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Signs Your Gut Microbiome is Unhealthy: And What You Can Do About It

  • May 22, 2025
  • 5 min read

Updated: 12 hours ago

Your Gut Microbiome: Understanding Its Impact on Your Overall Health


Your gut microbiome does far more than assist with digestion. Signs of an unhealthy gut include bloating after meals, alternating constipation and diarrhea, unexplained skin rashes, bad breath, and even migraines. Fortunately, there is a lot you can do naturally to restore balance to your gut health.


When we consider gut health, we often think only about its role in digesting food. However, your gut microbiome—a vast community of bacteria and other microorganisms in your digestive tract—affects many health aspects. It's crucial for immune function, hormone regulation, brain health, and inflammation levels. A balanced gut microbiome supports energy, mood, skin health, and even sleep quality.


The Importance of Gut Health


Your gut microbiome is a big deal. As it thrives, you’re more likely to feel energized, digest comfortably, and fend off infections. A balanced gut also helps maintain a healthy weight. Conversely, an imbalance—often called dysbiosis—can contribute to chronic inflammation, autoimmune conditions, and skin issues like acne. Poor gut health affects the body’s overall well-being, reminding us that gut health is foundational.


Gut–Brain Connection


Ever noticed a “gut feeling” or had butterflies in your stomach? This isn't just a saying. Your gut and brain communicate via the vagus nerve and a complex network of neurotransmitters. A healthy gut microbiome regulates mood, reduces anxiety, and promotes cognitive function. Did you know that about 90% of serotonin, the “feel-good” neurotransmitter, is produced in the gut? This gut-brain connection highlights the importance of caring for your microbiome. Disruptions are linked to mood disorders and cognitive decline.


The gut-brain connection is vital to overall health

Signs of an Unhealthy Gut Microbiome


Next, let’s explore the signs that your gut microbiome may be unhealthy. You might experience:


  • Digestive issues

  • Unintended weight changes

  • Sleep disturbances

  • Chronic fatigue

  • Skin conditions

  • Autoimmune disorders

  • Mood fluctuations


Frequent Bloating and Gas


Are you feeling puffy or gassy after meals regularly? While occasional bloating is normal, consistent issues may indicate an imbalance in your gut bacteria. Excess gas often suggests that microbes ferment food ineffectively, leading to discomfort.


Constipation or Diarrhea


Your gut should provide predictable and comfortable responses. Chronic constipation may mean a lack of fiber-loving, motility-supporting microbes. Alternatively, ongoing diarrhea might indicate inflammation, infection, or irritative gut lining. Both scenarios signal the need for gut support.


Food Intolerances


If you suddenly react to foods you once tolerated, it may indicate a microbiome red flag. A disrupted microbiome can impair your ability to break down certain foods, leading to increased sensitivity. This typically manifests with dairy or gluten intolerance.


Signs of gut microbiome imbalance

An imbalanced microbiome also affects the body’s ability to process food, regulate appetite, and maintain energy levels.


Weight Changes


Some strains of gut bacteria extract more calories from food than others. When those dominate, you may absorb more calories than usual. Conversely, if your digestion is compromised, you might struggle to absorb nutrients properly, causing unintentional weight loss and fatigue.


Impact on Metabolism


Gut bacteria produce short-chain fatty acids to regulate metabolism and control appetite hormones. An imbalance can increase hunger and sugar cravings, making it challenging to feel satiated. This is a key mechanism behind weight management strategies, highlighting the importance of gut health.


NutriDyn's UltraBiotic Akkermansia Plus is a probiotic strain that helps support weight management
UltraBiotic Akkermansia Plus can support weight management with healthy glucose metabolism

Sleep Issues


Remarkably, your gut and sleep are interconnected. Gut microbes follow their own circadian rhythm. When your microbiome is in balance, it supports sleep patterns and hormones. If imbalances occur, it can disrupt melatonin production, leading to trouble falling asleep.


Consequences of Poor Sleep on Gut Health


Disrupted sleep can reduce microbial diversity, increase cortisol levels, and cause persistent sugar cravings, feeding harmful bacteria. It's a cycle: gut dysbiosis can lead to sleep issues, and poor sleep can worsen gut health.


Chronic Fatigue


Feeling fatigued isn’t just about being tired. It's a deep lack of energy, often linked to nutrient absorption problems. If your gut isn’t functioning well, you might miss out on crucial nutrients needed for energy production.


Leaky Gut and Inflammation


When the gut lining is compromised, unwanted particles can enter the bloodstream, triggering immune responses and inflammation. This chronic inflammation can sap your energy and keep your body in a stressed state.


Skin Conditions


Skin issues like acne, eczema, and rosacea often signal gut imbalances. The gut and skin are connected, with imbalances leading to inflammation that exhibits itself on the skin.


Autoimmune Conditions


Autoimmune disorders don't develop without a reason. Often, gut dysfunction is a hidden trigger. The gut is central to immune health; a leaky gut could lead to your immune system misidentifying the body's tissues as foreign threats.


Mental Health Connection


Gut bacteria influence brain chemistry by producing neurotransmitters such as serotonin, GABA, and dopamine. A healthy microbiome regulates those chemicals, preventing mood changes and anxiety.


What You Can Do About It (Diet and Lifestyle Habits)


Dietary Changes


Add Fermented Foods: Incorporate foods like sauerkraut, kimchi, and kefir to support healthy bacteria.


Cut Sugar and Junk: Excess sugar and processed foods feed harmful microbes. Opt for whole foods instead.


Increase Fiber Intake: Include more fruits, veggies, and grains that good gut bacteria thrive on.


Gut Healing Meal Plans: Consider meal plans that limit inflammatory foods and boost nutrients for symptom relief.


Probiotics and Prebiotics


Probiotics: These are beneficial bacteria, found in fermented foods and supplements.


Prebiotics: These are fibers that feed beneficial bacteria, found in garlic, onions, bananas, and oats.


Sources: Get probiotics from yogurt, tempeh, and supplements. Prebiotics include artichokes and asparagus.


Lifestyle Modifications


Regular Movement: Exercise enhances digestive health and boosts microbial diversity.


Manage Stress: Chronic stress disrupts the gut-brain axis. Techniques like mindfulness and nature walks can help reduce stress.


Stay Hydrated: Water is essential for digestion and overall gut health. Aim for half your body weight in ounces per day.


When to Call in the Professionals: Microbiome Testing + More


Not Seeing Results? It Might Be Time to Test


If your diet changes and probiotics aren’t helping, consider advanced testing. The Vibrant Wellness Gut Zoomer is a comprehensive stool test that assesses:


  • Gut microbiome composition

  • Inflammatory markers

  • Signs of leaky gut

  • Pathogens, parasites, and yeast overgrowth


This diagnostic tool can pinpoint issues causing chronic digestive distress or skin conditions.


Personalized Gut Healing Plans


Working with the functional medicine team ensures you receive a personalized gut-healing plan tailored to your needs. This might include dietary adjustments or targeted supplementation. You can also order the Gut Zoomer and follow up with a consultation for result interpretation.


Know When To Seek Medical Care


Seek medical advice for serious symptoms, such as severe abdominal pain or blood in stool. Consult a specialist for advanced diagnostics if necessary.


Microbiome Health: Final Thoughts


Your gut is more than a digestion center; it affects energy, mood, immune support, and skin health. When out of balance, your body sends signals through various symptoms. By listening to these signals, you can find the path to healing.


The takeaway? You don't have to remain stuck with an unhealthy gut. Simple changes—whether swapping soda for water, incorporating kimchi, or scheduling a stool test—can facilitate substantial improvements.


Take a moment to check in on your gut. What’s one habit you can adjust? Whether you add more probiotics or hydrate better, every step counts.


Understanding and addressing gut health can feel overwhelming. You’re not alone. Let’s normalize these discussions and create a healthier dialogue concerning digestion, energy, and overall wellness.


Your gut has a lot to communicate. Start listening.

Comments


Dr. Mitchell Rasmussen - Doctor of Chiro
Kate Daugherty - Nutritionist - Function
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