Microbiology Test

Microbiology Test

Gut Flora Culture and Sensitivities

The Microbiology stool profile includes comprehensive bacteriology and yeast cultures to identify beneficial flora, imbalanced flora including Clostridium species, and dysbiotic flora, as well as detection of infectious pathogens. Antimicrobial susceptibility testing to prescriptive and natural agents is also performed for appropriate bacterial and fungal species.

The Microbiology stool profile may be ideal for follow-up to the Comprehensive Stool Analysis when looking for a specific abnormality, to monitor certain microbial balances, or to assess treatment efficacy. We strongly recommend the Comprehensive Stool Analysis as the initial assessment for a more thorough evaluation of gut function.

Turnaround Time: 1-2 weeks

Turnaround times are estimates. Detailed order tracking is available in the MosaicDX Portal.

Microbiology Test

What Patients Might Benefit from Microbiology Testing?

The Microbiology Test is indicated for all chronic GI problems, for acute bowel pattern changes, and for many systemic diseases.

  • Allergies
  • Autoimmune Disorders
  • Cardiovascular Disease
  • Celiac Disease
  • Diabetes
  • Diarrhea, Constipation, Abdominal Distension
  • Food Sensitivities
  • Gastrointestinal Symptoms
  • IBD
  • IBS
  • Immune System Imbalances
  • Inflammation
  • Joint Pain
  • Leaky Gut
  • Malnutrition
  • Mood Disorders
  • Neurological Disorders
  • Weight Concerns


Why Order a Microbiology Test?

The Microbiology profile examines the presence of microflora, both beneficial and imbalanced, including Clostridium species and dysbiotic flora, and detects infectious pathogens through comprehensive bacteriology and yeast cultures. The testing also includes antimicrobial susceptibility testing to prescriptive and natural agents for appropriate bacterial and fungal species.

Since the early 20th century, research has shown that a good balance of beneficial Lactobacilli, Bifidobacteria, and E. coli bacteria in the gut is important for overall health, with benefits including inhibition of microbial pathogens, prevention and treatment of antibiotic-associated diarrhea, reduction of lactose intolerance symptoms, lower cholesterol levels, immune system enhancement, and inhibition of Candida albicans. The exact mechanisms behind these benefits are not yet fully understood, but research suggests that beneficial bacteria can produce substances that are antagonistic to pathogenic microorganisms, compete with pathogens for adhesion receptors, produce lactase, and produce short chain fatty acids like butyrate, propionate, and acetate.

However, many individuals experience dysbiosis, where an imbalance of microflora leads to an overgrowth of non-beneficial or even pathogenic microorganisms. This can be caused by factors such as exposure to toxins, antibiotic use, chronic consumption of processed foods, and high stress levels. Dysbiosis can lead to chronic symptoms like irritable bowel syndrome, autoimmune diseases, fatigue, chronic headaches, and food allergies.

Yeast infections can cause a variety of symptoms, both intra- and extra-gastrointestinal, and may be overlooked as a pathogenic agent. Candida infection has been linked to episodes of recurrent diarrhea and chronic extra-gastrointestinal conditions like atopic dermatitis and chronic fatigue syndrome. Testing for abnormal levels of specific yeast species in the stool can aid in therapeutic planning for patients with chronic gastrointestinal and extra-gastrointestinal symptoms. Antimicrobial susceptibility testing to prescriptive and natural agents is also performed for appropriate fungal species at no additional cost.

Learn More About the Microbiology Test: Explore FAQs


The Microbiology Test is indicated for chronic GI problems, acute bowel pattern changes, and for many systemic diseases. This test measures key markers for bacteriology and yeast culture.

See detailed list of markers below organized by clinical important groups:

  • 73 possible species of imbalanced and dysbiotic bacteria
  • 4 species of beneficial bacteria
Bacterial Sensitivity To
  • Augmentin
  • Cefpodoxime
  • Cefuroxime
  • Cipro oxacin
  • Tetracycline
  • Trimeth-sulfa
  • Berberine
  • Black Walnut
  • Caprilic Acid
  • Cats Claw
  • Goldenseal
  • Mastica
  • Oregano
  • Uva Ursi
  • 48 possible yeast and fungal species
Yeast (Microscopy)
  • Visible presence of yeast cells
Yeast Sensitivity To
  • Berberine
  • Caprylic Acid
  • Uva Ursi
  • Tannic Acid
  • Oregano
  • Undecylenic Acid
  • Citrus Seed Extract
  • Nystatin
  • Fluconazole
  • Itraconazole
  • Ketoconazole

Sample Reports

The Microbiology test report is a useful resource for practitioner who want to uncover potential causes of gastrointestinal symptoms and chronic systemic conditions.

Test Prep and Instructions

MosaicDX offers patient-friendly sample collection kits that simplify testing. Our kits include visual, step-by-step instructions for test preparation and sample collection, personalized shipping cards, and pediatric collection bags if needed. With MosaicDX, patients can easily collect samples for testing with confidence and accuracy.

Frequently Asked Questions

The ordering process for MosaicDX tests starts with your healthcare practitioner assessing your symptoms and recommending the most appropriate test.

Once a test has been recommended, collection kits can be conveniently ordered and delivered straight to your doorstep. If you already have a collection kit, you can register your test and begin the process at your convenience.

It is important to carefully follow the collection instructions and include all required information about yourself and your specimens when registering your test. When your specimens are collected, you can use the prepaid shipping materials provided in your kit to ship them to MosaicDX. Your results will be accessible online via the MosaicDX portal. We recommend scheduling an appointment with your healthcare practitioner to discuss your results and develop a plan for your healthcare

If you are located outside of the U.S., our customer service team can assist you in finding a distributor in your country. In countries where a distributor is not required, you can place an order through our international patient ordering site. Please note that all international shipping costs must be paid prior to shipping the kit.  

Stool samples should be shipped only on Mondays, Tuesdays, or Wednesdays. It is important to collect samples on two separate days, with a minimum gap of 12 hours between collections using yellow-topped vials. All four stool specimens should be shipped together within five days of the first collection. 

Different states have regulations that define the scope of practice for practitioners. It is the practitioner’s responsibility to abide by these rules. Check with your state board of health to determine any restrictions related to laboratory testing. Please note, Mosaic Diagnostics does not offer testing in New York. 

Once you have opened your account, you have the options of ordering kits to stock in your office or drop-ship kits directly to your patients through your MosaicDX portal.   

Watch our short tutorial videos on how to conveniently  

Already have a kit? Watch this video on how to place an order for your patient using a kit from your inventory.   

Please refer to your test’s specific Test Preparation and Instructions for more information regarding the potential effects of medications, foods, and supplements on this test. 

You make also consult your healthcare provider prior to making any changes to your medications.

Visit the payment information page for an overview of payment options and procedures along with insurance coverage overview.

NOTE: Insurance coverage for testing is based on several factors such as the type of procedure, diagnosis, and insurance policy guidelines. Patients are encouraged to contact their insurance company to check for coverage and to provide the procedure codes (CPT codes) and diagnostic codes (ICD-10 codes). The CPT codes can be found on the billing information page, while ICD-10 codes are provided by the practitioner.

Mosaic Diagnostics offers written interpretations within test reports and complimentary consultations with our clinical educators for qualified practitioners. To schedule a consultation, simply sign in to your MosaicDX account and book a consultation online. 

We encourage all patients to discuss results with your practitioner.

Our Resources tab also contains educational materials that you may find useful, we also offer MosaicEDGE workshops for qualified practitioners to better understand the fundamentals of lab testing.

Have a question? We've got answers.

Our team of experts can help you find exactly what you need. Contact us now and let's get started.

Clinical References