Gut Bug Poop: The Inflammation Trigger Nobody’s Talking About
Your gut is at the ROOT of your health. Inside your gut, there’s a molecule hiding that most people have never heard of — and it might be silently fueling some of the most common health problems. It’s called LPS (lipopolysaccharide). What you’re going to learn about your gut and LPS today will give you a whole new appreciation for your gut.
First: What Is LPS?
LPS is a byproduct of the bacteria that naturally live in your gut. LPS, also known as endotoxin, is a byproduct of the bacteria that naturally live in your gut. It forms the outermost layer of certain bacteria (gram-negative bacteria) and helps protect them. LPS is released both during the normal day to day metabolic processes of bacteria and when they die. Okay so technically LPS isn’t your gut bug’s poop…but it is waste material and I stand by my analogy.
In a nutshell, LPS is a completely normal part of your gut ecosystem. The problem isn’t that it exists: The problem is what happens when too much of it gets out.
LPS belongs inside your gut, not in your bloodstream. When LPS repeatedly escapes into your bloodstream, even at low levels, it is like flicking the domino on inflammation throughout your entire body.
Chronically elevated LPS in the blood has been linked to:
Type 2 diabetes · Atherosclerosis · Hypertension · Obesity · NAFLD (fatty liver disease) · Autoimmune conditions · IBS and SIBO · Cognitive decline and brain fog · Depression and anxiety
And here’s a fun fact, your diet and lifestyle play a HUGE role in LPS-induced inflammation. In one study, healthy people placed on a Western-style diet for just one month saw a 71% increase in blood LPS levels — while those eating a whole-food diet saw levels drop by 31%.
The Gut Barrier: Your First Line of Defense
Your gut lining is not just a passive tube. It’s an active, brilliantly designed barrier with multiple layers that work together to protect you. Here are 3 noteworthy lines of defense your gut has for keeping LPS in check.
Defense Layer 1: An Enzyme Called IAP
Your gut lining produces an enzyme called intestinal alkaline phosphatase (IAP). IAP is like a bouncer at your gut’s door. It detoxifies LPS right there in your gut and prevents it from entering your bloodstream and triggering inflammation. IAP also helps keep your gut lining sealed tight (helps regulate tight junction protein levels). IAP works best when you have good microbial diversity, healthy bile flow, and a fiber-rich diet.
Defense Layer 2: The mucus layer
This is a thick physical barrier that acts as a buffer and prevents bacteria (and their byproducts like LPS) from making direct contact with your intestinal cells.
Defense Layer 3: Tight junctions
The “seals” between your intestinal cells. When these are intact, they keep LPS from slipping through into the bloodstream. When they break down, LPS and all sorts of other toxins, gets through.
The Liver: Your Second Line of Defense
Defense Layer 1: HDL3
You’ve probably heard HDL called “good cholesterol.” But there’s a specific subtype — HDL3 — that plays a fascinating and newly discovered role in LPS defense. Your intestinal cells produce HDL3 particles that travel directly to the liver through the portal vein. On its way to the liver, HDL3 binds to a protein called LPS-binding protein (LBP), which in turn binds to LPS. Such a good example of the teamwork between your gut and your liver!
What supports healthy HDL3? Zone 2 cardio (easy pace exercise), omega-3 fatty acids, polyphenol-rich foods, and dietary fiber all help keep this system working well.
Defense Layer 2: Your Liver
Any LPS that makes it past your gut and past your HDL3 gets filtered by your liver. When your liver is healthy and not overburdened, it clears LPS efficiently. When it’s stressed — by poor diet, gut dysbiosis, or metabolic dysfunction — clearance of LPS suffers and more LPS spills into circulation. Supporting your liver with a clean diet, filtered water, daily movement, curcumin (well-documented anti-inflammatory effects on the liver and has been shown to modulate the TLR4 signaling pathway that LPS uses to trigger inflammation), milk thistle (supports liver cell regeneration and protects hepatocytes from inflammatory damage), and dandelion root (supports bile production and flow, which matters both for liver detoxification and for keeping IAP active in the gut) can help keep this final filter running smoothly.
The Most Powerful Takeaways
The good news: the same lifestyle habits that support your overall health are the very ones that keep your LPS defense system strong.
- Eat plenty of fiber, especially with your fats. Fiber reduces LPS-producing bacteria, supports IAP, and helps buffer the LPS absorption that naturally accompanies fat digestion.
- Choose polyphenol-rich foods daily. Berries, olive oil, green tea, colorful vegetables, dark chocolate — these support both a healthier gut microbiome and better HDL function.
- Get your omega-3s. EPA and DHA (from fatty fish or quality fish oil) improve HDL particle quality and have direct anti-inflammatory effects throughout the gut-liver axis.
- Do Zone 2 cardio consistently. 3–5 sessions per week of moderate-intensity movement is one of the most reliable ways to improve your HDL profile and reduce systemic inflammation over time.
- Support your liver. Curcumin, milk thistle, and dandelion root all support the liver’s ability to clear LPS efficiently.
- Build your microbiome. A diverse gut microbiome means fewer LPS-producing bacteria, stronger IAP activity, and a more resilient gut barrier. Prioritize prebiotic fiber, fermented foods, and a spore-based probiotic (Spore-based probiotics such as Bacillus indicus, Bacillus subtilis, and Bacillus coagulans have been associated with a meaningful reduction in endotoxin levels in the blood).
- Protect your gut barrier. Sure there are supplements (like Zinc, L-glutamine, collagen, butyrate-producing foods) that you can take to support your gut barrier, but one of the most powerful tools for your gut is nervous system regulation (aka emotional self-regulation)!
The Big Picture
LPS is a normal part of life — you can’t eliminate it, and you don’t need to. Your body has a brilliant, layered system for keeping it in check. The best thing you can do is to support that system with: a diverse, fiber-forward diet, healthy fats, quality sleep, daily movement, emotional self-regulation, hydration, and targeted gut support when needed.
When your gut and liver are getting what they need to be strong and functional, the chronic inflammatory burden that drives so much modern disease becomes far less of a threat.
If you’re ready to discover where your best health has been hiding, I’d love to connect with you!
As a functional nutritionist, I don’t just help you to eat healthier: I help you create a healthier lifestyle.
Apply for a complimentary Unstoppable Health Discovery Session. http://bit.ly/schedulinghealth (subject to availability).
Wishing you unstoppable health,
~Rebecca
P.S. If you know someone who is ready to feel great & create health habits that stick, I would love to connect with them!
Please share my scheduling link with them so that they can schedule a complimentary Unstoppable Health Discovery Session with me.


