How the Brain and Gut Work Together for better Brain Health
- Dallas Shepard

- Aug 6
- 4 min read

The brain and gut collaborate through a complex system involving neural, hormonal, and immune pathways.
The gut houses the enteric nervous system (ENS), often called the "second brain," which contains around 100 million neurons and can function independently while maintaining constant dialogue with the central nervous system (CNS).
This interaction allows the gut to influence brain functions like mood, cognition, and stress responses, while the brain regulates digestion, motility, and immune activity in the gut.
Key mechanisms include for Gut and Brain Health:
- Neurotransmitter production: The gut produces about 90% of the body's serotonin (which regulates mood, sleep, and appetite), along with dopamine (linked to reward and motivation), GABA (for calming neural activity and reducing anxiety), and acetylcholine (involved in memory and muscle movement).
- Metabolite signaling: Gut microbes generate short-chain fatty acids (SCFAs) like butyrate and acetate, which cross the blood-brain barrier to support neuron health, reduce inflammation, and modulate immune responses.
- Bidirectional feedback: Stress signals from the brain can alter gut motility and permeability, while gut signals can enhance or dampen brain activity, creating a loop that promotes homeostasis when balanced.
Harmonized Brain Centers integrates this understanding into their 12-session Brain Wellness Program, where therapies like LENS Neurofeedback help recalibrate brainwave patterns to improve this communication, potentially enhancing emotional regulation and cognitive function influenced by gut signals.
BEMER (PEMF) supports by boosting microcirculation and oxygen delivery, which can optimize nutrient absorption in the gut and improve brain perfusion for better axis signaling.
Low Level Light Therapy reduces systemic inflammation that might disrupt these pathways, while Brain Health Coaching educates clients on practices like stress management to foster balanced interactions.
Negative Effects If the Gut Is Out of Sync
When the gut is imbalanced—often due to poor diet, chronic stress, antibiotics, or illness—this dysbiosis (where harmful bacteria dominate beneficial ones) can profoundly impair brain function.
Disruptions lead to reduced neurotransmitter production, increased gut permeability ("leaky gut"), and heightened inflammation, allowing toxins to enter the bloodstream and affect the brain.
Consequences include:

- Mood disorders: Lower serotonin levels or impaired signaling can contribute to depression and anxiety, with studies linking reduced beneficial bacteria (e.g., Lactobacillus and Bifidobacterium) to these conditions.
- Heightened stress responses: Overactivation of the hypothalamic-pituitary-adrenal (HPA) axis increases cortisol, exacerbating anxiety, PTSD, or chronic stress.
- Cognitive impairments: Inflammation and impaired hippocampal function can cause brain fog, memory issues, or progression toward conditions like Alzheimer's.
- Behavioral changes: Animal and human studies show that transplanting microbiomes from anxious or depressed subjects induces similar behaviors, suggesting gut imbalances can alter decision-making and social interactions.
From the Harmonized Brain perspective, addressing this through LENS Neurofeedback can calm overactive brainwaves linked to stress, indirectly supporting gut recovery by reducing HPA axis overload.
BEMER (PEMF) enhances vascular function to aid in reducing gut inflammation and improving detoxification, while Low Level Light Therapy targets cellular repair to mitigate leaky gut effects on the brain.
Brain Health Coaching provides personalized strategies, such as incorporating anti-inflammatory habits, to realign the axis and prevent these negative cascades.
Importance of Microbiome Balance
The gut microbiome—trillions of bacteria, fungi, and microbes—acts as a key regulator in the gut-brain axis, shaping thoughts, emotions, and overall mind-body harmony.
A balanced microbiome supports neurotransmitter synthesis (e.g., serotonin from beneficial bacteria), produces anti-inflammatory SCFAs, and maintains gut barrier integrity to prevent toxins from reaching the brain.
Imbalances disrupt these processes, contributing to neurological and psychiatric issues, but restoration via fiber-rich diets, fermented foods (e.g., yogurt), probiotics, or stress reduction can enhance mental health outcomes.
Harmonized Brain Centers underscores this by incorporating nutrigenomics and supplements in their coaching, which can optimize microbiome-friendly nutrition to bolster brain function.
Therapies like BEMER improve circulation to deliver nutrients that nourish beneficial microbes, while Low Level Light Therapy's anti-inflammatory effects help sustain microbial diversity.
The Vagus Nerve Connection

The vagus nerve serves as a primary "highway" in the gut-brain axis, transmitting signals bidirectionally to relay gut information to the brain and vice versa.
It facilitates the transport of serotonin to influence mood, sleep, and appetite, and carries GABA signals that promote relaxation and reduce anxiety.
Gut microbes can stimulate vagal afferents, modulating brain activity, while impaired signaling from dysbiosis may worsen depression or stress.
Harmonized Brain Centers' LENS Neurofeedback can enhance vagus nerve tone by balancing autonomic nervous system activity, reducing stress that disrupts vagal function.
BEMER (PEMF) supports vagal health through improved circulation and nervous system calming, Low Level Light Therapy aids in reducing inflammation along neural pathways, and Brain Health Coaching may include breathing or mindfulness techniques to stimulate the vagus nerve directly.
Understanding the profound gut-brain connection through the Harmonized Brain perspective highlights how restoring balance in the microbiome, vagus nerve signaling, and overall axis harmony can unlock mental clarity, emotional resilience, and optimal cognitive function.
At Harmonized Brain Centers, we transform unfocused, chaotic, and underperforming brains into harmonized ones that reach their full potential, using proven, drug-free, safe, and effective therapies like LENS Neurofeedback, BEMER (PEMF), Low Level Light Therapy, and Brain Health Coaching—no matter your age.
To get started with our services and address any gut-brain imbalances, follow these three easy steps:
1. Come in for a consultation and brain mapping;
2. Schedule your 12-session brain wellness plan;
3. Live life with a harmonized brain.
With a decade of experience and over 150,000 successful sessions, our clients have overcome numerous obstacles and challenges while achieving their best brain ever.
Don't let a struggling brain—or an out-of-sync gut—hold you back.
Harmonize your Brain, Harmonize your Life.








Comments