological function. We are all products of our environment. Our genes are the first draft of what we are created to be, but the experience those genes face determines how our life plays out over time.

The two major ways epigenetic modification occurs via our diet is via methylation of our DNA or of acetylation of our histone proteins. The amount of methyl and acetyl groups come from our diets. For example, when we have low methylation in our diet, our DNA becomes hypo-methylated. Lower levels of methylation correlates with development of higher rates of cancer and with autoimmune conditions. Obviously, none of us wants to get cancer or autoimmune disease so we all need to pay attention about how epigenetics can help keep us free of disease.


Age is recognized as an important factor in the appearance of autoimmune disease. In a paper that appeared in The Lancet in 1992, investigators assessed the difference in physiological chemistry between healthy centenarians and unhealthy 60- and 70-year olds. The most striking difference was that the healthy centenarians had very low levels of auto-antibodies to their thyroid, adrenal, pituitary, hypothalamus (Mariotti 1992). This has led some people to speculate that autoimmunity is the result of environmental exposure to foreign substances. Thus, the immune system may also be suppressed or weakened as a result of lifestyle factors (i.e. intake of alcohol, caffeine, tobacco, drugs, sugar, poor diet, and lack of sleep) not associated with a degenerative disease. These lifestyle factors can have a substantial effect on the trends of autoimmune diseases.

As we age, our immune system declines in its effectiveness due in large part to oxidative damage caused by the recurrent presence of significant amounts of free radicals. In addition, proteins can become glycated, when a sugar molecule is attached to the protein. The accumulation of these glycated proteins in the body affects the immune system because the immune system sees them as altered proteins with different structure and function. Regarding these substances as foreign, the immune system develops antibodies against them. The possibility of becoming allergic to oneself, with the associated autoimmunity and inflammation, increases as one accumulates these damaged glycated proteins.

The body is made up largely of proteins, so its health depends upon its freedom from damage (as through oxidation or glycation) as well as the timely removal of damaged protein as part of normal protein turnover. The body’s antioxidant system and other lines of defense cannot completely protect proteins. The second line of defense is the body’s system for repairing or removing damaged proteins. While some protein repair mechanisms exist, it is difficult for the body to repair most protein damage. Yet, it is essential to efficiently remove aberrant and unneeded proteins to fully protect against autoimmune diseases.

Autoimmune diseases tend to be viewed as separate entities. A broader perspective, however, may reveal that shared mechanisms are the cause of disease, rather than just its byproduct. If this perspective were applied, patients would benefit (before the development of irreversible tissue damage) from improved therapies and early intervention.

Vitamin D

Mounting evidence suggests that vitamin D may be a critical missing link in virtually all autoimmune diseases, with a particularly strong link to lupus. Vitamin D is capable of modulating the activity of immune cells. We also know that Vitamin D activates T regulator cells (specifically T Helper cells) and helps maintain the intestinal brush border of the gut to make it less leaky to inflammation. It strengthens the tight junctions between gut cells. Studies have identified widespread vitamin D deficiency in lupus patients. For example, one study found that only 1.2% of lupus patients had adequate vitamin D levels compared to 45% of healthy controls. Another found that lower vitamin D levels were linked with more aggressive lupus autoimmunity.

In autoimmune diseases, we need to advocate for much higher levels of Vitamin D. In order for circulating vitamin D to perform its functions, it must first activate the vitamin D receptor (VDR). The problem is that many people with autoimmune disease have a genetic polymorphism that affects the expression and activation of the VDR and thus reduces the biologic activity of vitamin D. Studies have shown that a significant number of patients with autoimmune diseases have several VDR polymorphisms. There are over 25 variants of VDR polymorphisms now known and the list grows monthly. If you have a VDR problem, you require much higher circulating levels of Vitamin D to bind to these defective receptors.

A leaky gut predisposes to the development of autoimmunity. Optimal Vitamin D levels are also linked to “tighter junctions” between the enterocytes of our intestinal lining making our guts “less leaky.” If the gut is less leaky, our immune system is stronger because it does not have to be activated constantly to protect the rest of the body. Vitamin D levels play a huge role in our immune surveillance in our GI tracts.

Environmental Pollution

An additional consideration is continued exposure to heavy metals and environmental pollution that overload the immune system. On a daily basis, we battle with pesticides, herbicides, chemical fertilizers, industrial wastes, cigarette smoke, and automobile exhaust. Our air, water, and food (in particular) are full of toxic substances. There is no doubt that these toxins play a role in immune dysfunction.


Even substances considered by most people as safe impair immune function. Sugar consumption in all forms (glucose, fructose, and sucrose) will impair the ability of white blood cells (WBC) to destroy biological agents. This effect begins within a half hour of consumption and lasts for 5 hours. After 2 hours, immune function is reduced by 50%.

Oxidative Stress

Oxidative stress also plays a role in autoimmune diseases. It can be compared to a piece of metal rusting and results from the action of damaging molecules (i.e. free radicals), which are a natural byproduct of the body’s metabolism. The electrically charged free radicals attack healthy cells, causing them to lose their structure and function and eventually destroying them. Free radicals are not only produced by our bodies, but are also ingested from toxins and pollution in the air we breathe.


DHA is the predominant fatty acid in the human brain, facilitating visual and cognitive function, forming neuroreceptors for neurotransmitters such as dopamine and serotonin, as well as serving as a storage molecule that the body can reconvert to EPA when needed. DHA is not burned for fuel. It is reserved for the most critical parts of our nervous system, namely synapses and photoreceptors.

DHA is the most unsaturated of cell membrane fatty acids found in all mammals. Omega-3 fatty acids are also an important constituent of all cellular membranes, giving them fluidity and facilitating all metabolic and bioelectrical processes. DHA provided the “basic membrane” backbone of the new photoreceptors that converted photons into direct current (DC) electricity, laying the foundation for the evolution of the nervous system and the brain in animals.

The semiconducting DC electric current in mammals is due to the use of DHA in their nervous systems. When you sample tissue with DHA in it and attempt to put a current through it something unusual shows up. The current from a battery of a constant voltage is much greater in one direction than another. Current flowing up hill against the gradient is called a reverse bias current. This is commonly looked for to find photoelectric effects in materials. It turns out many semiconductors have the ability to absorb energy directly from light waves. DHA also has this capability. It can turn light into a DC electric current and also turn DC electric current into light.

What is not well known, is that when you find a semiconductor capable of doing this, any current flowing through it will also get a massive boost in energy. This is how the sun and the magnetic field of Earth recharge us when we allow it. This boost is given to the entire system in a cell. It is distributed electrically during day time and optically at night time. DHA is required for growth and development; it is an irreplaceable lipid of cell membranes but especially the heart and brain. If DHA is lacking in a mammal system when specialist proteins (from ubiquitin signaling) arrive to a cell membrane, they seek a coherent matched lipid like DHA. If the DHA match in the cell membrane is not found, and there is an omega-6 or DPA, we lose proper electrical, chemical, and optical signaling. If DHA is absent from mammalian cells then the entire system suffers electrochemical failure at some level. That is how your battery discharges over time.

DHA’s presence is what generates the massive positive electric charge found in and around the central nervous systems of every animal ever tested when they are awake. That signal disappears when they sleep or when they are anesthetized based upon Robert O. Becker’s experiments. This is exactly what one would expect of a material that is a semiconductor that uses a reverse bias current.

Humans happen to be the one animal that has the most DHA requirements in their cells because we have the most mitochondria to support using DHA in cell membranes when we are disconnected from the energy the sun or Earth provide. Our greatest mitochondrial density is in our heart, brain, and immune system. This is why heart disease remains the number one killer in humans today. It also points out why neuro-degeneration is quickly catching up to heart disease in our modern world. This also explains why autoimmune diseases are now growing exponentially.

This is why health metrics in humans are always tied to high tissue DHA status. The more DHA you have in your tissues the more back-up power source you have to generate a larger electromotive force in your mitochondria to generate the DC electric current. If your battery cannot hold the charge from the Earth or sun, for any reason, you get ill.


Chronic inflammation is linked to just about every neolithic and aging disease known to mankind. Chronic systemic inflammation is related to several autoimmune disorders, such as lupus, rheumatoid arthritis, Sjogren’s syndrome, and fibromyalgia. Rising inflammatory cytokines are a primary cause of auto-immune disease progression. These chemicals are destructive to cell membrane signaling, cellular nuclear processing signaling, and cytosolic signaling. They have particularly devastating affects on the steroid hormone receptors and the receptors of both arms of the immune system. These errors in signaling lead to disease progression. 

Most adrenal hormones (like DHEA) are very low prior to development of a full blown disease. This is true in all autoimmune diseases, while being particularly evident in rheumatoid arthritis. Excess levels of pro-inflammatory cytokines, such as tumor necrosis factor-alpha (TNF alpha), interleukin-6 (IL-6), interleukin 1(b) (IL1b), and/or leukotriene B4 (LTB4), are known to cause or contribute to the inflammatory syndrome that ultimately destroys joint cartilage and synovial fluid in rheumatoid arthritis.


Glutathione is the major antioxidant in the body and is a critical element for reducing inflammation, oxidation and detoxification in the body. To utilize it routinely, it requires the human to be able to accurately tell proper “quantum time” in their cytochromes, suprachiasmatic nucleus (SCN) and their liver. This is why all life has both central circadian clocks and organ circadian clocks.

Glutathione is a small protein composed of just three amino acids: cysteine, glutamic acid and glycine. This becomes important because one-third of glutathione is made from cysteine. Cysteine is a semi-essential amino acid, which means that it can be biosynthesized in humans from methionine. Although classified as a non-essential amino acid as it used to be thought in rare clinical situations, cysteine may be essential for those with poor immune function (like infants and the elderly) and individuals with certain metabolic diseases or who suffer from malabsorption syndromes. Today, however, because the environment has radically changed in the last 63 years, many more people have a huge need for cysteine.

Glutathione is critical in maintaining optimal redox reactions, like the Fenton reactions. Optimizing your intracellular glutathione levels are how you combat aging and neolithic disease generation best. Glutathione cannot get rid of the hydroxyl free radicals from the Fenton reactions, but the hydroxyl free radicals cause other proteins and metabolic pathways to become oxidized, and glutathione can help limit that collateral damage. When the process is excessive, glutathione levels inside a cell will be run way down, and your immune function will also seriously decline and open you up to many other disease processes.

This is precisely what happens with T2D, chronic fatigue syndrome, mold illnesses, lyme disease, autoimmune conditions and fibromyalgia. Glutathione recycling becomes the battle line of how the quantum cell maintains its ability to stay chemically reduced for as long as possible.

A lower level of glutathione also impairs tertiary and quaternary protein folding. This becomes critical in neurodegenerative disorders and in antibody formation, which is another link to autoimmune diseases.

Fenton Reactions

All life transfers energy using chemical redox reactions. This means they involve the transfer of electrons from one substance as a donor to another which is an electron acceptor. They do this based upon the math called the reductive potential. The reductive potential is based upon the affinity for electrons compared to the affinity of hydrogen for electrons as a baseline. It begs the question then, where do the electrons come from to power these reactions? The short answer is, the sun.

The sun splits water from its molecular chemical composition of H2O into 2 Hydrogen + 2 electrons + oxygen. These electrons are transferred to plants and food stuffs via photosynthesis on the back of the water molecule. This is why plants, trees, and bacteria need water to grow. Animals have a more complex way of doing it, because as more complex life forms they require more energy to power their newer evolutionary designed systems.

In mitochondria, all food is turned into electrons. Animals transfer the electrons from food to their mitochondria using water in a cell as the transfer mechanism. In this process, called electron chain transport, they use proteins loaded with iron to transfer electrons using quantum tunneling.

When we have more electrons in the system, the redox potential is excellent. The more electrons we have, the more potential and kinetic energy is stored in our proteins and water hydration shell to allow us to deal with the stressors of the environment. The human species is designed to collect electrons in excess. Think of the redox potential as a giant sink of electrons and protons. We need more negatively charged electrons to run our mitochondria and proteins well. This is our redox sink or bank account.

When mitochondria lose electrons to the environment for any reason at all, mitochondrial signaling to the nucleus is altered.

A loss of one electron is very normal for the mitochondria and nucleus. It results in superoxide production. This is physiologically OK because it is a signal that the mitochondria normally produce that signals about what they should do next. The next step is normally autophagy.

When you lose two electrons in the mitochondria, hydrogen peroxide (H2O2) is generated, which is a more serious signal. This can be good or bad within the cell depending on when it occurs. This is when apoptosis or autophagy can be signaled. In order to control these two positively charged signaling molecules, we evolved an enzyme to counter act and control their effect. This enzyme is called superoxide dismutase 1 (SOD1). This enzyme uses manganese as its transition metal to control the positively charges molecules.

A major problem for this system arises with the technology of our modern world. We have created 2.5 billion times the amount of electromagnetic radiation in our atmosphere than we had at the genesis of our species. This causes us to lose a lot of electrons to the environment, producing a lot more positively charged protons.

When electrons are being stolen at higher rates, a new type of ROS is formed. When you lose three of more electrons in mitochondria, the result is the generation of a Fenton reaction. This causes the build up of hydroxyl free radicals. This is usually always a bad sign, with the exception of our immune cells. Within immune cells, we kill pathogens using the hydroxyl free radical. When this occurs outside our immune cells, it causes massive tissue damage which results in a low DHEA level in the CSF. It also leads to an altered adrenal stress index for cortisol and markedly abnormal melatonin cycles in the brain.

The hydroxyl free radical irreversibly damages membranes, organelles, mitochondria, and DNA in a cell. This means we have to constantly recycle these cellular parts to maintain our cells’ integrity or limit its entropy. This means we have to use more energy to remain metastable. This also steals electrons from the brain and immune system when it goes on chronically because both systems are loaded with electron starving mitochondria. The hydroxyl free radical causes a dramatic rise in entropy and increases the thermodynamic cost of life.

Usually the only place a normal hydroxyl free radical is used in biology is in macrophages that kill bacteria. This occurs within the confines of these cells, not in our tissues. All autoimmune diseases have lost control of this mechanism.

Molecular Mimicry and Protein Folding

Molecular mimicry refers to sequence similarities between foreign and self-peptides that are sufficient to result in the cross-activation of autoreactive T or B cells by pathogen-derived peptides. Despite the promiscuity of several peptide sequences which can be both foreign and self in nature, a single antibody or TCR (T cell receptor) can be activated by even a few crucial residues. Upon the activation of B or T cells, it is believed that these “peptide mimic” specific T or B cells can cross-react with self-epitopes, thus leading to tissue pathology (autoimmunity).

In molecular biology, molecular chaperones are proteins that assist the covalent folding or unfolding and the assembly or disassembly of other macromolecular structures. Chaperones are present when the macromolecules perform their normal biological functions and have correctly completed the processes of folding and/or assembly. The chaperones are concerned primarily with protein folding.

These chaperone proteins provide an environment favoring a specific folding. Methylation and acetylation programs are run by chaperone proteins. Therefore, we have the possibility that a single amino acid sequence, such as a peptide, dictated by a gene coding sequence, can fold into more than one protein and, therefore, perform more than one biological activity. This is precisely how virus’s and Prions act in biology as well. They are capable of altering cell phenotype and function directly. It is also how autoimmune antibodies cause havoc in a cell.

Chaperone prion proteins (PrPc) that have lost connection to the native electromagnetic force (Schumann resonance) can be transformed by higher energized electromagnetic forces (EMF), creating emergent neurodegenerative diseases and autoimmune diseases. In other words, PrPc becomes PrPsc to cause diseases.

The key is that the amount of quanta added to the protein determines its physiologic ability. Size, shape, and energy determine what a protein is capable of. The addition and subtraction of energy quanta is what determines shape and function. The normal membrane bound PrP makes new proteins that either work well optically or electronically with DHA and water chemistry in the brain. This makes us super energy efficient because it improves optical energy transduction. When the protein’s bending is altered (misfolded) by a lowered redox potential, it does not work well with DHA. The result is a prion-like disease. Death then comes fast by design. Today, all autoimmune and neuro-degenerative diseases tie directly back to the failure of this fundamental mechanism.

Myelin and Lipids

Myelin is a biologic dielectric material that forms a layer, the myelin sheath, usually around only the axon of a neuron. Myelin is about 40 percent water; the dry mass is about 70 – 85 percent lipids and about 15 – 30 percent proteins. Between it and the nerve axon is an interfascial space filled with CSF. Dielectrics are electrical insulating materials found in nature. It is essential for the proper functioning of the nervous system, specifically the formation of the nerve action potential. Myelin decreases capacitance across the cell membrane, and increases electrical resistance. Thus, myelination helps prevent the electrical current from leaving the axon. It also provides some protection to the neuron from electromagnetic fields because of this ability. Myelin forms as an outgrowth of fat from a type of glial cell. The production of the myelin sheath is called myelination. Schwann cells supply the myelin for peripheral neurons, whereas oligodendrocytes myelinate the axons of the central nervous system.

Myelination is critical for a human immune system. This system helps us have a longer longevity than chimps. When humans myelinate they increase their DC current that Becker found below our myelin level and outside our axons. It is this current that regenerates and renews human tissues.

Becker’s work on the DC current from myelin points to the explosion of neuro-immune and autoimmune diseases in our modern world.

DHA provides the “basic membrane” backbone of the photoreceptors that converts photons into direct current electricity. Although DPA and DHA are two closely related omega 3 fatty acids, they have a major quantum difference. They have one double bond difference that changes the pi electron cloud lengths. That small change in length makes the largest difference in energy generation. While the marine food chain is rich in long chain omega 3 fatty acids, the land food web is dominated by omega-6 fatty acids. The human brain must utilize optimal omega 6 and 3 fatty acids in a ratio between 1 to 1 and 2 to 1. The current excessive amount of dietary omega 6 lipids relative to omega 3 lipids has led to widespread lipid malnutrition that has heavily contributed to the dramatic rise in brain and autoimmune disease conditions in the world.


Leptin is the master hormone of the brain. The brain has two ways to control things, one is direct neural wiring and the second is the control over the hormonal secretions body wide. This hormone signals the entire body’s nutritional status, metabolic status, and endocrine status to the brain at all times. The brain in turn uses leptin to regulate total glycemic control, energy balance, and all neuroendocrine function in all systems in humans. This means that energy regulation is centrally controlled by our neuroendocrine system. The brain uses this hormone as an afferent and efferent signaling hormone to know precisely what is going on in our 20 trillion cells body wide. The brain does not have direct wiring to all 20 trillion cells because of space limitations of both our cranium and our mother’s vaginas. So it uses hormones and cytokines to extend its power and reach to send signals to those 20 trillion cells.

Leptin is a hormone that controls all of the energy metabolism in the body. Scientists didn’t discover this vital hormone until the mid 1990’s. Leptin is considered the Master Hormone, since it has been found to influence all of the other hormones in the body, and to control all of the functions of the hypothalamus. Scientists were surprised to discover this hormone in the white fat cells. Prior to this, the only purpose of fat was thought to be for energy storage, but subsequently they realized that fat was part of the endocrine system with its production of the hormone leptin.

Leptin also controls and modulates the immune system in the brain. It is chemically very similar to an inflammatory chemical called IL-6 (interleukin 6) and in people with high leptin levels (fat people) we see high levels of white blood cells. It also modulates all the inflammatory cytokines associated with visceral fat. Generally when someone is leptin resistant they also have low vitamin D levels.

Visceral fat is the fat below your “six pack” muscle in your abdominal cavity. This is one of the worst places to get fat because it is highly inflammatory. That is also the fat seen in type two diabetics that fills their liver cells, which is called metabolic syndrome or non alcoholic fatty liver disease. Elevated leptin is also the first sign seen before high blood pressure shows up and causes a cascade of further physiologic problems. The reason for this is that high levels of leptin will destroy another protein secreted in your Beta cells of your pancreas called amylin. The beta cells in the pancreas make insulin. So you now know why high levels of leptin (fat) cause type 2 diabetes. The high leptin fries the amylin in the beta cells and causes them to stop making insulin eventually. If it takes a long time it can cause type two diabetes.

If that process happens fast, for example, because of an autoimmune response surrounding a pregnancy or a leaky gut, then you can get an autoimmune diabetes often called type 1.5 diabetes. The only difference between type 2 and type 1.5 is the time is shorter and the immune response much greater. Again, all mediated by leptin resistance.

Studies have repeatedly shown that increasing leptin sensitivity is critical to achieving optimal health. A person becomes leptin resistant when the brain no longer recognizes the leptin signal sent from the fat cells. The only effective way to increase leptin sensitivity is through the diet.

The Gastro-Intestinal Tract and Leaky Gut

The number of gut bacteria in our gut is close to 100 trillion cells and they out number our own number of cells in our entire body by a 100 to 1 margin.

Increasing attention is being paid to the importance of the microbiome in health and disease—with slight imbalances have far reaching consequences. It has become clear that the microbiome profoundly affects our immune system, and new research provides insights into how changes in the microbiome can act as the trigger in developing autoimmune disease. It appears we use the gut microbiota to be our sixth sense for environmental adaptation. This is a rather ingenious use of bacterial/viral life to our advantage.

The key here is to keep inflammation at as low a level as possible to retain your health. The types of food we eat and the quality of those foods appears to be directly proportional to the amount of inflammation we generate in our gut to promote disease. There are many complex interactions occurring within the gut between bacteria and our own immune systems.

It appears it is vital to our developing immune system to properly introduce bacteria so that immunity and its response develop properly. The links of many autoimmune diseases to gut health are now being established in the gastrointestinal literature. It also appears that the basic anatomy of our gut may predispose us to certain diseases in certain locations of our gut. For example, colon cancer and ulcerative colitis are found far more commonly in the left descending colon because this territory of the gut is not protected by the brain with direct innervation for surveillance. It appears that the vagus nerve gives direct input to the brain via numerous tracts to monitor gut contents but also modulate gut health. There is also some interesting obesity research being done with vagal nerve stimulators to show that stimulation may improve leptin sensitivity.

What is a leaky gut syndrome? It is a hyper-porosity of the otherwise selectively permeable membrane of the small intestine, where poorly digested proteins can then enter the bloodstream and be treated as antigens or foreign invaders by the immune system, initially resulting in food allergies or food sensitivities and possibly leading to autoimmune disorders. This complex of biochemical reactions that occurs in the gut appears to be the genesis of where inflammation initially passes into our body. We need to realize this and avoid eating the things that cause this inflammation.

What many people do not realize is that humans having a leaky gut happened by design. Today, we look at leaky gut from an illness perspective. It’s actually part of our design. Our modern problem is that we live in a new world that creates a more leaky gut than we should have because our amazing brain can create mismatches that out genes can’t handle well. That is why humans face another unique human disease. That disease is cancer. Cancer is not a disease, but it is the way our body is trying to shuffle the deck to look for cures to modern mismatches.

Humans are the only mammal on the planet that can get an autoimmune disease easily. Primates do not have leaky guts by design because they do not have zonulin, the protein that makes a tight junction between gut cells. This in turn, directly protects the liver from having to deal with high levels of inflammation in the portal circulation. Zonulin also allows for more rapid assimilation of some nutrients and minerals from our gut. Once the brush border becomes a sieve for any environmental reason, due to development of a “leaky gut”, the liver is the last line of defense of the gut. The remainder of the body than faces an inflammatory onslaught, and this is where all modern diseases begin. Many people are shocked to find out that this makes it impossible for a Primate to get an autoimmune disease. This is also true. Primates also can’t get an infection of H. Pylori in their guts.

When you realize that autoimmune diseases are due to modern environmental mismatches that humans have created themselves, because they have controlled their environment to their own detriment, it gives you an entirely new perspective on what is really a disease or a master design run aground by “bad decisions of a brain” formed by this leaky gut. The development of a leaky gut at our origin was a stroke of genius. It created a semipermeable membrane to fuel rapid and massive genetic information from our new environment to alter epigenetic expression by taking advantage of new environmental mismatches.

Leaky gut and adrenal fatigue are two modern diseases that were originally conditions that protected us. Both of these processes dramatically alter the brain-gut axis. Today because of a modern lifestyle both of these adaptations can cause massive collateral damage in our bodies.

The gut associated lymphatic tract (GALT) is the first place where our immune system interacts with the outside world. This occurs right below the intestinal brush border and is our first line of defense. This is precisely where the battle between health and disease begin in humans and why our immune system is set up ready to respond on that battle front.

Leaky gut syndrome is found in obesity, autoimmune diseases, over-training, adrenal fatigue, fibromyalgia, and inflammatory bowel diseases like Crohn’s disease, ulcerative colitis, eosinophilic espohagitis, and the most common disease of the GI tract today called GERD. GERD = gastro-esophageal reflux disease. Leaky gut is also a feature of many psychiatric diseases as well. Anorexia and bulimia are two obvious ones. Alzheimer’s and schizophrenia are some others. The data is pointing to Autism also being correlated with a leaky gut.

Two primary risk factors for the initiation of this leaky gut syndrome are excessive environmental EMF and artificial light.

The existence of simplified gut flora is a strong contributor to the development of leaky gut syndrome. Those with a simplified gut flora tend to have many autoimmune conditions and small intestinal bacterial overgrowth (SIBO). These patients have a lot of oxygen left over in their guts for a variety of reasons. This is why many of them need more food substrate to satiate themselves. When they limit food, they are effectively lowering the number of electrons and protons to the cell’s in the gut’s immune system and making their situation worse. This is when things begin to really break down for their redox potential in tissues and for their health. As the redox potential fall’s, the gut barrier becomes altered. When electrons are sparse, this alters how proteins can function in the GALT. When this happens this protein alteration is called “molecular mimicry”. Molecular mimicry is a process where a foreign antigen shares sequence or structural similarities with self-antigens. Molecular mimicry has typically been characterized on an antibody or T cell level.

However, structural relatedness between pathogen and self does not account for T cell activation in a number of autoimmune diseases in studies. Why? They never account for the massless energy due to the constant and chronic loss of electrons. This point is critical, because it is a huge net thermodynamic loss in the immune system.

When electrons are stripped from proteins, new proteins emerge that are created by the immune system. Resistin is one of those proteins. There are many others. These thermodynamic losses begin to alter the charges in the immune proteins made. The electromagnetic force is what controls all charge particles in the universe. Today’s environment allows for a much higher non-native EMF force to act on these altered charged proteins. Everyone of these proteins carry charges. If the electromagnetic environment is excessively energized as it is today, these proteins become ionized. Thermodynamically speaking, the electromagnetic force controls these charges with infinite power and range. This is a quantum natural effect and should be no mystery. Too few have realized that this is why autoimmunity occurs. It also implies the the electromagnetic force can alter the ionized proteins to directly alter protein function within the immune system.

These changes in the gut microbiome are the ultimate circadian mismatch creators. Food carries the circadian signals of the growth seasons from the Earth, to our gut, and on to our brain in the hypothalamus. The GI tract was designed and sculpted to work with the electromagnetic spectrum signals that carry information and energy data in electrons and protons. When that data does not yoke with the spectrum present in the current habitat, the scales tip too far to the obesogenic template in our gut microbiome. This allows us to lose electrons constantly in our brain and gut leading to a loss of complexity. When your gut gets simple foods, your brain and immune system function badly. This is why all autoimmune diseases are also tied to poor brain function.

We will not fully understand our microbiome until we understand how it uses protons and how it uses light frequencies to function. The recent developments in the science of epigenetics shows us that genes do not have discrete jobs at all, as we have believed. Genes have the capability to make lots of different proteins by a “slick cutting and pasting” method to creates diversity that is tied to redox chemistry of the extracellular matrix. Your gut lumen (inside space) is an extension of the microbiome and gut’s extracellular matrix. This diversity is precisely how humans are able to make millions of different antibodies to protect itself from all forms of pathogens in our gut associated lymphoid system (GALT).

All food emits biophotons. The gut is designed to process food, therefore, it must be designed to deal with light. There is an Epi-Paleo Rx for modern humans that must include a lot of DHA to deal with the light frequencies emitted in our gut lumen by bacteria. Might this be a reason why we can never really heal a leaky gut? Might it be because a leaky gut is a human trait built in to work with our light emitting microbiome? Could this be why the paleo diet works at times to limit the microbiome light emissions or the gut’s ability to be leaky? Might this also limit some from optimal levels of functioning? Our environment is moving our species away from what is biologically optimal, so we might want to reconsider what is “good” for us today.

The human colon’s major function is water resorption and not Short-chain fatty acid (SCFA) production as many believe. The reason for this? Protons carry potential energy and information that can do massive amounts of cellular work. These protons come from the charge separation of water in the colon. This mismatch is critical in patients who develop autoimmune conditions in their gut. The gut immune system (GALT) sits right beyond the gut barrier. This is why mitochondria constantly make protons in all life forms. They create protons that carry potential energy and information from our environment that are used to fuel the proper development of all of the arms of the immune system in the gut. When this system is thermodynamically off, the gut cells swell, the collagen substructure supporting the enterocytes becomes loose and this fosters leakage into the GALT. What else happens? The atomic structure of the protein called zonulin is altered in humans because its charge changes. When it becomes ionized it become a direct open access point into the GALT. When the gut is off so is brain function. This means brain damage is a part of every single autoimmune condition known.


Cortisol is a glucocorticoid hormone. It is the most important one in humans, produced by the adrenal cortex and participates in the body’s homeostasis and stress responses. Cortisol concentrations also follow a circadian rhythm. It is a more complex rhythm than the human melatonin rhythm. Unlike the melatonin rhythm, human cortisol rhythms do not seem to be totally associated with day and night, but seem to be more closely tied to the “transition periods” from dark to light and to a lesser extent, from light to dark. Transitioning light levels play a tremendous role in cortisol rhythms in humans. In addition to its circadian rhythm exhibiting a predictable peak in the morning, cortisol levels typically elevate sharply in the morning, 30 minutes to an hour after awakening. The glucocorticoid levels synthesized by the adrenal gland across the 24 hour day appear to be under the control of two distinct systems, one governed by the hypothalamic-pituitary-adrenal (HPA) axis, and one controlled by the autonomic nervous system through the adrenal medulla.

To optimize the handling of the subatomic particles naturally from food requires proper circadian signals from cortisol and melatonin within the brain. Both of these rely heavily on the Vitamin A and D cycles in the brain and body, respectively. Cortisol in excess destroys the collagen triple alpha helix everywhere in the body. When cortisol is raised in the stroma of tissues there is a loss of electric charge. This chronic charge loss leads to an alteration of the serotonin supply in the gut to convert to melatonin. This is due to the loss of charge or the redox potential in the gut. It is tied to a defect in water chemistry due to a smaller exclusion zone (EZ) of water in the central nervous system. This is the link to the Cerebral Spinal Fluid (CSF). When this happens their is a lowered charge carried in the DC current within the system.

When a person is more oxidized for any reason at all, there is a shift in our immune systems’ T helper cells, favoring the TH1 arm of the immune system over the TH2 system. This is a thermodynamic effect due to a loss of electrons. When the TH1 arm dominates, the protein structure of zonulin is ionized and is altered on a molecular basis. A new emergent protein is the result and it allows for a loss of gut barrier integrity. This exposes food in the gut lumen to the GALT. Eventually the proteins from gastric contents makes contact with cell mediated immune arms allowing for the formation of new emergent proteins that also can activate the same arms of the immune system, and the autoimmune battle begins. Eventually, this mismatch develops into most of the autoimmune diseases you have heard of. TH1-dominated responses are involved in the pathogenesis of organ-specific autoimmune disorders, Crohn’s disease, sarcoidosis, acute kidney allograft rejection, and some unexplained recurrent abortions.

Copper and Zinc

Copper controls just about every major biologic protein in the body. Robert O. Becker found it in bone as the doping mechanism and copper also controls collagen cross linking. When copper falls collagen loses its cross linking. When it loses copper its ability to carry an electric charge disappears. When you lose an electric charge you basically have lost your redox potential in your gut. This also means the collagen in your liver loses its tension and the cell volumes there increase and visceral fat expands into the liver. As a cell gets bigger, we see a thermodynamic issue develop.

A copper deficiency is handled quite differently in men and women. Women need more copper than men do. For this reason women lose collagen faster than a man does. This has huge implications to a being whose energy source is a semiconductor made of 50% collagen. It is the primordial reason women get more autoimmune diseases than men. It is also why they have less myelin than men.

The reason here is simple. Copper is not only required for the production of collagen cross links but it is also a requirement of the enzymes which convert Progesterone into estrogen. However, in men, more zinc is required to form the enzymatic machinery needed to convert progesterone into testosterone. Men lose collagen more as they age and this is why wound breakdown in elderly men is twice what it is in women.

When we eat a diet high in fructose, the gut and body respond in kind by causing an increase in absorption of iron, which causes a relative copper deficiency in cells, while also lowering zinc levels in cells. This lowers estrogen in women and testosterone in men. Zinc is an essential mineral that is important for immune function, wound healing, normal taste and smell, and is needed for DNA synthesis of proteins.

Chronic high fructose levels also cause a transient magnesium deficiency in all cells in both sexes. When magnesium drops inside a cell it is a sign you have lost intracellular water. When water is lost and magnesium drops it radically alters zinc and copper in proteins and these changes alter “the matter in cells” to set the stage for disease to ensue.  

 Additional Leaky Gut Associations:

A. Foods high in the glycemic index, and most dairy products raw or pasteurized.
B. Foods high in refined flours, processed foods with low fiber contents (Amylose high foods)
C. Foods high in caffeine that are chronically used.
D. Excessive use of alcohol or long term use or abuse of antibiotics.
E. Chronic use of drugs like aspirin or ibuprofen, and all proton pump inhibitors (all NSAIDs too)
F. Strong association with mercury laden foods or mercurial environmental toxins.
G. Any disease that causes an altered consciousness (trauma, delirium, dementia, stroke, subarachnoid hemorrhage (SAH)
H. Chronic or severe acute food allergies. Severe food poisoning can also do this.

The brain-gut axis is the source of every autoimmune disease our species face.

 The Thyroid

The liver and thyroid are critical to how the brain-gut axis system works. The thyroid hormone thyroxine (T4) has to be converted to the active form of thyroid hormone triiodothyronine (T3). 20% of the conversion of T4 to T3 occurs directly in the gut. The remaining 80% is converted in the liver.

20% is converted in the gut because the thyroid works in unison to also help protect our portal circulation from gut inflammation. The stimulatory protein here is thyroid-stimulating hormone (TSH), which is released from the brain at the anterior pituitary site. In hypothyroidism, TSH is high because the brain is trying to nudge the thyroid gland to make more active hormone (T4).

The increased secretion of TSH from the pituitary has a major effect on our liver too. It is pro-inflammatory because it causes the liver to make High Sensitivity C Reactive Protein (HS CRP). HS-CRP is what is used to measure baseline inflammation in patients. It is called an acute phase reactant protein. High CRP levels are known to walk hand and hand with the development of atherosclerosis. The increased CRP produces multitudes or pro-inflammatory chemicals body wide, because they activate immune cells like Mast cells. Mast cells and other immune cells, are the factories of pro-inflammatory chemicals and they stimulate more inflammation in the plaques of atheromas in blood vessels to rupture and cause disease.

High TSH levels are not a good sign. This is why hypothyroidism is correlated with heart disease and many autoimmune conditions. Hashimoto’s thyroiditis is an epidemic in America and is a sign of a constant assault of the intestinal brush border of our gut that eventually overwhelms it and then floods the portal circulation with inflammation. This results in a liver response that over time goes from favorable Low-density lipoprotein (LDL cholesterol) size with high HDL to a very unfavorable size dominated by small dense low-density lipoprotein (sdLDL) and low HDL along with a high HS CRP. This then sets the stage for disease propagation in many sites of the body.

Once the inflammation markers are present in the general circulation they head to the two most prominent organs based upon blood flow, the brain and the heart. In the brain the first effect is to overwhelm the parts that are not protected by the brain blood barrier. These places are called the circumventricular organs. The most important of these is in hypothalamus where the leptin receptors are. The receptors become overwhelmed with these inflammatory cytokines and lead to leptin resistance. Leptin resistance basically makes the brain completely blind to the energy needs and status of our 20 trillion cells. The pituitary gland is where TSH is made. The portal circulation of the pituitary also has no brain blood barrier so it too is at the mercy of inflammation from a leaky gut. This is another way your thyroid gland can be shut down and cause a problem allowing the conversion of cholesterol to pregnenolone to help heal the body.


Cholesterol is needed by the cell for many uses. To be used properly, cholesterol is made to stabilize membranes and make all our hormones. To do this, several co-factors are also required. If the cells have a lot of toxins around or the use of the cholesterol is too slow it can oxidize and become the real bad stuff called the sdLDL that is oxidized easily (sdLDLox). This is the stuff that can hurt you. How does this happen? Well to make steroids we need an adequate amount of thyroid hormone (T3) and vitamin A around to convert the cholesterol to pregnenolone and then to DHEA. So if someone is hypothyroid and/or has low vitamin A levels they can accumulate higher sdLDLox and this lowers the HDL level. A lower HDL means less filtering ability (endocytosis clearing by the liver) in the liver’s portal circulation for endotoxins. That means that the liver is no longer as good a sieve to filter any toxins from our guts to keep the antioxidant burden in our general circulation low. Continuing on, the lowered HDL causes a “leakier” gut also to proteins, toxins and unwanted bacterial toxins that can further oxidize the plasma along with the increased amount of cholesterol the body just made to combat the stress. This is precisely why patients with chronic hypothyroidism tend to have higher levels of heart disease and other neolithic diseases like autoimmune conditions.
They can’t use their newly minted cholesterol fast enough to make steroids or new mitochondrial membranes because they don’t have enough T3 and/or Vitamin A. So the excess cholesterol oxidizes and is taken up by the arteries and is deposited in macrophages that will later become foam cells and eventually an atherosclerotic plaque that could make your coronary artery blow up or clot and cause a heart attack.

Artificial Light and Circadian Cycles

When the precise timing of biologic reactions are off, nothing works with the nanoscopic precision that life or biochemistry require. This is repeated in every biochemical reaction in our body. This is why all genes have Clock-controlled Genes (CCGs) tied to their transcription factors. When timing is thrown off, the biochemistry is completely frame-shifted within the cell. People seem to understand what frame shifting means in genetics, but few people understand how a frame shifting in time alters the epigenetic precision for a cell. A small change in timing of biologic processes results in changes in time depending upon the life span of the animal in question. The result is not as immediate and can be missed. It goes so slow, that it may remain in your blind spot for your entire life. This is how all autoimmune diseases begin.

The complexity and ability of mammals tissues and genes to tell time properly with a day time-specific regulation of thousands of clock-controlled genes (CCGs) suggests that many regulatory mechanisms contribute to the transcriptional output of the circadian clock. These CCG’s genes are what we call organ clocks in chronobiology. Each organ has its own clock, that has to be yoked to the the suprachiasmatic nucleus (SCN) for the biochemistry to work at the correct time with other organs in our physiology. If the SCN is off, then it affects the functioning of the organ molecular clocks as a result. This in turn, causes huge physiologic issues for humans. Slowed or defective methylation, type 2 diabetes, and autoimmune conditions are a few such examples of diseases seen in phase shifted molecular timing.

The body loses the ability to recognize what is “self” and what is “not self,” as it loses ATP function in the guts T cell’s in the GALT, which tell B cells in the GALT when to precisely turn off antibody production to a food antigen, at the correct molecular time. When the timing of this reaction is off, the result is an autoimmune attack on its own cells. If you also happen to be a poor ATP recycler, you might use up all your methyl groups in the ATP-CP system and this further pushes you to any AI you can imagine.

The symptoms pointing to timing issues are first found in a leaky gut or in skin breakouts. The cells of both the skin and the gut are replaced in 2-3 days in a normal person. In someone with an altered clock the cell cycle timing is altered and they do not turn over all their cells as they are designed to and this causes increased permeability and activation of the immune system. This is why incorrect clock symptoms are found in people with bad skin break outs and poor gut function. Any cell that turns over quickest will be affected by a clock timing issue first. Cells in the brain are some of the slowest dividing cells so the effect there will take decades to show up. This is why Alzheimer’s, Parkinson’s disease and gliomas are now being increasingly expressed 50 years after the first wave of man made EMFs and artificial light.

Most people think that the causes of modern diseases are tied to diet, exercise, or laziness. They never consider the effect of how the timing of biochemical reactions in the cell is set. It is set by the circadian clock of the brain, and transmitted to every other cell in the body. Today, we have epidemics in obesity, cancer, diabetes, stroke, fertility issues, and many other diseases. They are all connected to a loss in the ability to account for time for proper biochemical reactions. The cause is because we are bathed in a sea of artificial light, man made EMF, and nutritionists who advocate for electron poor diets. Something ubiquitous has to be behind our modern diseases, because epidemiology has established that epidemics are not caused by genetics. They are due to epigenetic effects that appear globally over a short period of time.

When timing is off, molecular crowding begins to accumulate within a mitochondria and with enough time, chaos ensues in the cell to destroy cellular signaling. Timing matters more than what we eat. If your clock timing is off you will never get to optimal. This is why circadian control must be restored before you alter your diet or begin to exercise.

Chaos in molecular biology is called inflammation. Inflammation is positively charged, and inflammation leads to more mitochondrial inefficiency, and loss of electron chain transport (ECT) efficiency. When we lose energy we lose the ability to run processes in cells. This results in a loss of cellular signaling and once this happens all types of chaos ensues. This is how all modern diseases begin and progress to things like cancer and infertility.
When our brain can’t tell time neither can our cells; this implies we can’t sense our external or internal world correctly, and the result is disease.


How many times have we heard some talk about the link of poor sleep to immunity but completely fail to explain why this observation is made? The short answer is Vitamin A recycling being yoked correctly to light and dark. When we can’t sleep well, the immune system molecular clocks go awry. Why? Vitamin A controls this process. This link is huge in the development of many autoimmune diseases and in some genetic ones like cystic fibrosis. It is now well established that widespread immune alterations, anemia, and increased infectious disease morbidity and mortality occur during vitamin A deficiency. What is not commonly known is how it ties to the molecular clocks of the immune system by way of the brain. Infectious diseases that induce the acute-phase response also impair the assessment of vitamin A status by transiently depressing serum retinol concentrations. Vitamin A deficiency impairs innate immunity by impeding normal regeneration of mucosal barriers damaged by infection, and by diminishing the function of neutrophils, macrophages, and natural killer cells. Vitamin A is also required for adaptive immunity and plays a role in the development of both T-helper (Th) cells and B-cells. In particular, vitamin A deficiency diminishes antibody-mediated responses directed by Th2 cells, although some aspects of Th1 mediated immunity are also diminished. These changes in mucosal epithelial regeneration and immune function presumably account for the increased mortality seen in vitamin A-deficient infants, young children, and pregnant women in many areas of the world today.

Sleep is when humans rebuild their biologic cellular environment. During this time, the immune system is also undergoing autophagic repair. This is why sleep and repair are linked. They occur only when we are maximally chemically reduced. Quantum chemistry works best in cold. Semi-conductive currents increase with lower temperatures. That is another reason why the temperature has to fall in our bodies at night. Melatonin controls that process in the hypothalamus. Our immune system repairs and gets stronger at cooler temperatures.

The careful observer will note, the chemical signal the immune system reacts to, however, is a fever. When a fever is present it signifies a temperature rise, and this causes certain immune cells to morph into antigen presenting cells and natural killer cells. This activation depletes our immune system of its reserves during high light waking hours when we are oxidized by what life requires during wakefulness. Dropping our temperature as we sleep allows us to replenish our immunity. What controls this entire orchestra of hormonal regulation? It is the circadian photoperiod. The brain has to tell when we are facing oxidation and when we are in a period of chemical reduction. Vitamin A is critical in yoking light to leptin at our SCN. The SCN is the part of your brain that is entrained to light and dark cycles. Light is yoked to leptin via the Vitamin A cycle in the brain. Vitamin A is the quantum signal obtained via your retina, transduced into a chemical message in your hypothalamic leptin receptor. The photoperiod is yoked to leptin and the brain is the master receptive organ to this epigenetic EMF from the sun.

It has been shown that sleep deprivation affects the immune system function directly. Studies have shown that sleep loss impairs immune function and any immune challenges directly alter sleep.

Moreover, it has been suggested that eutherian mammals that invest in longer sleep times are investing in strengthening their immune system to compensate for the environment they are adapted too. This may explain why artificial blue light has had massive effects on man in 50 short years. Comparative anatomical studies on species with the longer sleep times have shown higher white blood cell counts as a rule.


Stress is a major risk factor in developing disease. Even prolonged low-level stress stimulates the adrenal glands to produce cortisol, which in excess impairs immune function. Lack of proper rest and sleep, depression, and emotional disturbance contribute to immune dysfunction. In addition, there is a connection between the limbic system (i.e., the part of the brain that gives rise to emotion) and immune function.

Magnesium (Mg), Melatonin and Vitamin D are all depleted in cellular stress when cortisol is raised. The Mg is depleted because it is a cofactor in many of the biochemical reactions that form stress hormones and in reactions that regulate inflammation and repair. Vitamin D is made from pregnenolone so in high stress times pregnenolone is shunted to cortisol production. This is called pregnenolone steal syndrome. This is why we are seeing pandemic low D levels. Melatonin is a major antioxidant of the CNS and in cellular stress it is depleted and under-converted because sleep is disregulated. We need four hours of darkness to turn on melatonin production and if we are not sleeping we never turn it on and it leads to insomnia and decreased autophagic repair during sleep. This allows the immune system to never catch up and allows continued inflammatory onslaught to occur and eventually lead to full blown autoimmune conditions.


Selenium (Se) is needed for the proper functioning of the immune system cells. It is a co-factor in the activation of neutrophils, macrophages, Natural killer cells and T lymphocytes and for many other immuno-regulatory functions. Selenium seems to act through two modes to protect us from cancer. One is that is catalyzes many immune reactions to increase our immune function in the GALT. In the second mode Se seems to hinder oncogenesis by protecting the p53 gene in the gut preventing oncogenesis from occurring. Selenium favors low level inflammation, seen in autoimmune conditions vs. cancer, and thus, favors apoptosis of defective cells instead of oncogenesis. It appears that low plasma Selenium levels reduce the production of plasma glutathione peroxidase. Patients with low selenium levels are known to have higher rates of polyps and autoimmunity. Naturally occurring Selenium is found in plants like garlic and broccoli as a compound called Se-methylselenocysteine (Se-MSC). Se-MSC produces 33% reduction in cancerous lesions (colon) than selenite (synthetic). It also produces a 50% decrease in new tumor development locally in the gut and induces cells to undergo apoptosis and not oncogenesis. It has been shown to reduce angiogenesis to make the cellular environment less hospitable to cancer. Se-MSC also directly down regulates vascular Endothelial growth factor that is commonly found in most GI cancers. So the story seems to show that selenium is pretty critical to gut health and disease prevention.


Most people in the alternative healthcare field understand that autoimmunity is some how tied to the leaky gut, altered blood brain barrier (BBB), or leakiness on the inner mitochondrial membrane, or via the use of dietary grains and/or modern dairy products. The problem is most have no idea how they really connect back to the electromagnetic field effects.

Autoimmunity is directly tied to an alteration of the electromagnetic field that our cells live in. The earth’s field has radically changed since 1893 when the surface of the planet was changed by electrification. The electric field in our house uses 60 Hz systems. This has been shown by Robert Becker and by Nancy Wertheimer to be enough change to cause a big change to DNA.

As the utilization of electricity increased, it fueled the growth of the industrial revolution and the development of modern technology over the last century. This is precisely when all modern diseases began to show up, and they have exploded as the frequencies and intensity of EMF fields have increased. This one change has lead to massive increases in man-made EMF that now is present in the resonant cavity of the Earth. This is the space between the surface of the planet and the ionosphere.

Becker’s work in the 1950s and 1960s showed that any time an EMF field was introduced to the brain stem of any animal he tested, it resulted in a “stress response” from the animal. Today we call this stress response leptin resistance or adrenal fatigue at the brainstem level. The data is clear that the photoelectric effect and the magnetic field has massive effects on biology.

What causes this? Loss of control of the calcium voltage channels in neurons is the short answer. The altered field increases the frequency of the resonant EMF around the Earth and instead of it acting like a wave form as the Schumann resonance does, it begins to act like a particle and it opens the calcium voltage gated channels in neurons in the central nervous system (CNS) and peripheral nervous system (PNS). This is the real cause of most of the neolithic diseases we see today. Because EMF energies are absorbed into tissues in differential rates we see a large spectrum of effects and the result is a variety of disease states. What underpins everyone of them, however, is the spike of cytokines in the effected tissue.

When we have an altered field due to excessive EMF that blocks the normal extremely low frequency (ELF) EMFs from the Earth’s magnetic field, we get non-thermal effects directly in our brain and across our brainstem. The work done by Robert O. Becker and Carl F. Blackman are critical in understanding how a field effect can cause an autoimmune disease.

Blackman discovered the greatest non-thermal effect of EMF during the early 1980’s right after Becker’s work was presented to the NY State Power Service Commission. Blackman found that non-thermal EMF exhibited both frequency and intensity windows on biologic cells. Blackman was a research scientist at the Environmental Carcinogenesis Division of the EPA. He also conducted work with Dr. Abraham R. Libroff of Florida Atlantic University. Blackman and Libroff combined a static (DC) and an alternating (AC) magnetic field on human cells. They found doing so caused an increase of the concentration of free calcium ions in nervous tissues in a very narrow resonance window of the AC magnetic field.

The reason why this is important to you and your biology is that when calcium rises inside your cell membrane it is pumped out immediately (efflux) because a rise of intracellular calcium mediates apoptosis and autophagy and causes massive problems in intracellular signaling. Rising intracellular calcium goes by another name you might have heard; it is called excitotoxicity. Excitotoxicity is tied to heart disease, neuro-degeneration, atherosclerosis, sleep apnea, alterations of circadian cycles and autoimmune conditions.

Calcium efflux also occurs due to direct alteration of voltage gated channels when an altered electromagnetic field is present. The native EMF field of our planet is in the extreme low frequency range and when it is in this range, EMF waves act like waves and not particles. When the field is comprised of higher frequency waves from any source, like the sun, a Wifi router or a microwave, it begins to act more like a particle. Electromagnetic fields can act as waves or particles according to nature’s laws defined in Quantum Electrodynamic theory. This is how the photoelectric effect works by nature’s laws. This one little detail has massive consequences for all of us. When the field changes from its normal wave characteristics to a higher energy, particle-based field, there are biologic consequences. What have been some consequences found in experiments already done? We see a huge spike in depression, thyroid deficiency and the development of many immune system diseases.

Today it is common knowledge in healthcare that people known to carry higher risks for viral infections are children and the elderly who have altered immune systems. The elderly systems do not work as well because they have senescent immune cells, but the young have an immature immune system because their T cell development is directly tied to how myelinated their brain is.

Most influenza outbreaks disproportionately kill juvenile, elderly, or already weakened patients; in contrast the 1918 pandemic killed predominantly previously healthy young adults. Modern research, using virus’ taken from the bodies of frozen victims, has concluded that the virus kills through a cytokine storm (overreaction of the body’s immune system). The strong immune reactions of young adults ravaged the body, whereas the weaker immune systems of children and middle-aged adults resulted in fewer deaths among those groups. These cytokine storms are mediated via NF kappa beta and IL-6 levels in the brain and body.

Robert Becker found that the biologic effects of EMF were due to an altered DC current coming from Schwann cells that myelinate the neurons of the peripheral nervous system. It turns out it has the same effect on the microglia cells and the oligodendroglial cells that myelinate the central nervous system. This implies that an alteration of myelination is directly tied to an altered immune system.

Humans are born without much myelin and this is why newborns have no innate or cell mediated immunity. They have to rely on their mother to gain their immunity from her breast milk. When there is a lack of myelination, we have a decreased regenerative current for many systems in the body. The mechanism is ultimately tied to calcium efflux out of these cells. When the net electromagnetic effect on the brain and the endogenous immune system is highly powered and acting more like a particle it directly diminishes the DC current coming from brain and nervous system’s myelin sheaths. These DC currents have been shown in all mammals to allow us to be able to use our bodies natural systems to both heal and regenerate physiologic systems.

Becker’s work on the DC electric current of regeneration on salamander’s and human bone got him nominated twice for a Nobel Prize. It seems these works have never been connected together to understand how a loss of the DC current is directly tied to the EMF field these cells are in. This is precisely how one develops autoimmunity in today’s world. It is primarily a field effect and not a dietary effect. The more altered the field becomes, the less it acts like a wave and the more it acts like a particle, which alters calcium voltage gates in cells. These are primordial in all cell signaling processes in biology. Every biologist or chemist knows this to be factual today. What none of them know is how the field controls the signaling system.

Most people know that autoimmunity is more common in women than men but modern medicine does not yet seem to know why. Women have less myelin than men naturally by evolutionary design in their brains. This is why women suffer from autoimmunity much more often than men do. Having less myelin makes you more sensitive to environmental triggers in order to pass this information onto the next generation. This is the basis of trans-generational epigenetics. This means when they lose any significant degree of myelin for any reason and they lose their DC current, they are more apt to get an autoimmune disease because they can not mount proper signaling in their thymus to properly develop their T Helper cells. This is how epigenetics can go really wrong when the field is altered from its normal ELF EMF to a non-native man-made field.

When you lose your DC regenerative current in Schwann cells and the brain’s microglia and oligodendroglia for any reason at all, you can not regenerate the normal arms of neuro-immunity or of cellular immunity from your thymus gland where the T Helper cells go to mature. This means you can’t activate T-Helper-3 (TH3) cells so T-Helper-17 cells begin to dominate. When TH3 cells dominate long enough, what happens? Calcium leaves the pineal gland and circadian biology is altered, thus, we lose the yoking of the Vitamin A and D cycle in the brain, and the result is a spike in NF kappa beta and IL- 6 in the brain and peripheral tissues. These are the main inflammatory cytokines in the brain. These are the same effects seen experimentally in Blackman’s work mentioned earlier in the blog. The result is that antibodies are made from constantly activated B cells because the T cells can not turn them off and they subsequently “tag” the different tissues in which this altered field occurs.

When this happens in the thymus at a certain time of embryologic development, the result can Hashimoto’s disease or celiac disease. If it occurs after the 8th embryologic week of human development it will affect the developing hind brain and dentate nucleus in the cerebellum. This affects the posterior hind brain the result can be Autism and its spectrum. As a result, the most common finding in autistic brains on functional MRIs is altered cerebellar development.

What happens to the neuro-immune system in the brain microglia and oligodendroglia in an altered field?

Once the calcium is lost from these cells it changes the resting membrane potential of cells. The resting membrane potentials of cell membranes of the microglia and supporting cells of neurons are altered immediately. It is in these cells where the brain’s hormone cascade is made from LDL cholesterol. This causes us not to make or secrete neuro-hormones on time or at optimal levels because of the calcium efflux. We see evidence for a chronic pregnenolone steal syndrome if we look at an Adrenal Stress Index (ASI) or salivary melatonin level.

When calcium is released from cells we see a dramatic change in free T3 levels and vitamin A. Pregnenolone steal syndrome occurs when free T3 and vitamin A cycles are disrupted in the brain. When any stress response occurs in the brain the response is to raise LDL cholesterol, but we need to convert LDL cholesterol to pregnenolone in order to make all hormones. We need T3 and vitamin A for this conversion. When these stress related physiologic alterations occur the result is a cytokine storm from the massive release of NF kappa beta and IL-6 from our cells. When these chemicals are present you can not make this conversion, nor can you activate T-helper-17 cells (supressor cells to stop the process) or T-helper- 3 cells because they are in arrested development in the thymus due to  the fact that your electromagnetic field has been altered across your brainstem. An unaltered field is what causes these cells to mature and become expressed after they visit the thymus.

The entire outflow of the cerebral cortex must pass through the brain stem as it heads toward the spinal cord. At the bottom of the brainstem is the ponto-medullary reticular formation (PMRF) where the parasympathetic outflow of the brain is located. This allows us to calm down and digest our food naturally. Neither one works well in autoimmunity. This area is directly connected to the hindbrain in humans. The vagus nerve that connects this part of the brainstem to the gut is the major player to signal our body to rest and our gut to digest properly. This is why the SCN is entrained to light cycles alone but the gut organs are entrained to feeding behaviors only. The gut organs communicate to the hypothalamus via the incretin system and bring their information to a different part of the hypothalamus. The net effect of these processes is that when you eat is more important than what you eat with respect to autoimmunity.

When we lose the DC regenerative current in Schwann cells and in the microglia the process fast forwards. T helper 17 cells begin to allow B cells to make more antibodies that tag the tissues that this problem occurs in due to the altered field and then the other arms of the immune system, innate and cell mediated immunity, begin to be recruited to act to destroy the tagged tissues. Then you have a full blown AI disease in that organ system. None of it can happen without an altered electromagnetic field. This is a requirement for an AI to occur. This is precisely why no one has a clue what really causes autoimmune diseases. Researchers in biology are not looking at EMF field effects. Biophysicists found these effects 50 years ago. The cellular mechanism is linked directly to calcium homeostasis, which alters cellular signaling in many ways. Many want to blame a food substance, but it is 100% tied to an altered field effect. Biophysics and the laws of nature show you how it happens. Foods exacerbate the condition but they do not cause it. This is also why autoimmune diseases were unheard of in the medical literature before 1893. We had not yet electrified the planet’s surface to alter the field yet.

Today auto immune diseases affect more people than any other diseases on our planet………the reason? Our field has been dramatically altered……..and the photoelectric effect and water chemistry is tied to the field it is in. We are all products of our environment. Our genes are the first draft of what we are created to be, but the experience those genes face (epigenetics) is how our life is eventually written. The field here can also be called the ‘conditions of existence’, referring to a phrase used by Darwin to refer to environmental effects on humans.

The conditions of existence are what cause disease states. The field dictates all epigenetic expression and it extends to trans-generational epigenetics. Aging, disease propagation, and the development of auto-immunity are dependent on the environment the cell finds itself in and are directly proportional to outcomes the cell may face.

This means that your identical twin only needs to live in another room in your house to face a different existence than you to get a massive change. Genes are important but they are not the dominant player modern science believes and neither is a particular diet that’s advocated. Tough to hear…but it is based upon Einstein, Feynman, and Becker’s work, along with Nature’s laws, not paleo laws or conventional wisdom dogma.


In humans, developing fat mass is tightly coupled to the MHC 1 gene in humans that controls both neurogenesis and the development of the immune system. Both require massive amounts of electrons to work well. This is why many autoimmune conditions are tied to obesity as a co-morbid condition and why many women with AI’s have difficulty losing weight. In modern humans, obesity has become an inflammatory brain condition due to circadian cycle mismatches. These mismatches create inflammation from changes that form in our hormone panel. For example in this case, obesity alters the normal cortisol-melatonin cycle. When cortisol is high it destroys the basic function of the semiconductor in humans based around collagen and water.
Alterations in our gut flora actually is what causes humans to become obese. Obesity is a failure of the Second Law of Thermodynamics. It is not really a disease. It is loss of energy from the system we call a life. Thermodynamics is a physics term that deals with how systems handle energy. We are losing energy to our environment when we become fat.

Type 1 Diabetes Mellitus

Type 1 diabetes (T1D) is an autoimmune disease with antibodies that destroy the insulin-producing cells of the pancreas, leading to insulin deficiency and blood sugar irregularities. Most often patients are diagnosed in childhood or adolescence, and there is a known genetic association. However, in studies with twins (who share the same genes), only about 50% of twins both go on to develop the disease. This further supports the idea that the development of disease depends on more than genes alone. For instance, immigrants have a risk of developing T1D that is dependent on their place of residence, not their country of origin.

Studies looking at differences in the gut microbiome between people with T1D and healthy individuals have found the following differences:

• Children with T1D have a smaller amount of beneficial bacteria.
• Children with T1D have less stability and diversity of bacteria in their gut.
• There are significant differences in both bacterial composition and metabolic capabilities between those with T1D and without.
• After treatments to normalize blood sugar in T1D patients, there was also a return to microbial diversity in those individuals.

Overall, the research is convincing that T1D is associated with a disruption in the normal microbiome. At this time, no single organism is responsible for the onset of this disease. However, in genetically predisposed individuals a disruption of the normal microbial communities provides an environment in which the disease may develop.

Rheumatoid Arthritis

Rheumatoid arthritis (RA) affects about 1.5 million people in the United States, and up to 1% of adults worldwide. It is an autoimmune disease that affects many of the joints throughout the body, most commonly the joints of the wrists and hands.

As with T1D, there is a known genetic association. However, studies with twins again prove that genes play even less of a role in the development of RA when compared with T1D. Research again supports a relationship between the microbiome and the development and progression of RA.

Intestinal permeability is often disrupted by health conditions such as rheumatoid arthritis, Crohn’s disease, pancreatic dysfunction, and food allergies. Aging, stress, medications, and alcohol consumption also alter permeability, compromising the barrier that separates food and intestinal bacteria from the rest of the body.

Poor intestinal motility and peristalsis can change beneficial bacterial flora by altering the natural flow of nutrients available to them. These same factors can add to the overgrowth of abnormal bacteria and the byproducts they produce, leading to the absorption of antigenic substances into the bloodstream.

Multiple Sclerosis

Multiple Sclerosis (MS) is an autoimmune disorder that is linked to an environmental mismatch of artificial light that causes alterations in circadian signaling which leads to chronic inflammation in the gut. MS is a debilitating neuro-inflammatory disease that occurs when autoreactive T cells gain entry into the CNS and destroy myelin producing oligodendrocytes. It appears the T cells can enter the CNS via a leaky blood brain barrier that comes from a leaky gut or chronic inflammation of any sort.

Research is beginning to show that chronic inflammation from our gut, coupled with low vitamin D levels, and poor vitamin D receptor (VDR) function allow for the activation of auto-reactive T cells that destroy cells that make the covering (myelin) of nerve cells. Myelin is the covering of nerve cells. Think of it like the plastic covering on an electrical wire. When the plastic is pulled off the wire is exposed and subject to a “short circuit” and it won’t work well.

In Multiple Sclerosis, Fritz-Albert Popp has found experimentally that these patients emit more infrared (IR) heat but they also release more biophotons that carry higher energies. Why is this important in MS? NADPH (Nicotinamide adenine dinucleotide phosphate) biogenesis is stimulated by light and by carbohydrates in life. Most biologists only know about the “glucose route” to generate NADPH within the Pentose Phosphate Pathway (PPP). They do not realize excessive light release from the mitochondria can also generate massive amounts of NADPH. This light needs to be contained by the mitochondria’s electric and magnetic fields. In MS it cannot be and this excess light drives NADPH levels to toxic levels. The dose makes the toxin.

This homology between carbohydrates and light should make sense because most carbohydrates only grow in long light cycles naturally. It means foods loaded with carbohydrates will get broken down in our body and delivered to our mitochondrial electron chain transport (ECT). On each electron is carried photon energies signifying the season the food stuff came from.

Why is excessive NADPH generation from excessive light emission in mitochondria such a big deal in MS risks? The excess light emitted from the mitochondria occurs to the water micelles around the mitochondria. The excess light drives excessive amounts of NADPH light reactions which increases the respiratory burst in mitochondria that causes the autoimmune damage from Reactive oxygen species (ROS) and reactive nitrogen species (RNS). These reactive species destroy aquaporin 4 channels that control water flows between neurons and glial cells. Loss of aquaporin 4 function in the CNS leads to demyelination.

When these cells demyelinate we get short circuits between neurons and glial cells that lead to electrical changes in the CNS. These changes effect cognition and neurologic function. This is the fundamental mechanism of how Multiple Sclerosis occurs. This means the rubber meets the road in the mitochondria and skin for all MS patients. The information signal coming in from light has to be changed to an electrical signal within the skin. This is carried on collagen’s piezoelectric paths directly to the outer mitochondrial membrane for processing. Here the piezoelectric signal should be changed from an electric signal back to a light signal by DHA. DHA is the only lipid know to change light to electric signaling and back again. When DHA is missing the signal is disconnected from the sun to the skin and to the mitochondria. These signals are not present in MS patients. This is why MS patients have low Vitamin D and nitric oxide levels in their skin. This is due to a lowered piezoelectric current in their collagen networks between the tissues.

An early finding in MS patients, also found in all autoimmune diseases, is the constant finding of low levels of DHEA. Interestingly, when DHEA is increased it has been shown to help limit the severity of disease progression. In some cases, the disease can be “pushed” to remission after it has been diagnosed, by optimizing DHEA levels. The DHEA level is felt to be down regulated because of the constant stress on the adrenals to make cortisol due to the non-stop nature of the inflammatory cascade in autoimmune diseases. We call this low DHEA finding pregnenolone steal syndrome. DHEA is known to be a potent inhibitor of IL-6 and TNF alpha.

For now, we understand that the likely causation of MS is tied to chronic inflammation from our diet that initiates the irritation of the gut. This gut irritation induces epigenetic changes in our immune cells in the gut associated lymphoid tissue (GALT) to cause DNA hypomethylation sequences that eventually lead to the formation of inflammasomes. These inflammasomes produce inflammatory cytokines that further modify our immune cells to become auto-reactive cells to our own myelin coating of our nerves cells to cause short circuits all over our brain and spinal cord in multiple sclerosis patients. It now appears that any disease that causes chronic inflammation can induce autoimmune reactive cells to form. This is why we see many associations of inflammatory diseases to autoimmune diseases. The factor tying these diseases together is epigenetic modification of certain parts and cells of our immune system so that they can no longer protect our organs and instead begin to slowly destroy them overtime and result in disease propagation.

It is important to understand here, how light, cell membranes, and mitochondria all work in unison using the quantum optics. Condensed matter physics and quantum optics is now studying how mitochondria work at a fundamental level. Light inside mitochondria is controlled by electric fields and magnetic fields that are the result of the charge or lack of charge found on the inner mitochondrial membrane. If these fields are altered, light will be released in increased amounts. That is really where MS begins. It is not a food story, it is a circadian mismatch story, tied to the physics of light.

Quantum time determines decision times in neurons. These increase whenever the difference that must be discriminated is reduced. The behaviors of the people who give us our mitochondria (mothers and grandmother’s) is where MS begins because this is how the direction of quantum time’s arrow is initially set. When we expose ourselves to more EMF and artificial light we ignite the fuse making MS more likely to happen. A failure of tunneling of electrons leads to a lack of DHA in cell membranes and an altered delta psi in your mitochondria. Dehydration in cells becomes common with the chronic use of technology and or blue light devices. The process fast forwards in our modern world and this is why MS is exploding in our internet age. This is how relapses occur in this disease, as well. All of these effects alter the normal function of the transgenerational selection of mitochondria; this causes people to wind up with a pretty nasty autoimmune disease as time elapses.
Multiple sclerosis, at its core is transgenerational circadian mismatch from excessive light from our modern environment.

Hashimoto’s Disease

90% of the cases of hypothyroidism in the USA are caused by Hashimoto’s disease. This is an autoimmune disease of the thyroid where these patients universally have defective VDR receptors. That means they need very high blood Vitamin D levels and optimization of their thyroid function to get results. Often, many obese people get stuck not losing weight because their doctors are fooled into thinking their thyroid and Vitamin D levels are fine. Most of the time, the levels are sub-therapeutic and patients find amazing results when their plasma levels are pushed a bit by the clinician. This is an area where you need to speak to your doctor. This is often seen in post-op cancer patients, too, under extreme stress. Patients with high cortisol levels suffer the same fate.

At night during sleep, we are in a state of chemical reduction. It is during sleep that our cells are repairing the damage we have done to our cells during the light of day. Hashimoto’s disease is a disease of constant chemical oxidation during day or night and all summer or winter. The reason is simple for this. Since Hashimoto’s destroys your thyroid’s ability to make free T3, you have chronic low levels of free T3 to convert your LDL to pregnenolone. This keeps you in a chronic state of oxidation no matter what time of the year. Physiologically, when you get to the step in the hormone chain that can produce pregnenolone, the cell has two choices to make, survival, the cortisol path, or pro-gestation, the reproductive path.

When we choose survival we are in a state of chemical oxidation constantly. This is why an adrenal stress index is quite helpful clinically in understanding the current pathway your body resides in. This tells you how healthy or sick you really are. When you are in a pro-gestation path, you are more chemically reduced as you are at night. You are able to make the distal hormones, progesterone, DHEA, estrogen, testosterone and Vitamin D easily and in proper physiologic quantities. The pharmacy in your brain is open for business and well stocked. This is why your hormone panel tells all about your health. It tells you whether your house is on fire or whether you’re ready to make a new generation of humans.

Evolution says the battle for life should be met when there is low stress and low oxidation. When we are stressed or being chased by a great white shark, our goal is to flee to survive another day. This is a heavily oxidized state. When you’re a modern human, you often live in this state your entire life. This is why we see trashed hormone panels that confuse so many patients and clinicians today. When you get the blueprint for the battle in the cell, you can re-engineer people back to the reduced state. Hashimoto’s, artificial light, and chronic cardio are all oxidative events that push you down the wrong pathway.

Hashimoto’s is a gateway disease to many illnesses because we can’t fight the inflammatory cascade well any longer. It depletes the immune system and the antioxidant system in cells to alter proper signaling. Many times women with Hashimoto’s will develop eating disorders and auto-antibodies that block nuclear receptors in the paraventricular nucleus (PVN) of the HPA axis and it will give a characteristic abnormal diurnal pattern of cortisol depression in the middle of day. The antibodies often signal to the astute clinician that an autoimmune disease is lurking in this axis. These antibodies can alter the ability of the nuclear hormone receptors in paraventricular nucleus in the brain, altering the cellar signaling to any stressors and inflammation present. The PVN is a central area of “stress management” of the human brain. It is here where oxytocin, Corticotropin-releasing hormone (CRH), Thyrotropin-releasing hormone (TRH), adrenocorticotropic hormone (ACTH), Gonadotropin-releasing hormone (GNRH) all act, and are released.  

Iodine was the first inorganic antioxidant to be described in any living system on this planet. Iodine is collected in cells by proteins in its iodide form and is bound to amino acids to form iodoproteins. It was later discovered that in all vertebrate cells iodide acts as an electron donor in the presence of hydrogen peroxide and thyroid peroxidase enzyme. This enzyme is the one that is destroyed in Hashimoto’s thyroiditis by auto-antibodies. This helps explain why Hashimoto’s is often seen as the first step in many modern disease’s that oxidize human tissues to alter cellular signaling. It also helps explain why Hashimoto’s disease is now so common today.

It is also important to be aware that Iodine is blocked by the action of fluorine, which is obviously found in fluoridated water.

Hashimoto’s has particular affinity to the two tissue areas in which iodine plays a critical role. These tissues are in the thyroid and the brain, especially the HPA axis in the brain. This loss is potentiated by the dehydration effect on water by fluoride. Loss of iodine degrades sleep and synaptic function as the first step in disease generation. Iodine is found in high concentrations in the synapse of neurons to optimize signaling. With more time for further iodine loss, it affects more epithelial tissues like the breast, ovaries, and testes to cause fibrocystic disease, cancer and infertility. It even can cause thyroid cancers.

Celiac Disease

Many nutritionally aware individuals are currently knowledgeable about gluten sensitivity and Celiac disease, with their often associated problem of abnormal intestinal permeability. Gluten is a fairly new addition to the human diet and is very difficult to digest. A tremendous amount of evidence from innumerable studies, demonstrates that the consequences of gluten sensitivity, whether diagnosed or undiagnosed, can be lethal.

Celiac disease and gluten sensitivity are defined as states of heightened immunologic responsiveness to ingested gluten proteins in genetically predisposed individuals. Gluten sensitivity is considerably more common than Celiac disease and is currently almost epidemic, if not ubiquitous. Both of these conditions are autoimmune diseases, which create inflammation and can affect all organ systems in the body.

The grains most responsible for celiac disease are wheat, including durum, semolina, kamut, triticale, and spelt, along with rye, barley, and most oats (due to contamination during processing). The avenin contained in oats is a potential cross-reactivity substance, even though oats are gluten free. Buckwheat and soy flours are also frequently contaminated with gluten during processing and storage.

Gluten is viewed as the primary agent for the development of food sensitivity in the body. It does this by radically increasing the amount of zonulin, an enzyme that controls intestinal permeability. The increased permeability caused by zonulin allows other types of undigested proteins to pass through the intestinal barrier, causing immune reactions.

Celtic people from Ireland have been studied for their increased genetic susceptibility to celiac disease. It has been discovered that these same Celts tend to have a high genetic predisposition to hemochromatosis …..iron overload. It is theorized that people who are not genetically selected for wheat ingestion retain and store higher levels of iron than people who are selected. Placed in a wheat-consuming culture these people tend to over-absorb iron. Since the permeability issue in celiac patients is the same permeability issue in metabolic and other autoimmune patients, one must conclude that the same iron mechanisms at work in celiac patients are at work in all autoimmune and metabolic disease patients.

Are chronic fatigue syndrome and fibromyalgia autoimmune diseases?

Chronic fatigue syndrome (CFS) and fibromyalgia (FM) are not autoimmune diseases. But they often have symptoms of some autoimmune diseases, like being tired all the time and pain.
• CFS can cause you to be very tired, have trouble concentrating, feel weak, and have muscle pain. Symptoms of CFS come and go. The cause of CFS is not known.
• FM is a disorder in which pain or tenderness is felt in multiple places all over the body. These “tender points” are located on the neck, shoulders, back, hips, arms, and legs and are painful when pressure is applied to them. Other symptoms include fatigue, trouble sleeping, and morning stiffness. FM mainly occurs in women of childbearing age. But children, the elderly, and men can also have it.


It’s vitally important to keep in mind, as evidenced above, that autoimmune diseases are under the influence of a potential combination of genetic and epigenetic factors. As a result of this combination of factors, a crucial step in preventing or eliminating any autoimmune disease is to eliminate all known epigenetic factors described above, that contribute to its creation.

Eliminating the related epigenetic factors may be all that is needed to bring about a cure, since many autoimmune diseases result from a genetic susceptibility combined with epigenetic factors that lead to the presentation of the disease.

Recommendations below will include actions that can be taken to reduce harmful epigenetic factors and to increase helpful epigenetic factors.

How to find out if you have an autoimmune disease?

Getting a diagnosis can be a long and stressful process. Although each autoimmune disease is unique, many share some of the same symptoms. And many symptoms of autoimmune diseases are the same for other types of health problems too. This makes it hard for doctors to find out if you really have an autoimmune disease, and which one it might be. But if you are having symptoms that bother you, it’s important to find the cause. Don’t give up if you’re not getting any answers. You can take these steps to help find out the cause of your symptoms:
• Write down a complete family health history that includes extended family and share it with your doctor.
• Record any symptoms you have, even if they seem unrelated, and share it with your doctor.
• See a specialist who has experience dealing with your most major symptom. For instance, if you have symptoms of inflammatory bowel disease, start with a gastroenterologist. Ask your regular doctor, friends, and others for suggestions.
• Get a second, third, or fourth opinion if need be. If your doctor doesn’t take your symptoms seriously or tells you they are stress-related or in your head, see another doctor.

Lab Tests

When you have an autoimmune disease, your body produces antibodies against some of your own tissues. Diagnosing an autoimmune disease involves identifying the antibodies your body is producing.

The following tests are used to diagnose an autoimmune disease:

auto-antibody tests—any of several tests that look for specific antibodies to your own tissues. The antinuclear antibody test is a type of auto-antibody test that looks for antinuclear antibodies, which attack the nuclei of cells in your body
complete blood count (CBC)—measures the numbers of red and white cells in your blood. When your immune system is actively fighting something, these numbers will vary from the norm
C-reactive protein (CRP)—elevated CRP is an indication of inflammation throughout your body
erythrocyte sedimentation rate (ESR)—this test indirectly measures how much inflammation is in your body

Nutritional Supplements to Support Immune System Health

The immune system needs a good nutritional foundation (over a long period of time) to alleviate or reverse lifestyle autoimmune dysfunction and assist with combating fully developed autoimmune diseases. A fundamental causal basis for autoimmune system boosting was shown in an early study designed to measure the serum concentrations of vitamin E, beta-carotene, and vitamin A in patients prior to developing rheumatoid arthritis or systemic lupus erythematosus. Two to 15 years after the volunteer patients had originally donated their blood to the serum bank (1974), the serum samples were assayed for vitamin E, beta-carotene, and vitamin A. Those patients who developed rheumatoid arthritis or lupus showed lower serum concentrations of vitamin E, beta-carotene, and vitamin A in 1974. Those with the lowest serum level of beta-carotene in 1974 were the most likely to develop rheumatoid arthritis later in life (Comstock 1997). This indicates the long-term importance of maintaining adequate vitamin status for the prevention of autoimmune diseases.

Vitamin D

As mentioned above, adequate Vitamin D levels are critical in auto-immune disease prevention and treatment. Vitamin D is a fat soluble molecule, which means you should take it with fat for absorption. But it also means that some people will not absorb it well at all. Who? This includes those with a leaky gut, those with inflammatory bowel disease (IBD), Crohn’s disease, Ulcerative colitis, liver disease, those without a gallbladder, and those on a low fat diet that 99% of nutritionists and dietitians recommend.

Who else has to worry? Those who are on NSAIDs, those on steroids longer than a two weeks, those on blood thinners or anticoagulants, those on reflux medicines and antacids, and synthetic hormones like birth control pills. It is critical to push your levels to much higher vitamin D plasma levels in these cases.

It is strongly recommended that you talk this over with your doctor. The fears of vitamin D toxicity are very overblown and the risk of too low a level of vitamin D for disease propagation is far too common and risky for your health. It should be easy to understand now why we have an epidemic of hypo-vitaminosis concerning vitamin D.


DHA supplementation can also be beneficial to many auto-immune sufferers. Regular fish oil or Antarctic krill oil supplements, combined with small amounts of cod liver oil, are the best supplemental sources. Be sure that the source is molecularly distilled fish oil to remove toxins and impurities.

Glutathione & NAC

For severe prolonged leaky gut or autoimmune conditions, IV glutathione treatments hold a lot of promise. Since glutathione is made utilizing cysteine, it would be wise to add foods high in cysteine to your diet because glutathione supplements are difficult to get into cells by any other route compared to your gut. Glutathione also requires optimal amounts of B12, Folic acid and betaine levels when treatment is ongoing.

To optimize these supplements naturally from food requires proper circadian signals from cortisol and melatonin within the brain. Both of these rely heavily on the Vitamin A and D cycles in the brain and body, respectively.

N Acetyl Cysteine (NAC) is a precursor to glutathione production and therefore be taken to replenish glutathione stores. People with serious skin manifestations of the leaky gut like psoriasis, acne, or eosinophilic folliculitis should consider NAC because it directly blocks IL-4 which is important in the TH2 immune activation. This, in turn, is the main factor in producing IgE antibodies. IgE antibodies are made in hay fever, asthma, anaphylactic shock and atopic skin diseases.

Both oral and IV use of NAC or glutathione also uses up zinc as a co-factor, so it is usually recommended to add zinc supplementation when these are used. 


Dehydroepiandrosterone (DHEA) is a hormone that decreases with age. Decreases in DHEA levels have been linked to a number of chronic and degenerative diseases including cancer, coronary artery disease, depression, stress disorders, and neurological functioning (Straub 1998). As a result of aging, immunity may become compromised due to dysregulation of cellular hormones (cytokines and growth factors) that govern immune response. Too much or too little of various cytokines produces disease states or compromised responses to various challenges.

DHEA has been shown to prevent chronic inflammation and it slows the aberant signaling that is commonly found in the immune system when it is turned on by any pathogen, self or foreign. DHEA is particularly helpful in limiting IL-6 and TNF alpha in both disease propagation and in normal human aging.

It has been shown that the serum hormone DHEA often declines by 75–80% from peak levels by age 70 or later, leading to hormonal imbalances that can affect one’s quality of life. Peak blood levels of DHEA occur around age 25 when inflammatory levels are low, decreasing progressively thereafter. The marked decline in serum DHEA with age is believed to play a role in health problems associated with aging and loss of immune system functioning. People with autoimmune diseases have some of the lowest DHEA levels when tested.

In aging animals, the addition of DHEA has normalized deranged cytokine levels, including the primary inflammatory factor interleukin-6 (IL-6). In the aged test animals, serum IL-6 was elevated nine-fold from normal. After administration of DHEA or dehydroepiandro-sterone-sulfate (DHEA-S), IL-6 dropped to within 15% of youthful levels. In the same studies, it was shown that antibodies directed toward oneself rose five-fold with aging, but fell by over 50% after 2 weeks on DHEA-S.

In a study of ten women with the autoimmune disease Sjogren’s syndrome, all were shown to have decreased serum concentrations of DHEA-S and an increased cortisol/DHEA-S ratio compared with healthy controls.


Rheumatoid arthritis is an autoimmune disorder in which the body attacks its own tissues as though they were foreign invaders. Boswellia may also offer relief to autoimmune-related rheumatoid arthritis patients. Boswellia can help reduce immune cells that encourage inflammation, while increasing the number of immune cells that inhibit inflammation. Studies indicate that boswellia’s ability to modulate the immune system and inhibit inflammatory activity may help improve the symptoms of rheumatoid arthritis and other autoimmune conditions.

Selenium (selenomethionine for the best results)



Iodine (Lugol’s)

Stress Reduction

A supplemental approach to stress reduction would be obtained from Garum armoricum extract, which contains a class of unique polypeptides that act as precursors to endorphins and other neurotransmitters. These polypeptides exert a regulatory effect on the nervous system enabling an individual to adapt to mentally and physically stressful conditions. Another antidote to stress is an amino acid found in green tea called theanine. Although theanine creates a tranquilizing effect on the brain, it appears to increase concentration and focus thought. DHEA supplementation is the most effective way of blocking the effects of excess cortisol secretion due to stress.

To balance the immune system, one must also balance the mind and emotions. Biofeedback, guided imagery, yoga, deep breathing, musical participation, positive affirmations, meditation, and prayer all help maintain balance.

Intestinal Health

First, you must realize as a patient that many doctors have never even heard the term leaky gut syndrome.

Defense number one is to avoid the dietary sources of inflammation. Many of the low carb diets out there for weight loss completely negate their benefits because they fail to limit omega six fats. A good example of that is the Atkins diet and the current generation of the Weight Watchers diet. Both focus their attention on the glycemic index and glycemic load. This is admirable for “fast weight loss” but it completely fails to take into account leptin resistance due to omega six fats mediated via inflammatory cytokines.

How do we treat leaky gut? Always consult with your doctor first! Then …

A. Reverse the following  Leaky Gut Associations:

Stop eating animal derived foods.

1. Foods high in the glycemic index, and most dairy products raw or pasteurized.
2. Foods high in refined flours, processed foods with low fiber contents.
3. Foods high in caffeine that are chronically used.
4. Excessive use of alcohol or long term use or abuse of antibiotics.
5. Chronic use of drugs like aspirin or ibuprofen, and all proton pump inhibitors (all NSAIDs too)
6. Strong association with mercury laden foods or mercurial environmental toxins.
7. Any disease that causes an altered consciousness (trauma, delirium, dementia, stroke, subarachnoid hemorrhage (SAH)
8. Chronic or severe acute food allergies. Severe food poisoning can also do this.

B. Discontinue the use of fats and oils in the diet.

C. Liberal use of probiotics foods. Use fermented carbohydrates in natural foods as the first option before going to live culture additives. Examples are sauerkraut, pickles, Kimchi, kombucha, artichoke and horseradish, with rosemary, turmeric, and oregano.

D. Bacterial balance must be restored through the use of supplemental probiotics and prebiotics that feed the beneficial bacteria. Consider use of probiotic additives with Lactobacillus acidophilus, Bifido Bacteria, Saccharomyces Boulardi.

E. You might also supplement with Fructo-oligosaccharides (FOS) powders and supplements. These compounds are found naturally in the foods mentioned above in part C, but one can buy (FOS) and use them as well. The FOS helps feed the probiotic bacteria in part D mentioned above and allows them to flourish in our gut flora and replace the species of bacteria that foster inflammation at the intestinal brush border.

F. Consider supplementing with L-glutamine. Utilize bone broths is best here. Real Food always trumps supplements. Sir Hans Krebs, famous for discovering the Krebs cycle, also found that glutamine improves functioning of the intestinal brush border, and the GALT. Glutamine is critical for immune regulation of intestinal immunoglobulin A (IgA). (Fukatsu et al. 2001) IgA is an antibody that attacks virus and bacterial pathogens in saliva, tears, and in mucous. Glutamine also normalizes the effect on TH-2 type IgA stimulating cytokines associated with the generation of allergy responses. (Kudsk et al. 2000). The TH-2 type cells are tied to the endogenous endorphin and endocanabbinoid systems. They are also tied to melanocyte-stimulating hormones (MSH) levels in the brain which links it directly to leptin.

G. Other supplements you might use to combat this syndrome: Aloe Vera 10 grams 2 tsp three times a day. This is a major natural fiber component. This is NOT to be used in cases with Crohn’s, Ulcerative colitis (UC), or intestinal blockages. You might also use N-acetyl-cysteine in combo with vitamin C. You might use 600 mgs of NAC twice a day with 1000 mgs of vitamin C. For severe prolonged leaky gut or autoimmune conditions IV glutathione treatment holds a lot of promise too. Glutathione is difficult to get into cells and it requires optimal B12, folate and betaine levels when treatment is ongoing. Both oral and IV use of NAC or glutathione also uses up Zn as a co-factor so Zinc supplementation is also recommended here. People with serious skin manifestations of the leaky gut like psoriasis and eosinophilic folliculitis should consider NAC because it directly blocks IL-4 and this in turn is the main factor in producing IgE antibodies . IgE antibodies are made in hay fever, asthma, anaphylactic shock, and atopic skin diseases. If the asthma is severe, one can measure the amount of nitric oxide directly in the expired air and it will be elevated. This is also true in cases of emphysema, Chronic obstructive pulmonary disease (COPD) and cystic fibrosis. (Corradi et al. 2001) The NAC will form glutathione and it directly combines with the nitric oxide (NO) to create nitrosothiols. This binding reduces the inflammatory effects of the NO in the body quickly to limit disease. This is also critical within the intestines as well when leaky gut exists.

H. Magnesium 400-1200 mgs at night, Zinc 25-75 mgs a day and Coenzyme Q10 400-1200 mgs a day (depending upon severity of the disease) are all major cofactors in the stress response and used up quickly in the leaky gut syndrome. They could all be replaced liberally. Mg glycinate is particularly helpful here. Magnesium Threonate can also be helpful since it penetrates the CSF of the central nervous system, while no other formulation can.

I. Consider liberal use of omega three supplements and increase of omega three laden foods.

J. Consider use of licorice root called deglycyrrhizinated licorice root (DGL). The dose here is 500mgs of a 10:1 extract three times a day. This is an adaptogen that normalizes cortisol levels, but this form is extremely helpful in leaky gut because it does not have any of the side effects of using whole licorice such as low potassium, low sodium, edema, high blood pressure and palpitations.

K. Ask your mother if you were breastfed and for how long? If the answer is no then consider the use of colostrum as a consistent supplement. Body builders have used it for years to allow them to over-train while closing the permeability of their brush border with the colostrum. It is that effective. Many people do not realize that exercise can open your gut to inflammation. It can.

Lessening Free-Radical Damage

Antioxidants are a broad group of compounds that destroy or neutralize free radicals in the body; thus, they protect against oxidative damage to cells caused by normal aging or daily exposure to pollutants and toxic substances. Antioxidants are found naturally in healthy food, especially fruits and vegetables. The most effective antioxidants include vitamin C, vitamin E, green tea extract, beta-carotene, grape seed-skin extract, coenzyme Q10 (CoQ10), and selenium.

Vitamin C may be the most important water-soluble antioxidant, having the ability to scavenge both reactive oxygen and nitrogen radicals. In controlled studies, vitamin C has demonstrated antiatherogenic, anticarcinogenic, antihistaminic, and immunomodulatory benefits.

Vitamin E is a fat-soluble, essential nutrient for humans. Increased risk for coronary artery disease, Alzheimer’s disease, and cancer has been associated with vitamin E deficiency.

Green tea belongs to the flavonoid family. Green tea catechins are potent free radical scavengers that have demonstrated anticarcinogenic, anti-inflammatory, antiatherogenic, and antimicrobial activity.

Beta-carotene is a dietary precursor to vitamin A. Beta-carotene has demonstrated immunomodulatory effects in male non-smokers and increased lymphocyte counts in healthy male smokers. Beta-carotene’s antioxidant activity may prevent oxidative damage to DNA and inhibit lipid peroxidation.

Grapeseed-skin proanthocyanidins have demonstrated several antioxidant activities, including inhibiting the oxidation of damaging LDL cholesterol. Other research has shown tumor-protective, cardio-protective, and liver-protective benefits.

CoQ10 has shown antioxidant activity within the mitochondria and cellular membrane. CoQ10 levels decline with aging and are strongly related to increased cardiovascular disease, especially congestive heart failure. Supplemental CoQ10 has shown usefulness in treating periodontal disease and boosting energy levels.

Selenium is a trace mineral that is essential for healthy immune function. Selenium provides protection to immune cells from stress-induced oxidative damage and neutralizes the effects of some toxic metals. Low dietary intake of selenium is associated with cardiovascular disease and certain cancers.

Reducing Inflammation

Supplementation with omega-3 essential fatty acids (EFAs) from flaxseed, or perilla oils–along with borage oil, evening primrose oil, or black currant seed oil, which contain the essential omega-6 fatty acid gamma-linolenic acid (GLA)–can alleviate many symptoms of autoimmune disease through their anti-inflammatory activity.

If you have chronic elevated inflammation and a low Vitamin D level then it is important to eliminate all nightshades vegetables. These include Datura, Mandragora (mandrake), Atropa belladonna (deadly nightshade), Lycium barbarum (wolfberry), Physalis philadelphica (tomatillo) , Physalis peruviana (Cape gooseberry flower), Capsicum (chili pepper, bell pepper), Solanum (potato, tomato, eggplant), Nicotiana (tobacco), and Petunia. With the exception of tobacco (Nicotianoideae) and petunia (Petunioideae), most of the economically important genera are contained in the subfamily Solanoideae.  

Many members of the Solanaceae family are used by humans, and are important sources of food, spice and medicine. However, Solanaceae species are often rich in alkaloids whose toxicity to humans and animals ranges from mildly irritating (most) to fatal in small quantities.

What are Solanaceae? If you have an AI, Degenerative disc disease (DDD) or Degenerative joint disease (DJD) consider avoiding them:
A. American-grown soy! It has been hybridized with petunias, a nightshade, to be pesticide resistant (Round-Up)
B. All potatoes except sweet potatoes since they are from the Marigold family
C. Tomatoes (green are worse than any other type). The lycopene issue is offset by eating other red fruits of veggies. Watermelon for example blows tomatoes away as a source of lycopene.)
D. eggplant
E. sweet and hot peppers (including paprika, cayenne pepper and Tabasco sauce, but not black pepper)
F. ground cherries
G. tomatillos and tamarillos
H. garden huckleberry and naranjillas
I. pepinos and pimentos
J. Only the cape gooseberry is a nightshade (Physalis peruviana), Most gooseberries are not in the nightshade family. They are in the genus Ribes and are related to currants.
K. Blueberries, Strawberries, okra, artichokes, have some solanaceae toxin in them, but are not strict nightshades. If you have arthritis or another inflammatory condition you might want to rethink the ‘dogma’ that surrounds them.

If you are ill with debilitating arthritis, Hashimoto’s or any autoimmune disease, fibromyalgia, biotoxin illness, or just have a high HS CRP normally, serious consider limiting these foods.

Slowing the Damage to Healthy Protein

Carnosine, a dipeptide amino acid found naturally in the body, helps slow the formation of glycated protein end products. Recall that glycated protein may be unrecognizable to the immune system, thereby triggering an autoimmune attack. Since the normal removal of damaged protein declines with aging, slowing the development of protein crosslinking (glycation) may help to reduce an autoimmune reaction. In addition to its antiglycation effects, carnosine has been found to modulate immune system neutrophils, thus suppressing a response.

Additional Dietary and Epigenetic Recommendations

The recommendations above are primarily directed at immune system normalization. An essential recommendation for achieving and maintaining immune system health as well as achieving optimal  health includes the general dietary and epigenetic considerations listed below:

Step 1:Determine if you are leptin resistant?

Remember, you can be LR (leptin resistant) if you’re fat or skinny. If you’re overweight by more than 30lbs, it is a lock you have some degree of LR. If you’re underweight by 20 lbs, you are likely LR, too. If you had an eating disorder, you’re likely suffering from a serious leptin issue.

The easiest test is to look in the mirror. The mirror does not lie and it is really cheap. For those people who still can’t be sure after peeking in the mirror, you can order some blood tests. HS CRP (highly sensitive C-Reactive protein) and the reverse T3 tests (but there are others) are accurate in over 90% of cases.

Another effective test is a salivary cortisol level. With LR, you will always see higher cortisol levels later in the day.

If you are fit and in decent shape and not sure based upon the following signs, get a blood test and check your reverse T3. If your reverse T3 is elevated, this indicates you’re Leptin Resistant.

Signs of Leptin Resistance:

Being overweight of way to thin

Fatigued after meals

The presence of ‘love handles’

High blood pressure

Constantly craving ‘comfort foods’

Feeling consistently anxious or stressed out

Feeling hungry all the time or at odd hours of the night

Having osteoporosis

Being unable to lose weight or keep weight off

Regularly craving sugar or stimulants (like caffeine)

Having high fasting triglycerides, over 100 mg/dL- particularly when equal to or exceeding cholesterol levels

Having a tendency to snack after meals

Having problems falling or staying asleep

No change in how your body looks, no matter how much you exercise

Leptin Rx- Becoming leptin sensitive:

General Dietary Recommendations:

How and when you eat your fuel is more important than any other factor, including the food itself.
• Never snack at all. This is meant initially and forever. Snacking completely stresses the liver’s metabolism and is just not recommended. Snacking destroys the timing and circadian clocks that work in unison with Leptin.
• Try to eat three meals a day initially; but as your hunger and cravings fade you can adapt to two a day.
• Try to eat breakfast as early as possible from rising, ideally within 30 minutes of waking.
• Do not work-out before or after breakfast.
• Try to allow 4 to 5 hours between dinner and sleep time.

Other DO’s and DON’T’s
• Do not work out before or after breakfast (if you must work out, do it after 5pm)
• Do allow 4-5 hours between dinner and bedtime
• Trouble sleeping? Do 3-5 minutes of body weight exercises (i.e. pushups or squats)

Signs it’s working:
• Change in your sweating pattern
• Energy levels will rise
• Hunger and cravings will become less and eventually disappear
• When you awaken you will feel refreshed and well rested
• Men: quicker weight loss
• Women: Mood changes (calmer/sleepy), then sleep will improve. Clothes will fit differently and weight loss will occur if you continue the program

After leptin sensitivity is restored, what practices should be followed?
Never miss breakfast because eating it stimulates the circadian rhythm for gastric acid secretion in adults. This will become critical later in the day for body composition optimization.
Avoid working out prior to breakfast. It is a circadian cycle breaker because it raises cortisol at a time it is already high.
For Optimal results you must get most of your daily activity between 9AM and 4PM when light cycles are strong year round. This is another reason to strive for high vitamin D levels year round. Avoid sitting at all costs and consider walking to get lunch or a short run during your mid day break.
Critical point: The best time to work out biologically occurs when it is least likely to be convenient for you because our neolithic lives won’t allow it. This is that important biologically to get to optimal. 1-5 PM is the ideal workout window. For best results, try to do the exercise in bright sunlight.
Dinner should be eaten within 45 minutes to 1 hour of this late afternoon work out.
Try to complete dinner by 7 PM. This is critical in autumn and winter time to get to optimal results. 8PM is the outer limit for dinner in spring and summer. You may need to alter meal times very precisely as the light cycle changes during the year. Many people might find this too regimented.
Sleep by 11PM in spring and summer months. During the summer months you may end up with higher body fat due to the longer light cycles. In autumn and winter strive to be in bed by 10 PM. Strive to be in bed earlier when the clocks are set back an hour in fall and heading toward the winter solstice on Dec 21st. You should find that you are leanest during this time of the year. The goal of sleep in any day of the year is an optimal 7.5- 8 hours of sleep a night no matter the season. You will know when you are doing well because you will no longer need an alarm clock and your sleep wake cycle will be automatic.

Drink plenty of clean, pure water:

It is essential to remain fully hydrated at all times by drinking clean pure water. Remaining adequately hydrated is dependent on ingesting enough water to replace water that is eliminated through the various metabolic activities occurring in the body. A commonly held rule of thumb for daily water intake is to take your body weight, divide it by two and drink that amount in ounces of water per day. For example: Body weight 130 lbs divided by 2, equals 65 ounces per day. For any dehydrating medications or beverages, such as coffee, tea, alcohol, some herbal teas, all juices and sodas, add another 12 to 16 ounces of pure water to your daily intake for every 8 ounces of diuretic beverage consumed. This is one reason why coffee is served with a glass of water in some parts of the world. Strenuous physical activity may also require the ingestion of additional water to keep up with metabolic needs. Drinking more than a gallon a day should be avoided, however, since too much water can also adversely affect the body’s metabolism.
The best all around option for water is multi-stage filtered reverse osmosis (RO) water from a local vendor, either delivered or by filling your own bottles. You should also insure that you are getting water with extremely low fluoride levels by filtering RO water through fluoride filters.

Establish highly beneficial sleeping habits:

• Utilize as little artificial light (particularly blue light) as possible once the dark of night approaches. Sources of blue light are: cell phones, tablets, laptop computers, fluorescent light bulbs and LED lights and regular incandescent lights. If you must use artificial light then use low wattage red light for as short a time as possible.
• Keep the sleeping area as close to pitch black as possible with no night lights or bright alarm clock lighting. Use blackout curtains if necessary to block outside light from entering the bedroom area.
• Do not sleep with the TV or Ipod/stereo/radio on.
• Turn off all Wifi devices in the house, as listed above.
• Sleep with the temperature set as low as possible.
• Refrain from eating protein or carbohydrates 4 hours before going to sleep.
• Schedule sleeping time in order to be asleep for at least 6 hours before 4:30 AM.
• Shoot for a total of 7 1/2 to 8 hours sleep a night.

Avoid shift work in order to sleep during the dark of night.

Absorb Plenty of Electrons From the Earth through Grounding (AKA Earthing):

Throughout most of human existence, humans have sat, stood, strolled, and slept on the ground – the skin of our bodies touching the skin of the Earth. And throughout time, such ordinary contact served as a conduit for transferring the Earth’s natural, gentle negative charge underfoot into the body. You see, we are bioelectrical beings living on an electrical planet.

Modern lifestyle has disconnected us from this primordial charge. Instead of conductive leather or footwear made of hides, we wear insulating shoes with soles of plastic and rubber.
In order to connect with the earth’s electrical field and absorb these vital electrons, be sure to spend as much time as possible doing the following:
Go barefoot as much as possible when standing or walking on bare earth, grass, or beach.
If the floor in your living or working space is wood or vinyl you will not be grounded. Those are not conductive materials. If your floor is unsealed concrete or stone built directly on the Earth, and without some kind of a plastic vapor/moisture barrier beneath it, it is very likely to be conductive and you would receive the Earth’s energy through the floor.
As far as a tile floor is concerned, it depends. Unsealed/unpainted tile directly attached to a concrete slab would likely permit grounding. Ceramic tile with a glazed finish on the surface will, like glass, probably prevent conductivity. If the tile sits on plywood or some other kind of wood, plastic, or vinyl understructure, you are not likely to get any conductivity. Conductivity will also be affected if petrochemical bonding material has been used to adhere the tile. Obviously no grounding will occur on carpeted floors.

Swimming in the ocean, lakes or rivers will also connect you with the earth’s electrical current.
When wearing shoes, if possible, select for leather soles and especially for moccasins, since these have more of an ability to conduct the electrical earth current to the feet. There are also some earthing shoes available that use electrical conducting materials in the sole of the shoe.
Most sleeping bags are made of insulating and synthetic materials. Some part of your body thus needs to be in direct contact with the Earth in order for you to get the full benefit of Earthing. The skin of your body needs to come in contact with the “skin of the Earth.” It can be a bare foot, or arm, for instance, sticking out of the sleeping bag in contact with the Earth.

Sun Bathing (photoelectric effect):

Be sure to get regular exposure to the sun’s UVB rays in order to produce enough vitamin D to meet the body’s needs. Sunburn should always be avoided at all times, since it damages the skin and increases the chances of developing skin cancer.
Remember if the moisturizer you use has an SPF value, it will block UVB rays and will not allow your body to produce any vitamin D. You can use a moisturizing, safe, non-SPF cream to moisturize your skin, or use something as simple as organic coconut oil to moisturize your skin as this will also benefit you metabolically.
Due to the physics and wavelength of UVB rays they will only penetrate the atmosphere when the sun is above an angle of about 50° from the horizon. When the sun is lower than 50°, the ozone layer reflects the UVB rays but lets through the longer UVA rays (which can burn). In Chicago, the UVB rays are not potentially present until March 25, and by September 16th it is not possible to produce any vitamin D from the sun in Chicago. Please understand it is only theoretically possible to get UVB rays during those times. If it happens to be cloudy or raining, the clouds will also block the UVB rays.

The first step to figure out the dates that UVB rays are available for sunbathing is to determine the latitude and longitude of your location. You can easily do this on the National Weather Service site: : enter your zip code or city and state, click GO. On the right side of Current Conditions on the next screen, will be your location’s latitude and longitude. or on Google Earth, or if you are in the U.S. you can use the TravelMath Latitude Longitude Calculator to find your latitude and longitude. Once you have obtained that you can go to the US Naval Observatory site to calculate a table to determine the times and days of the year that the sun is above 50 degrees from the horizon. The URL for the US Naval Observatory Azimuth table is
During the times of the year when UVB rays are not present where you live you essentially have two options: You can use a safe tanning bed or you can take oral vitamin D3.

Eliminate or severely reduce exposure to non-native EMF:

Eliminate or severely reduce the use of cell phones (if absolutely necessary use the speaker hands free or an air tube headset).

Eliminate cordless DECT phones (use land-line phones).

Eliminate Bluetooth devices.

Eliminate Wifi of any sort (use wired devices only and avoid public Wifi areas).

Get rid of smart electrical meters.

Minimize or avoid the use of microwave ovens.

Eliminate EMF emitting devices where you sleep (unplug these while you sleep).

Move far away from cell phone towers.

For more info and products for EMF testing and mitigation, take a look at Less EMF on the web:

If you would like to rent test meters take a look at Neuert Electromagnetic Services on the web:


What Are Autoimmune Disorders?

Lab Tests Online
Autoimmune Disorders

Autoimmune diseases fact sheet

Life Extension
Autoimmune Diseases

Does the Gut Microbiome Play a Role in Autoimmune Disease?
Amy Nett, MD. December 23, 2014

Autoimmune diseases fact sheet

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