The GI Microbial Assay Plus
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The Gastrointestinal Microbial Assay Plus (GI-MAP) was designed to assess your microbiome from a single stool sample, with particular attention to microbes that may be disturbing normal microbial balance and may contribute to perturbations in the gastrointestinal (GI) flora or illness. This panel is a comprehensive collection of microbial targets as well as immune and digestive markers. It screens for pathogenic bacteria, commensal bacteria, opportunistic pathogens, fungi, viruses, and parasites. The GI-MAP analyzes Helicobacter pylori and its virulence factors. It can detect opportunistic pathogens such as Pseudomonas aeruginosa, Klebsiella pneumoniae, Yersinia

The GI-MAP can be used in the detection and identification of gastrointestinal microbial nucleic acids and has been clinically validated for the detection of gastrointestinal pathogens that cause infectious colitis or gastroenteritis. Chronic gastrointestinal symptoms, intestinal permeability, hormonal imbalance, and food sensitivities may trace their origins to imbalanced gut microbes as a cause.

The GI-MAP measures pathogenic organisms that can cause hospital-acquired infections (HAI) such as C. difficile or norovirus, foodborne illness such as E.coli or Salmonella, and common causes of diarrhea such as Campylobacter, Shigella, and rotavirus A.2 This panel measures viral causes of gastroenteritis, unavailable by other common stool tests. It measures parasites such as Cryptosporidium, Giardia, and Entamoebaenterocolitica, and Proteus mirabilus, associated with autoimmune molecular mimicry (autoimmunity).

The new generation of stool tests is the most sensitive and accurate at detecting gut pathogens. Typically when physicians suspect a parasitic infection an ova & parasite (O&Px3) test is ordered. In an O&Px3 test, a patient provides samples of his or her stool that are evaluated under a microscope by a parasitologist who is looking for small parasite eggs or the mature parasites themselves. To detect a parasite, the parasitologist must rely not just on his or her skills, but also on luck. The parasitologist must be lucky enough to have a stool sample by chance that had a large enough parasite or egg in it to be seen through a microscope. They do not look at every square centimeter of the stool but take samples from the stool to look at. They, therefore, must also be lucky that the random sample they took had something in it. This test is highly unreliable.


Now here’s the beauty of the GI-MAP-the most advanced testing analyzes stool samples for parasite DNA fragments which is highly utilized by most Functional Medicine Practitioners today. Instead, the stool sample is run through a sophisticated machine. The stool sample does not need to have an intact parasite or egg in it. This eliminates the role of luck in the process. Instead, the stool sample is run through a sophisticated machine, and only five cells from an organism are required to detect it.  Additionally, from this one stool sample, the tests can detect H. pylori infection in the stomach, bacterial and yeast infections in the intestines, and if your intestines are low in healthy bacteria. H. pylori is a bacterium that colonizes the stomach and is considered a Type I carcinogen. Most physicians will not test for any of these other infections, even though the symptoms significantly overlap with a parasite.


Parasitic diagnoses are very rare because most doctors are not trained in parasitology. It’s the rare medical school that will expose its students to a six- or eight-week course in parasitology. Most standard medical evaluations do not include a parasite test, and even when they do, it’s an incredibly insensitive test. Why might it be important to test for parasites? Because the symptoms mimic many other diseases.

Disruption​ of the Gastrointestinal Microbiome can cause:

Gastrointestinal symptoms


  • Abdominal pain

  • Bloating

  • Constipation/Diarrhea/Vomiting

  • Crohn’s disease

  • Food poisoning

  • Gastric cancer

  • Gastritis

  • Gastroenteritis

  • Gastroesophageal reflux

  • Irritable bowel syndrome

  • Small intestinal bacterial overgrowth

  • Ulcer

  • Ulcerative colitis

  • Sinusitis

  • Bronchitis

  • Pneumonia

  • Nephritis

  • Hepatitis

  • Encephalitis

Autoimmune Conditions


  • Ankylosing Spondylitis

  • Reactive Arthritis

  • Rheumatoid Arthritis

  • Autoimmune Thyroiditis

  • Celiac disease

  • Multiple Sclerosis

  • Psoriasis

Allergic Disease

  • Asthma

  • Eczema


  • Autism


  • Liver dysfunction

  • Pancreatic insufficiency

  • Cystic Fibrosis

  • Fibromyalgia

  • Chronic Fatigue Syndrome

  • Chronic pain

  • Urticaria

  • Dermatitis

  • Acne