Stool Studies for Diarrhea: Diagnostic and Treatment Approach
When to Order Stool Studies
Stool testing should be performed selectively based on clinical presentation, not routinely for all cases of diarrhea. 1
Indications for Stool Testing
Order stool studies for bacterial pathogens (Salmonella, Shigella, Campylobacter, Yersinia, C. difficile, and STEC) when:
- Diarrhea persists ≥8 days 2
- Visible blood in stool is present 1
- Fever is documented in a medical setting with bloody diarrhea 1
- Severe abdominal pain accompanies diarrhea 1
- Patient is immunocompromised with moderate-to-severe symptoms 1
- Recent international travel within 3 days of symptom onset 1
- Suspected outbreak setting (multiple people with shared exposure) 1
Do NOT order stool studies for:
- Mild, uncomplicated acute watery diarrhea in immunocompetent patients without travel history 1
- Most cases of uncomplicated traveler's diarrhea 1
Optimal Specimen Collection
A single diarrheal stool specimen is the optimal sample for laboratory diagnosis of infectious diarrhea. 2 Multiple specimens are unnecessary for most bacterial testing, though 3 specimens collected on different days may increase sensitivity when relying on microscopy alone for parasites 3.
Initial Laboratory Workup
For patients meeting criteria for testing, order:
- Single stool specimen for bacterial culture (Salmonella, Shigella, Campylobacter, Yersinia) 2
- C. difficile testing if recent antibiotic use within 8-12 weeks 1
- STEC testing specifically if bloody diarrhea present 2
- Complete blood count (CBC) to assess for inflammation 2
- Basic metabolic panel (BMP) to evaluate dehydration and electrolyte abnormalities 2
Additional Testing Based on Clinical Context
For Persistent Diarrhea (≥14 days)
Test for parasitic infections:
- Giardia testing (excellent diagnostic tests available) 2
- Ova and parasite examination for travelers 1, 2
- Consider Cryptosporidium, Cyclospora, Cystoisospora in appropriate contexts 1
For Specific Clinical Scenarios
Add Yersinia testing for persistent abdominal pain, especially in school-aged children with right lower quadrant pain mimicking appendicitis, or fever with exposure to undercooked pork 1
Add Vibrio testing for large-volume rice-water stools, exposure to brackish water, raw shellfish consumption, or travel to cholera-endemic regions 1
For immunocompromised patients (especially AIDS): Expand testing to include Cryptosporidium, Cyclospora, Cystoisospora, microsporidia, Mycobacterium avium complex, and cytomegalovirus 1
Empiric Treatment Decisions
Bloody Diarrhea
Do NOT give empiric antibiotics for bloody diarrhea in immunocompetent patients while awaiting results 1, EXCEPT:
- Infants <3 months with suspected bacterial etiology 1
- Ill patients with documented fever, abdominal pain, bloody diarrhea, and bacillary dysentery (frequent scant bloody stools, fever, cramps, tenesmus) presumed to be Shigella 1
- Recent international travelers with temperature ≥38.5°C or signs of sepsis 1
- Immunocompromised patients with severe illness 1
When empiric treatment is indicated:
- Adults: Fluoroquinolone (ciprofloxacin) OR azithromycin based on local resistance patterns and travel history 1
- Children: Third-generation cephalosporin for infants <3 months or neurologic involvement; azithromycin for others based on local patterns 1
Critical caveat: Avoid antibiotics for STEC O157 and other STEC producing Shiga toxin 2, as treatment may worsen outcomes 1
Watery Diarrhea
Empiric antimicrobial therapy is NOT recommended for acute watery diarrhea without recent international travel 1, except possibly for immunocompromised patients or ill-appearing young infants 1.
For traveler's diarrhea:
- Mild: No antibiotics; consider loperamide or bismuth subsalicylate 1
- Moderate: May use fluoroquinolones, azithromycin, or rifaximin (caution with rifaximin in regions with high invasive pathogen risk) 1
- Severe or dysenteric: Azithromycin preferred 1
Supportive Care
Reduced osmolarity oral rehydration solution (ORS) is first-line therapy for mild-to-moderate dehydration 1. Intravenous fluids (lactated Ringer's or normal saline) are indicated for severe dehydration, shock, altered mental status, or ORS failure 1.
Loperamide may be used:
- As adjunctive therapy with antibiotics for moderate-to-severe diarrhea 1
- As monotherapy for moderate diarrhea 1
- Contraindicated in children <2 years due to respiratory depression and cardiac risks 4
- Avoid with suspected STEC, C. difficile, or when inhibition of peristalsis could cause complications 4
Follow-Up and Persistent Symptoms
If symptoms persist beyond expected duration or fail to respond to initial therapy:
- At 7 days: Consider diagnostic stool testing if not already done 1
- At 14 days: Evaluate for parasitic infections; consider non-infectious causes (IBD, IBS, lactose intolerance) 1, 2
- Beyond 30 days: Strongly consider non-infectious etiologies including IBD, microscopic colitis, or post-infectious IBS 1
Reassess fluid/electrolyte balance, nutritional status, and antimicrobial therapy in patients with persistent symptoms 1.
Common Pitfalls to Avoid
- Do not order stool cultures reflexively for all diarrhea—most acute watery diarrhea is self-limited and viral 1
- Do not treat STEC with antibiotics—this increases risk of hemolytic uremic syndrome 1
- Do not forget C. difficile testing in patients with recent antibiotic exposure (within 8-12 weeks) 1
- Do not overlook travel history—this fundamentally changes the differential diagnosis and testing approach 1
- Do not use loperamide in young children (<2 years) or when bloody diarrhea suggests invasive infection 4