Heal Your Gut: 5 Signs of an Unhealthy Microbiome (And How to Fix It)

Heal Your Gut: 5 Signs of an Unhealthy Microbiome (And How to Fix It)

February 03, 20252 min read

Your gut does more than digest food—it affects your immune system, mood, metabolism, and overall health. But when your gut microbiome is out of balance, it can lead to digestive issues, fatigue, and even brain fog.

So how do you know if your gut needs healing? Here are five common signs of an unhealthy gut and science-backed ways to fix it.


1. Chronic Bloating & Indigestion

1. Chronic Bloating & Indigestion

If you often feel bloated, gassy, or experience irregular digestion, your gut bacteria may be imbalanced.

💡 Fix It:

Eat fermented foods (kimchi, yogurt, sauerkraut)

Reduce processed sugars & artificial sweeteners

Try a high-quality probiotic




2. Frequent Fatigue & Low Energy

Did you know that 70% of your body’s serotonin (the “feel-good” hormone) is made in the gut? A disrupted gut can lead to low energy, poor sleep, and mood swings.

💡 Fix It:

Prioritize gut-friendly fiber (vegetables, flaxseeds, legumes)

Reduce inflammatory foods (gluten, dairy, processed sugars)

Improve sleep with consistent bedtime routines

3. Sugar Cravings & Poor Food Tolerance

An unhealthy gut feeds bad bacteria, which triggers intense sugar cravings. It can also lead to food sensitivities and digestive distress after eating certain foods.

💡 Fix It:

Add prebiotic-rich foods (garlic, onions, bananas)

Balance blood sugar with protein & healthy fats

•Avoid artificial sweeteners, which disrupt gut bacteria

Weak Immunity

4. Frequent Illness & Weak Immunity

Over 70% of your immune system is housed in your gut. If you’re getting sick often, your gut microbiome may be compromised.

💡 Fix It:

Eat immune-boosting foods (bone broth, turmeric, ginger)

Reduce chronic stress, which weakens gut function

Take a high-quality probiotic for immune support


5. Skin Issues (Acne, Eczema, or Rashes)

Your gut and skin are closely connected—inflammation from an unhealthy gut often appears as acne, eczema, or rosacea.

💡 Fix It:

Drink plenty of water to flush out toxins

Eat omega-3-rich foods (salmon, chia seeds, walnuts)

Reduce processed foods & gut-irritating chemicals


Final Thoughts: Healing Your Gut Naturally

If you’re experiencing any of these signs, your gut may need a reset. Simple changes in diet, stress management, and targeted probiotics can transform your gut health and overall well-being.



Kristine Bahr is a licensed dietitian and holistic nutritionist with a deep passion for functional medicine and gut health. She trained under Dr. Mark Hyman at Canyon Ranch.

Kristine Bahr, M.S., M.S., LDN

Kristine Bahr is a licensed dietitian and holistic nutritionist with a deep passion for functional medicine and gut health. She trained under Dr. Mark Hyman at Canyon Ranch.

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