Unveiling the Microbial World Within: How to assess the Gut Microbiome’s Impact on your Health

Deep within your body resides a hidden world teeming with trillions of microorganisms, including bacteria, viruses, and fungi. This intricate microcosm primarily inhabits your intestines, collectively known as the gut microbiome. It’s an intricate, adaptable, and diverse ecosystem, wielding significant influence over your overall well-being. In this article, we embark on a journey into the realm of the gut microbiome, uncovering its profound impact on various facets of health.

Weight and Gut Dysbiosis:

The gut microbiome plays a pivotal role in weight regulation. Research reveals that an imbalance between beneficial and harmful gut microbes, a condition termed gut dysbiosis, can contribute to weight gain. To emphasize this connection, scientists turned to identical twins, demonstrating that differences in the microbiome were not solely due to genetics. Intriguingly, when the microbiome from a twin with obesity was transplanted into mice, these rodents gained more weight than those receiving the microbiome from the lean twin.

Gut Health:

Your gut microbiome significantly influences gut health, exerting an impact on conditions such as irritable bowel syndrome (IBS) and inflammatory bowel disease (IBD). Individuals with IBS often grapple with unpleasant symptoms such as bloating, cramps, and abdominal pain, driven by gas and chemical production by specific microbes. On the bright side, beneficial bacteria like Bifidobacteria and Lactobacilli, found in probiotics and yogurt, can enhance gut health by sealing gaps between intestinal cells and preventing disease-causing bacteria from adhering to the intestinal wall.

Heart Health:

Surprisingly, the gut microbiome extends its influence to cardiovascular health. Some studies suggest it can elevate “good” HDL cholesterol levels and reduce triglycerides. However, an ominous twist involves unhealthy gut microbes generating trimethylamine N-oxide (TMAO), a substance linked to heart disease, arterial blockages, and the risk of heart attacks or strokes. These detrimental microbes convert nutrients from red meat and animal-based foods into TMAO, potentially elevating the risk of heart disease. Fortunately, certain probiotics, particularly Lactobacilli, offer potential in reducing cholesterol levels.

Blood Sugar and Diabetes:

The gut microbiome may also hold a key role in blood sugar control, subsequently influencing the risk of developing type 1 and type 2 diabetes. Emerging evidence suggests that changes in the microbiome may precede the onset of type 1 diabetes. Additionally, it’s now believed that variations in blood sugar responses to identical diets may be associated with differences in gut bacteria composition.

Brain Health:

Intriguingly, the gut microbiome’s impact isn’t confined to the gut alone; it may play a pivotal role in maintaining brain health. Specific species of gut bacteria contribute to the production of neurotransmitters in the brain. For instance, serotonin, a vital neurotransmitter influencing mood and mental well-being, is primarily synthesized in the gut. Furthermore, the extensive network of nerves connecting the gut and the brain suggests that alterations in the microbiome may influence messages transmitted to the brain. Research even indicates that individuals with psychological disorders exhibit distinct gut microbiome profiles. Although further investigation is warranted, there is promising potential for the gut microbiome to be a modifiable factor in brain health.


Cultivating a Healthy Gut Microbiome:

Nurturing a thriving gut microbiome is imperative for overall health. Consider the following strategies to support and optimize your gut microbiome:

  •  Diverse Diet: Embrace a wide range of foods, especially those rich in fiber, as they encourage the growth of beneficial Bifidobacteria. Legumes, beans, and fruits are excellent choices.
  •  Fermented Foods: Include yogurt, sauerkraut, and kefir in your diet, as they are abundant in healthy bacteria, primarily Lactobacilli. These friendly microbes can help reduce the prevalence of disease-causing microbes in your gut.
  •  Limit Artificial Sweeteners: Certain artificial sweeteners, like aspartame, can stimulate the growth of unhealthy bacteria in the gut, potentially affecting blood sugar levels.
  •  Prebiotic Foods: Consume foods rich in prebiotics, such as artichokes, bananas, asparagus, oats, and apples. Prebiotics stimulate the growth of beneficial bacteria in your gut.
  •  Breastfeeding: If possible, breastfeed for at least six months, as it’s crucial for the development of a healthy gut microbiome in infants.
  •  Whole Grains: Integrate whole grains into your diet; they’re packed with fiber and beneficial carbohydrates that can benefit weight management, cancer risk, and more.
  •  Plant-Based Diet: Consider adopting a plant-based diet, as it may help reduce levels of disease-causing bacteria, lower inflammation, and decrease cholesterol.
  •  Polyphenol-Rich Foods: Foods like red wine, green tea, dark chocolate, olive oil, and whole grains are rich in polyphenols. These compounds are broken down by the microbiome to stimulate the growth of healthy bacteria.
  •  Probiotic Supplements: Probiotics, live bacteria that promote a healthy gut microbiome, can be a valuable addition to your regimen.
  •  Antibiotics When Necessary: Only take antibiotics when medically necessary, as they can disrupt the gut microbiome. It’s crucial to use them judiciously.


In essence, your gut microbiome is not a passive bystander in your body; it’s an active participant in your overall health. Although there are many ways to assess the health of your gut via a thorough medical history with your trained gut health practitioner, another option Dr. Sthamann uses in specific cases is the USBiotek stool tests.


Exploring US BioTek’s Advanced Testing Options for the Gut Microbiome


Understanding the complexities of the gut microbiome is a remarkable journey in itself, but it’s made even more fascinating by the advanced testing options offered by US BioTek. These testing methodologies provide valuable insights into the composition and function of the gut microbiome, allowing us to better comprehend its impact on our health. Let’s take a closer look at the cutting-edge testing profiles available through US BioTek via a simple at home stool sample:


The GI – Advanced Profile stands at the pinnacle of comprehensive stool testing. Building upon the Basic and Standard GI Microbiome profiles, it elevates the examination with 98 markers encompassing 15 diverse testing categories. This profile combines various testing methodologies to deliver results of unparalleled sensitivity, accuracy, and reproducibility. Here’s a glimpse of the techniques employed:


PCR (Polymerase Chain Reaction): US BioTek employs real-time polymerase chain reaction (RT-PCR) tests to qualitatively detect nucleic acid from a broad spectrum of potential troublemakers in the gut. These include parasites, bacteria, and viruses. Notably, the RT-PCR platform used is FDA-authorized and requires specialized equipment and expertise to identify DNA within cells. The PCR technique, a widely used molecular biology method, enables the amplification and detection of DNA and RNA sequences. It empowers US BioTek to precisely identify even the smallest amounts of markers within the stool, providing highly accurate, reliable, and reproducible results.


ELISA (Enzyme-Linked Immunosorbent Assay): ELISA is an established immunological technique widely employed to detect the presence of specific antibodies or antigens in a patient’s blood. What sets US BioTek’s approach apart is the use of a fully-automated protocol that utilizes advanced robotics and barcoding to track each specimen throughout the testing procedure. In this method, antigen-specific antibodies, bound to the antigen, are detected through spectrophotometric analysis, ensuring reliable and accurate results.


Macroscopy: Stool macroscopy is a technique where stool samples are visually examined to detect abnormalities such as blood, mucus, parasites, and other foreign materials. Technicians inspect stool samples for color, consistency, and any unusual features. This method provides a valuable visual perspective on the stool sample’s composition.


Culture: Stool culture is a laboratory test utilized to identify bacteria in stool specimens. A small quantity of stool is placed on a growth medium and incubated at a warm temperature. If bacteria are present, they grow and form colonies, which can then be identified based on their appearance and through biochemical tests. This method offers insights into the types of bacteria present in the gut.


But the analysis doesn’t stop there. The GI – Advanced Profile explores a wide array of markers, from key phyla and commensal abundance to parasites and worms, opportunistic bacteria, fungi and yeast, bacterial pathogens, viral pathogens, and even normal bacteria/flora. These markers paint a comprehensive picture of your gut microbiome’s health, diversity, and potential issues.

Key Phyla % Commensal Abundance

  • Bacteriodetes
  • Firmicutes
  • Firm/Bact Ratio
  • Proteobacteria
  • Actinobacteria
  • Verrucomicrobia
  • Euryarchaeota

Parasites & Worms

  • Cryptosporidium
  • Histolytica
  • Giardia Intestinalis
  • hominis
  • Fragilis
  • Endolimax nana
  • Coli
  • Hominis
  • Ascaris lumbricoides, round
  • Necator americanus,hook
  • Trichuris trichuria, round
  • Taenia species, tape
  • Vermicularis
  • Strongyloides stercoralis
  • Enterocytozoon spp
  • Hymenolepis spp

Opportunistic Bacteria

  • Bacillus sp.
  • Enterococcus faecalis
  • Enterococcus faecium
  • Morganella sp.
  • Pseudomonas sp.
  • aeruginosa
  • Staphylococcus sp.
  • aureus
  • Streptococcus sp.
  • Methanobacteriaceae
  • Desulfovibrio piger
  • Enterobacter sp.

Pot. AutoImmune Triggers

  • Citrobacter sp.
  • Citrobacter freundii
  • Klebsiella sp.
  • Klebsiella pneumoniae
  • Prevotella copri
  • Proteus sp.
  • Proteus mirabilis
  • Fusobacterium sp.

Fungi & Yeast

  • Candida sp.
  • Candida albicans
  • Geotrichum sp.
  • Saccharomyces cerevisiae.
  • Rhodotorula sp.

Bacterial Pathogens

  • Aeromonas sp.
  • Campylobacter sp.
  • difficile, Toxin A
  • difficile, Toxin B
  • Enterohaemorrhagic E. coli
  • Enteroinvasive E. coli/Shigella
  • Enterotoxigenic E. coli LT/ST
  • Shiga-like toxin E. coli stx 1
  • Shiga-like toxin E. coli stx 2
  • Salmonella sp.
  • Vibrio spp
  • Yersinia enterocolitica
  • Helicobacter pylori PCR & EIA
  • pylori virulence factors (x8)

Viral Pathogens

  • Adenovirus 40/41
  • Norovirus GI/II
  • Rotavirus
  • Sapovirus (I,II,IV,V)
  • Astrovirus (hAstro)

Normal Bacteria/Flora

  • Bacteroides fragilis
  • Bifidobacterium sp.
  • Bifidobacterium longum
  • Enterococcus species
  • Lactobacillus species
  • Lactobacillus rhamnosus
  • Clostridium sp.
  • Enterobacter sp.
  • Akkermansia muciniphila
  • Faecalibacterium prausnitzii
  • Roseburia sp.


  • Stool Colour
  • Stool Form
  • Mucous
  • Occult Blood

Short Chain Fatty Acids

  • Butyrate
  • Acetate
  • Propionate
  • Valerate

GIT Functional Markers

  • Calprotectin
  • Pancreatic Elastase
  • Secretory IgA
  • Zonulin
  • b-Glucuronidase
  • Steatocrit
  • Transglutaminase IgA

Microbial Culture Along-side PCR (Dual Method)

  • Bacteria
  • Yeasts

Antimicrobial Sensitivities 

  • Antibiotics
  • Natural
  • Antifungals
  • Natural Antifungals


In summary, US BioTek’s GI – Advanced Profile is a helpful testing option that goes above and beyond to provide a comprehensive understanding of your gut microbiome, employing cutting-edge testing methods and a wide array of markers. By offering such detailed insights into the gut, it paves the way for more personalized and effective interventions to optimize your overall health and well-being.