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Guided Stool Microbiome Profile with Pathogen Detection and Resistance Analysis (via Cathartic Preparation)

Published: August 9, 2026Updated: August 16, 2026

This test examines the bacteria, viruses, fungi, and their antibiotic resistance patterns in your stool, collected after a cleansing preparation. It helps identify potential infections or imbalances in gut flora.

Quick summary

["Assessing gut health and infection risks with detailed microbial insights."]

Medically reviewed by WellAlly Editorial TeamLast reviewed August 16, 2026Editorial policy

Key facts at a glance

LOINC
46294-5
Short code
RF Guided Stom PC drain cath replace
Synonyms
RF Guided Stom PC drain cath replace
Category
chemistry
Sample
serum
Container
Red-top tube (SST)
Units
N/A
Fasting
false
Population
adult
Sex
all
Age range
18–65 years
Method
rf
CPT
86430
Specimen volume
5 mL
Stability
Room temperature: 4h, Refrigerated: 24h, Frozen: 7d
Hemolysis max
500
Lipemia max
1000
Icterus max
500
TAT
4–24 hours
Order
routine

Why This Test Might Be Ordered

Your healthcare provider may recommend this test if you have symptoms like persistent diarrhea, abdominal pain, unexplained weight loss, or if you’ve been exposed to infections. It’s also used to evaluate gut microbiome health before certain treatments or procedures.

What to Expect Before the Test

You’ll likely collect a stool sample after the cleansing process. The sample is tested for a wide range of microbes, including bacteria, viruses, and fungi, as well as antibiotic resistance markers.

What the Test Measures

This includes identifying common pathogens like *Clostridioides difficile*, *Salmonella*, *Shigella*, and others, as well as measuring microbial diversity and balance. Some tests may also check for viral markers like norovirus or rotavirus.

How Results Are Used

For example, if bacteria like *E. coli* or *C. difficile* are detected, your provider may recommend targeted antibiotics or probiotics to restore balance.

Clinical interpretation

How abnormal results are interpreted and what conditions they suggest.

◆Associated findings1

Short name

Stool Microbiome Test

Frequently asked questions

How long does it take to get results?
Results typically take 3–7 business days, depending on the laboratory and complexity of the test. Follow-up with your provider to discuss findings.
Can I take antibiotics before the test?
Yes, but inform your provider immediately. Antibiotics can alter microbiome results, so they may adjust testing or timing based on your medication use.
Does the cathartic preparation cause side effects?
Common side effects may include mild stomach discomfort or loose stools. Drink plenty of fluids to stay hydrated. Rarely, severe reactions can occur—seek medical attention if symptoms worsen.
  1. 1
    MedlinePlus — Laboratory TestsSource
  2. 2
    Lab Tests OnlineSource
  3. 3
    Mayo Clinic — Tests & ProceduresSource

Click any link to access the full source. PubMed Central (PMC) links provide free full-text access.

This information is for educational purposes only and is not a substitute for professional medical advice, diagnosis, or treatment.

Medical Disclaimer

This content is for general informational and educational purposes only and is not a substitute for professional medical advice, diagnosis, or treatment. Always seek the guidance of a qualified healthcare provider with any questions you have about a medical condition, and never disregard professional medical advice or delay seeking it because of something you read here.

If you think you may have a medical emergency, call your local emergency number or go to the nearest emergency department immediately.

Medically reviewed by WellAlly Editorial Team Last reviewed August 16, 2026. · Read our editorial policy