Depression – Putting the 5-piece Puzzle Together
Author: Jian Gao, PhD
Editor: Mr. Frederick Malphurs
October 06, 2024
Disclaimer: This article is informational/educational only and should not be used as a substitute for medical advice from your doctors. The sole purpose of this article is to provide science-based information/evidence that you can use to communicate with your doctors to reach the desired outcomes.
The Big Picture
If you or your loved ones are diagnosed with depression, you are not alone. The prevalence of depression has skyrocketed over the past decades. Unfortunately, the prevailing drug-centered treatment masking the symptoms without addressing the root causes can do more harm than good. History will show focusing on the symptoms rather than the root causes of depression and other mental health disorders is one of the greatest tragedies in modern medicine.
First, what is depression? To date, there are no objective criteria or biomarkers separating low mood (sadness, loneliness, low self-esteem, anxiety, negative rumination etc. due to adverse life events/experiences) from clinical or major depression. Is depression a disorder of the mind (psychological) or the brain (biological)?
To understand depression, it is instructive to see the mind as software and the brain as the hardware of a computer. According to Wikipedia, “the mind is what thinks, feels, perceives, imagines, remembers, and wills, encompassing the totality of mental phenomena.” On the other hand, the brain is a tangible organ. Software runs on hardware.
For the sake of healing depression by addressing the underlying causes, let’s regard low mood as a software problem involving how we think, and depression as a hardware problem involving physical changes such as shrinkage of certain brain regions (e.g., hippocampus, amygdala, and prefrontal cortex) and dysregulation of neurotransmitters (e.g., serotonin, dopamine, and norepinephrine). This computer analogy is by no means scientific, but it can help us conceptualize the problem.
Persistent low mood can cause depression (brain changes), just like malfunctioning software keeping the computer hardware continuously running can overheat and even burn the cooling fans, circuits, or CPU. Conversely, depression (brain changes due to, say, malnutrition or exposure to toxic chemicals) can cause persistent low mood, just like broken hardware can affect the function of the software. In essence, persistent low mood (software) and depression (hardware) are different problems, but their relationship can be reciprocal.
Now, the multi-billion-dollar question is, apart from low mood, what can cause depression?
Despite the poor understanding of depression, one thing is clear: The development of depression is not due to lack of antidepressants in the head. And antidepressants do not fix the root causes of depression either. Worse still, studies have consistently shown antidepressants are not much better than placebos (water pills),1 and the side effects can be unthinkable – “Antidepressants increase the risk of suicide, violence and homicide at all ages.”2
Understanding antidepressants is paramount before starting to take them. There are several scholarly written books that are truly enlightening: Unhinged by Daniel Carlat,3 MD, a well-known practicing psychiatrist, Medical Director of Inpatient Psychiatry/Chairman of Psychiatry at Melrose Wakefield Healthcare. Mad in America by Robert Whitaker,4 an award-winning journalist. And The Emperor’s New Drugs – Exploring the Antidepressant Myth by Dr. Irving Kirsch,5 an internationally recognized psychologist and mental health researcher.
There is no shortcut – “Depression is not caused by a chemical imbalance in the brain, and it is not cured by medication.”5 To heal depression, the first and most important step is to figure out what causes it – no disorders will go away unless the root causes are addressed.
Identifying and managing the underlying causes can be overwhelming. But with the right approach, It is doable. In most if not all cases, depression is a five-piece puzzle: (1) genetics, (2) stress (low mood), (3) toxic chemicals, (4) gut, and (5) nutrition.
The Root Causes
1. Genetics
That depression can run in the family is well known. Statistics show the risk of developing depression is higher if a family member(s) has it. But that does not mean depression is a genetic disease. It is true some are more likely to experience depression than others due to genetic variation (genetic predisposition). However, despite all the advances in DNA sequencing, no depression gene has ever been found,6-8 which clearly tells us no one has to suffer from depression because of his/her genetic makeup.
Of course, genetic variations are not totally irrelevant. For instance, GSTM1 deletion could reduce the enzyme used in the liver for detoxification, and MTHFR 677TT genotype can interfere with folate (vitamin B9) absorption/metabolism, which could contribute to depression. However, the effects of these mutations can be corrected by avoiding toxic chemicals and/or consuming more folate rich food. Bear in mind, vast majority of people with these mutations do not get depression.
Do not blame your genes – in fact, except for rare mutations, most of the genetic variations are normal and essential for the human race to survive. If we all had the same genes, human beings would have been wiped out long ago by one virus or plague – if there were no genetic variations, there would have been no evolution (natural selection) because there would be nothing to select on.
Still, you might wonder why does it run in the family? Well, family members are more likely to have the same life experiences, to learn the same coping skills, to eat the same food, and to live in the same environment. Genes are not your destiny – again, there is no such a gene whereby a carrier would have to suffer from depression.
2. Stress
What is stress? According to WHO (World Health Organization), “Stress can be defined as a state of worry or mental tension caused by a difficult situation. Stress is a natural human response that prompts us to address challenges and threats in our lives.”
Stress can energize us to fight off threats, but chronic stress is a health killer – it affects every system in our body and contributes to almost every disease.9-12 In particular, stress disrupts the nerve system (causing anxiety), the digestive system (dysbiosis or pathogenic bacteria overgrowth producing neurotoxin, and leaky gut allowing toxins getting into the blood stream and brain), the endocrinal system (causing hormone imbalance), and gene expression (altering the normal synthesis of hormones, enzymes, neurotransmitters etc.), which directly or indirectly induces low mood and/or depression.13-15
Many things in life, such as adverse life events or experiences (even during childhood), rocky relationships, financial difficulties, uncertainty about the future, needing to be perfect, all of which are called stressors and can create stress. We can take proactive measures to avoid stressors, but nobody can prevent them all or even anticipate them all. When stressors are unavoidable, coping skills can make a huge difference. For instance, some manage financial difficulties well while others do not. If stress plays a role in your depression, consult with a psychologist who can coach you to learn and use effective coping silks.
Psychotherapy, also called talk therapy, has over 200 years of track record in healing depression and even more severe mental disorders. The earliest psychotherapy, part of the moral treatment, was introduced to asylums in Philadelphia by Quakers from England in 1817. Before the introduction of moral treatment, patients in mental hospitals or asylums were routinely beaten up or chained. Their conditions were typically getting worse rather than better. In contrast, moral treatment (psychotherapy) was reportedly to have resulted in more than half of the patients recovered and discharged.4
Of course, psychotherapy is not a cure-all – it cannot help those suffering depression triggered by other factors such as toxic chemicals or nutrient deficiency.
3. Toxic Chemicals
Studies have consistently and clearly shown environmental chemicals contaminating our food, drinking water, air, and personal care products can directly or indirectly induce depression through various mechanisms:16-23
- Chemicals such as phthalates, BPA (bisphenol A), and certain pesticides such as glyphosate (Roundup) and DDT (banned decades ago but still in the environment) are known endocrine disruptors. They can interfere with the hormone system affecting mood regulation and contributing to depression.
- Many toxic chemicals such as VOCs (volatile organic compounds) and heavy metals like lead and mercury can interfere with neurotransmitters such as serotonin, dopamine, and norepinephrine by altering their synthesis, release, and reuptake, which play crucial roles in mood regulation.
- We are often told by the experts that toxic chemicals can trigger inflammatory responses in the brain, which damages brain cells. What really happens is these toxic chemicals trigger the immune system to produce chemicals like antibodies and cytokines to quell the enemies, but they often cause collateral damage in the brain.
- Some chemicals (e.g., lead, mercury, cadmium, ethanol, benzene, nitrogen dioxide, DDT, and glyphosate) have direct toxic effects on brain cells. They can impair neuronal function, damage nerve cells, and disrupt neural circuits involved in mood regulation, contributing to the development of depression.
- Toxic chemicals can also alter gene expression through epigenetic mechanisms. These changes can disrupt the balances of hormones and/or neurotransmitters, affecting stress response, mood regulation, and brain function.
In addition to the manmade chemicals and natural heavy metals such as lead and mercury, toxic chemicals produced by mold in damp homes or offices can also poison the brain and contribute to depression.24,25 Furthermore, food intolerance such as gluten/dairy sensitivity can be a problem too as will be discussed below. Tragically, these invaluable life-saving findings have been largely ignored by the mental health establishment.
4. Gut
Dysbiosis
Gut dysbiosis is an imbalance of microbiome living in the digestive tract (mainly bacteria, but also include viruses, fungi, and other microbes). Dysbiosis is particularly dangerous when there is an overgrowth of harmful bacteria producing neurotoxins hurting the brain. Dysbiosis can induce depression via different pathways:26-35
- Dysbiosis can disrupt the production of many neurotransmitters, which plays an important role in depression development. Over 90% of the body’s serotonin and 50% of dopamine are produced in the gut; and substantial amounts of other neurotransmitters such as GABA (Gamma-Aminobutyric Acid), norepinephrine, acetylcholine, histamine are also synthesized in the gut. The synthesis of these neurotransmitters is modulated by SCFAs (short-chain fatty acids) like acetate, propionate, and butyrate, which are produced by gut bacteria fermenting dietary fiber. In fact, bacteria can also directly produce these neurotransmitters.36
- Overgrowing pathogenic organisms in the gut can produce neurotoxins affecting brain cells directly. An enlightening case in point is auto-brewery syndrome (ABS), also known as gut fermentation syndrome, where overgrowth of yeast (e.g., saccharomyces cerevisiae) in the gut ferments carbohydrates into ethanol. ABS can be so severe that some individuals were arrested for drunk driving without drinking a drop of alcohol.37-39
- Studies have demonstrated the metabolites (e.g., indole and its derivatives) produced by harmful bacteria can provoke the immune system to produce certain cytokines and antibodies damaging brain cells, which is commonly referred to as chronic inflammation. Some fragments of dead bacteria such as lipopolysaccharides (LPS) have the same harmful effects.26,31
- Dysbiosis can also induce intestinal permeability, known as leaky gut,40,41 allowing pathogens, toxins, and large molecules pass the lining of the intestines and get into the blood stream, which provoke the immune system to mistakenly attack healthy tissues or organs including the brain.
The observation that dysbiosis can cause depression and other mental disorders is not new. In fact, surgical removal of colon and other body parts to eliminate bad bacteria (dysbiosis) was a common practice in America until early 1940s before the wide use of antibiotics. The leading proponent of this practice was Dr. Henry Cotton, the medical director of the largest mental hospital in America, the New Jersey State Hospital at Trenton.
Cotton and his staff performed surgeries on thousands of patients to remove the infected body parts (e.g., teeth and colon) and claimed great success in curing patients.42 The practice came to an end after Cotton got caught falsifying outcome data – the effectiveness of the surgeries was much lower that he claimed. Cotton fell from grace and unfortunately the concept of dysbiosis was also buried with his fame for nearly 80 years.
The concept and gravity of dysbiosis was rediscovered about two decades ago first by alternative medicine practitioners and then by researchers. For instance, doctors practicing functional medicine would test for candida and other bad germ overgrowth in treating almost every chronic disease. Research on this topic is very active too – a quick search on PubMed with key words “gut microbiota” shows nearly 44,000 published articles.
Worth noting is the relationship between dysbiosis and depression is likely reciprocal or bidirectional – at least, we know depression can cause stress, and stress in turn can induce dysbiosis.43
In any event, the observation that dysbiosis can induce depression is substantiated by the fact that many patients suffering from depression and other mental disorders are healed by using probiotics, prebiotics, synbiotics, postbiotics, or fecal microbiota transplantation to treat dysbiosis.26,44 Of course, not everyone’s depression is caused by dysbiosis or cured by treating it.
Leaky Gut
Leaky gut, also known as intestinal permeability, happens when the millions of small doors (called tight junctions) of the intestinal lining are jammed open for an extended period of time, allowing bacteria and other toxins to pass through the lining and enter into the blood stream where the immune system is on guard 24/7.
Let alone bacteria and toxins, even protein molecules from food are seen as invaders by the immune system that only recognizes amino acids and certain small peptides as food (our digest system breaks proteins down into amino acids or some amino acid groups called peptides). When the immune system sees enemies coming, it mounts attacks. Unfortunately, our immune system is not perfect – it can be tricked by enemies into attacking healthy tissues including the brain.
One of the most potent invaders that can pass the compromised intestinal lining and spook the immune system is LPS (Lipopolysaccharides). LPS, mainly composed of fat and sugar, is a major structural component of the outer membrane or cell walls of Gram-negative bacteria (a class of bacteria not retaining the crystal violet stain used in the Gram staining method of bacterial differentiation).
When Gram-negative bacteria die and their cell walls break down, LPS is released into the digestive system. Upon getting into the blood stream through the compromised intestinal lining, LPS induces violent immune responses. In animal models, it has been demonstrated LPS provokes neuroinflammation, causes cognitive impairment, raises the level of beta-amyloid (a hallmark of Alzheimer’s disease), and decreases the production of BDNF (brain derived neurotrophic factor) that in turn affects neuroplasticity (ability to adapt and form new neural connections), neuronal survival, neurogenesis (generating new neurons), and mood regulation (low levels of BDNF is associated with mood disorders like depression and anxiety).45-48
Given that up to 75% of the microbiota in human gut are Gram-negative and constantly dividing and dying, a leaky gut for an extended period spells nothing but trouble. And LSP is not the only troublemaker out there – countless other substances (even protein molecules from food), once getting into the blood stream, can confuse the immune system which in turn mistakenly starts to attack the brain. Indeed, studies have clearly demonstrated leaky gut can lead to depression.49-54
The concept of leaky gut is relatively new. Although alternative medicine practitioners started to address leaky gut for variety of diseases for over two decades, the medical establishment has so far refused to recognize the problem. The good news is the medical establishment’s attitude towards leaky gut has been changing from angrily denouncing it as pseudoscience to pretending to not see it.
For starters, the lining of the small intestine is composed of two layers: the intestinal epithelium and the mucus layer which is on top of but not attached to the epithelium. The epithelium is a single cell layer which, of course, is very thin. Amazingly, these cells are not the same – there are at least seven types of cells (together called epithelial cells), and each type of cells performs different functions.55 For example, enterocytes, the most abundant epithelial cells in both the small and large intestines, not only absorb nutrition but also secrete a variety of antimicrobial proteins that directly attack and kill harmful bacteria. Even more amazingly, all the epithelial cells have a very short lifespan – they are renewed every 3-5 days.
All the epithelial cells are linked together by the molecules called tight junctions (consisting of at least 35 different proteins), which forms a membrane only allowing tiny particles to pass through when it works properly.56 The breakthrough in understanding leaky gut came just a little over two decades ago when the now renowned pediatric gastroenterologist Dr. Alessio Fasano and his team discovered that these tight junctions, like billions of tiny doors, can open and close in minutes.
Not only did Dr. Fasano find the tiny doors can be opened and closed, but also spotted the doorman with a master key to the doors, a protein called zonulin in our body regulating the movement of these doors. When our body releases zonulin, all the mini doors are opened. Probably this is a nature-given defense mechanism; for instance, when sensing E coli have invaded the digestive system, our body releases zonulin to open the mini-doors so that fluid from inside our body can rush into the intestines and wash away the bacteria. That’s why and how diarrhea happens.
However, this defensive mechanism has glitches – Dr. Fasano and his team have demonstrated gluten can stimulate the release of zonulin opening the mini-doors,57 and these mini-doors are not one-way streets – the bad guys taking advantage of the open-door policy can get into the blood stream and confuse the immune system. So, for the genetically predisposed individuals, the mini doors can be jammed open for too long and a chain reaction ensues: gluten → zonulin → leaky gut → confused immune system → maladies of all kinds including depression.58-61
Unfortunately, gluten and bacteria are not the only triggers out there. Some medications, especially NSAIDs (Nonsteroidal anti-inflammatory drugs) such as ibuprofen and aspirin can induce leaky gut within 12–24 hours.62,63 In addition, although the evidence on humans is not definitive, lab and animal models have clearly demonstrated psychological stress can cause leaky gut too.64
5. Nutrition
Despite the fact that nutrition plays a significant role in depression development, severity, and treatment, it has been largely overlooked. Our nutrition status is not as good as we think, especially when it comes to micronutrients (minerals, vitamins, and polyphenols).
In a 2017 press release, the CDC reported “Only 1 in 10 Adults Get Enough Fruits or Vegetables.”65 The problem is compounded by the decline of micronutrients in vegetables, fruits, and grains. Soil has been depleted of micronutrients due to intensive farming with chemical fertilizers.66-68 For instance, a recent study shows a 49.1% decrease of copper, 50.2% of iron, 51.7% of sodium, and 9.7% of magnesium in fruit and vegetables in the UK from 1940 to 2019.66
Consequently, the micronutrition status is troubling. NHANES (National Health and Nutrition Examination Survey) revealed a high prevalence of inadequacies for multiple micronutrients.69 For instance, 94.3% of the population do not meet the daily requirement for vitamin D, 88.5% for vitamin E, 52.2% for magnesium, 44.1% for calcium, 43.0% for vitamin A, and 38.9% for vitamin C.
Yet, these micronutrients are essential for our brain to function properly. They are indispensable for the production and regulation of neurotransmitters like serotonin, dopamine, and norepinephrine, which play a key role in mood regulation.70,71 And studies have consistently shown micronutrient deficiency or insufficiency is associated with the development, severity, and recovery of depression.72-80 Although all the vitamins and essential minerals are needed for good mental health, vitamin D and the various vitamin B’s merit special attention.
Studies including randomized controlled trials and prospective analyses have convincingly demonstrated the serum vitamin D level in the individuals suffering from depression is lower, and more importantly, vitamin D supplementation significantly improves depressive symptoms.81-89 Unfortunately, vitamin D deficiency and insufficiency, which are easy to fix, are still wide spread.
The link between folate (vitamin B9) deficiency and depression was discovered 62 years ago in 1962 by Dr. Victor Herbert (1927-2002) who heroically placed himself on a folate deficiency diet for four months, which resulted in depressive symptoms. After folate replenishment, all the depressive symptoms were resolved.90 The self-sacrificing experiment clearly demonstrated a causal relationship between folate deficiency and depression development. Be aware that, in real life, folate deficiency is not necessarily due to poor diet. Many other factors can contribute to the deficiency. For instance, some medications (e.g., anticonvulsants, contraceptives, certain chemotherapies), chronic diseases such as autoimmune disorders (e.g., rheumatoid arthritis), malabsorption syndrome, and genetic variability (e.g., MTHFR 677TT genotype) can either interfere with folate absorption/metabolism or increase its excretion.91
Other vitamin B’s essential for neuronal function are vitamin B1 (thiamine), vitamin B3 (niacin), vitamin B6 (pyridoxine), and vitamin B12 (cobalamin). Numerous studies have shown a diet rich in vitamin B’s or supplementation of vitamin B’s improves depressive symptoms.92-98
In addition to vitamins, several minerals also play a crucial role in depression onset, severity, and recovery. Among them, zinc deserves more attention – studies have consistently shown zinc deficiency increases the risk of depression, and zinc supplementation reduces depressive symptoms.99 Apart from zinc, deficiency in magnesium, selenium, iron, copper, and calcium has also been found to increase the risk of depression.72,79,100-103 Anyone suffering from depression should have the vitamin and mineral levels checked. And also keep in mind that overdosing minerals can be toxic.
In contrast to micronutrition, deficiency in macronutrition (carbohydrates, fat, and protein) is uncommon. However, insufficient intake of dietary fiber and excessive consumption of sugary food can fuel overgrowth of bad bacteria (dysbiosis) which in turn can induce depression as noted earlier.104 Remember, bad bacteria thrive on sugar, and good bacteria grow on dietary fiber.
Proteins are needed for good mental as well as physical health for that matter. In the digestive system, proteins are broken down into amino acids and peptides (a small number of amino acids bonded together). Amino acids are the building blocks of many neurotransmitters. For instance, dopamine is made of tyrosine (an amino acid), and serotonin is made from tryptophan (another amino acid). Protein deficiency is rare, even among vegetarians; but adequate protein intake is a must for the brain to work properly.
As to dietary fats, we all know saturated and trans fats are detrimental. However, many might have overlooked the benefits of omega-3 fatty acids for mental health, especially EPA (eicosapentaenoic acid) and DHA (docosahexaenoic acid). Omega-3 fatty acids are believed to inhibit neuroinflammation, promote neurogenesis, improve neuroplasticity, and help nervous system repair.105-108 Studies have shown eating more fish is associated with low risk of depression.109,110 However, the findings from randomized controlled trials assessing the effect omega 3 fatty acid supplementation on depression are inconclusive.111 This is no surprise – the percentage of individuals suffering from depression solely due to omega-3 deficiency is unlikely to be high – omega-3 supplementation without addressing other root causes is unlikely to be effective for most depressive patients.
Regardless, studies have consistently shown high quality diets such as the Mediterranean diet are associated with low risk of depression.112-118 We are what we eat, which is true for both mental and physical health.
The Cure
No disorders, mental or physical, will go away unless the root causes are addressed – the only cure is to fix the underlining causes. Identifying and managing the root causes are not always easy because, in most cases, depression is not set off by one trigger, but by any combination of the five risk factors – it is a 5-piece puzzle. Fortunately, there is no depression gene – nobody has to suffer from depression because of his or her genetic makeup. So, you only need to manage four pieces of the puzzle.
When you are not sure which piece(s) causes the problem, take a shotgun approach – address all four pieces. Psychotherapies provided by psychologists or psychiatrists are very effective in managing stress or persistent negative thoughts. Alternative medicine (e.g., functional medicine) practitioners can guide you for detoxification, fixing dysbiosis as well as leaky gut, and addressing deficiencies in micronutrients.
Bear in mind, your brain does not malfunction for no reason. And no triggers or root causes are beyond the 5-piece puzzle. However, you need to guard against the “last straw” fallacy. It is true that the last straw breaks the camel’s back, but do not expect a camel to get up and run after the last straw is lifted off. Diseases, once onset, have momentum and can be kept going by a minor trigger. Just like a standstill 18-wheeler, it is hard to get it moving; once in motion, it is hard to stop.
The bottom line is you need to fix all the root causes at the same time. It can be challenging, but it is doable and well worth the effort. If you do not see progress or feel lost, do not give up – you must have missed something – go back to the four pieces: stress (including low mood and chronic rumination), toxic chemicals (including mold infection and food sensitivity), gut (dysbiosis and leaky gut), and nutrition (mainly micronutrients). Once again: the only cure is to fix the root causes.
About the Author and Editor: Jian Gao, PhD, is a healthcare analyst/researcher for the last 27 years who devoted his analytical skills to understanding health sciences and clinical evidence. Mr. Frederick Malphurs is a retired senior healthcare executive in charge of multiple hospitals for decades who dedicated his entire 37 year career to improving patient care. Neither of us takes pleasure in criticizing any individuals, groups, or organizations for the failed state of healthcare, but we share a common passion — to reduce unnecessary sufferings inflicted by the so-called chronic or incurable diseases on patients and their loved ones by analyzing and sharing information on root causes, effective treatments, and prevention.
Disclaimer: This article and any contents on this website are informational or educational only and should by no means be considered as a substitute for the advice of a qualified medical professional. It is the patients and caregivers’ solemn responsibility to work with qualified professionals to develop the best treatment plan. The author and editor assume no liability of any outcomes from any treatments or interventions.
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