From Clinical guidelines — Diagnosis and treatment manual › Chapter 9: Genito-urinary diseases · Médecins Sans Frontières, Current online edition, 2026
Clinical guidance on diagnosis and antibiotic treatment of acute pyelonephritis for clinicians in resource-limited settings.
- Issuer
- Médecins Sans Frontières
- Edition
- Current online edition, 2026
- Audience
- Clinicians working in resource-limited settings, particularly MSF field teams
- Evidence
- Evidence-based recommendations with cited international guidelines; expert consensus
- Reviewed
- 21 Oct 2026 · GMJ
What this guideline says
GMJ summary
This MSF clinical guideline provides evidence-based protocols for diagnosing and treating acute pyelonephritis, an infection of the renal parenchyma that is more common in women and potentially severe in pregnant women, neonates and infants. Management is stratified by patient age and risk of complications, with clear criteria for hospital admission including all children, pregnant women, men, patients with urinary tract abnormalities, severe immunodeficiency, complicated pyelonephritis, or signs of severe infection.
The guideline provides detailed, age-specific antibiotic regimens. For neonates under one month, dual therapy with ampicillin plus gentamicin or cefotaxime is recommended for 7–10 days. Children one month and over receive ceftriaxone until clinical improvement (at least 3 days) followed by oral amoxicillin/clavulanic acid to complete 10 days. Adults with uncomplicated pyelonephritis receive a single dose of ceftriaxone or gentamicin plus 7 days of oral ciprofloxacin, or 10–14 days of oral amoxicillin/clavulanic acid or cefixime. Hospitalised adults require IV ampicillin plus gentamicin or ceftriaxone plus gentamicin for at least 3 days, then oral therapy to complete 10–14 days.
The guideline emphasises maintaining proper hydration (1.5 litres daily in adults), avoiding NSAIDs for fever, and reassessing patients with no clinical improvement 24 hours after starting oral therapy. Laboratory diagnosis references the acute cystitis section, and the guideline notes that pyelonephritis pathogens are the same as those causing cystitis.
Key points
For clinicians — doses and thresholds as stated in the guideline
- Fever >38°C with unilateral flank pain distinguishes pyelonephritis from cystitis in older children and adults; in neonates and infants, unexplained fever may be the only sign.
- Hospital admission criteria: all children, pregnant women, men, patients with urinary tract abnormalities or severe immunodeficiency, complicated pyelonephritis, sepsis/septic shock, or no clinical improvement after 24 hours of oral therapy.
- Neonates under one month: ampicillin 50 mg/kg IV every 8–12 hours (age/weight-dependent) plus gentamicin 3–5 mg/kg IV once daily for 5–10 days, or cefotaxime 50 mg/kg IV every 8–12 hours for 7–10 days.
- Children ≥1 month: ceftriaxone 50 mg/kg IM/IV once daily until improvement (at least 3 days), then amoxicillin/clavulanic acid 25 mg/kg PO twice daily (<40 kg) or adult dosing (≥40 kg) to complete 10 days.
- Adults with uncomplicated pyelonephritis: ceftriaxone 1 g IM single dose or gentamicin 5 mg/kg IM single dose, plus ciprofloxacin 500 mg PO twice daily for 7 days; alternatives include amoxicillin/clavulanic acid or cefixime 200 mg twice daily or 400 mg once daily for 10–14 days.
- Hospitalised adults: ampicillin 2 g IV every 6 hours plus gentamicin 5 mg/kg IM once daily for 3 days (preferred to cover enterococci), or ceftriaxone 1 g IV once daily plus gentamicin for 3 days if sepsis, then oral therapy to complete 10–14 days.
- Maintain hydration with 1.5 litres daily in adults; avoid NSAIDs for fever and pain management.
- Pyelonephritis with abscess or emphysematous pyelonephritis may require longer antibiotic therapy; adjust according to antibiotic susceptibility testing when available.
Antibiotherapy regimens for children ≥1 month and adults with acute pyelonephritis
Table extracted from the guideline
| Patient group | Initial therapy | Duration/switch | Total duration |
|---|---|---|---|
| Children ≥1 month | Ceftriaxone 50 mg/kg IM/IV once daily | Until improvement (≥3 days), then amoxicillin/clavulanic acid PO 25 mg/kg twice daily (<40 kg) or adult dosing (≥40 kg) | 10 days |
| Adults: uncomplicated | Ceftriaxone 1 g IM single dose OR gentamicin 5 mg/kg IM single dose + ciprofloxacin 500 mg PO twice daily | — | 7 days (ciprofloxacin) |
| Adults: uncomplicated (alternative) | Amoxicillin/clavulanic acid PO 2000 mg daily (ratio 8:1) or 1750 mg daily (ratio 7:1) OR cefixime 200 mg twice daily or 400 mg once daily | — | 10–14 days |
| Adults: hospital admission | Ampicillin 2 g IV every 6 hours + gentamicin 5 mg/kg IM once daily for ≥3 days OR ceftriaxone 1 g IV once daily + gentamicin 5 mg/kg IM once daily for ≥3 days (if sepsis) | Switch to amoxicillin/clavulanic acid PO or per susceptibility | 10–14 days |
Source: Médecins Sans Frontières, Acute pyelonephritis — MSF Clinical guidelines. Reproduced in summary form.
From the guideline
Verbatim
“In practice, a urinary tract infection should be suspected in children with unexplained fever or septic syndrome with no obvious focus of infection.”
Editor’s perspective
Why this matters for Georgia and the region
Prof. Giorgi Pkhakadze, MD, MPH, PhD
Editor-in-Chief, Georgian Medical Journal · Chair, Public Health Institute of Georgia · WHO consultant, health and migration
As Chair of the Public Health Institute of Georgia, I recognise that urinary tract infections, including pyelonephritis, remain a common cause of paediatric hospitalisation and antibiotic use across Georgia and the South Caucasus. This MSF guideline provides practical, evidence-based protocols that can strengthen clinical decision-making in both urban referral centres and rural primary care settings where diagnostic resources may be limited. I would particularly stress to Georgian clinicians the clear hospital admission criteria—especially the need to admit all children, pregnant women and men—and the importance of obtaining urine cultures before starting antibiotics whenever feasible, as our national antimicrobial resistance surveillance shows rising fluoroquinolone resistance in urinary <em>E. coli</em>. The realistic implementation challenge will be ensuring consistent availability of parenteral ceftriaxone and gentamicin in rural facilities, and establishing referral protocols so that high-risk patients reach appropriate care within the critical first 24 hours.
ORCID 0000-0001-7609-4515 · Perspective written for the GMJ Guidelines Library, 21 Oct 2026
Applicability
Georgia and the South Caucasus
This MSF guideline is highly relevant for Georgia and the South Caucasus, where acute pyelonephritis represents a significant burden particularly in women and children. Georgian national antimicrobial resistance surveillance data should inform local adaptation of empirical regimens, particularly fluoroquinolone and third-generation cephalosporin resistance patterns in Escherichia coli and other uropathogens. The guideline’s resource-stratified approach—distinguishing uncomplicated outpatient cases from those requiring hospitalisation—aligns well with Georgia’s mixed primary and secondary care infrastructure. National programmes should consider local antibiotic availability (particularly cefixime and specific amoxicillin/clavulanic acid formulations), establish clear referral pathways for paediatric cases and pregnant women, and ensure access to gentamicin therapeutic drug monitoring where feasible for neonatal and prolonged adult therapy to minimise nephrotoxicity risk.
Questions this guideline answers
Quick answers
Which patients with acute pyelonephritis must be admitted to hospital?
All children, pregnant women, and men; patients with urinary tract abnormalities (lithiasis, malformation) or severe immunodeficiency; complicated pyelonephritis (obstruction, abscess, emphysematous pyelonephritis); signs of severe infection (sepsis, septic shock, dehydration, vomiting preventing oral therapy); and women with no clinical improvement 24 hours after starting oral antibiotics.
What is the first-line antibiotic regimen for uncomplicated pyelonephritis in adults?
A single dose of ceftriaxone 1 g IM or gentamicin 5 mg/kg IM, plus ciprofloxacin 500 mg PO twice daily for 7 days. Alternatives include amoxicillin/clavulanic acid for 10–14 days (2000 mg daily if ratio 8:1, or 1750 mg daily if ratio 7:1) or cefixime 200 mg twice daily or 400 mg once daily for 10–14 days.
How should pyelonephritis be treated in neonates under one month of age?
Ampicillin 50 mg/kg IV every 8–12 hours (depending on age and weight) plus gentamicin 3–5 mg/kg IV once daily (age- and weight-dependent dosing) for 5–10 days, or cefotaxime 50 mg/kg IV every 8–12 hours for 7–10 days. All doses are given as slow IV injection over 3 minutes.
Why should NSAIDs be avoided in acute pyelonephritis?
The guideline specifically advises not to administer NSAIDs for treatment of fever and pain in pyelonephritis (referencing the Fever chapter), though the precise rationale is not detailed in this section. Alternative analgesics and antipyretics should be used, and maintaining proper hydration (1.5 litres daily in adults) is emphasised.
Related on GMJ
Interconnected resources
Dictionary of Public Health
Drugs A–Z
Conditions A–Z
GMJ News coverage
- New antibiotic combinations show promise against resistant urinary tract infectionsMay 2026
- Sepsis AI Algorithms Fail When Trained on Future Data, Study Reveals Critical FlawsJul 2026
- Five-year survival gap persists after septic shock discharge, study findsAug 2026
- Early Vasopressors Versus Fluid Resuscitation in Septic Shock: Major Trial Challenges Standard PracticeJul 2026
Quality & accreditation
- ASF Laboratory — Standard 1 — Governance & Document Control
- ASF Laboratory — Standard 6 — Pre-Examination: Specimen Pathway
- ASF Laboratory — Standard 7 — Examination: Process & Safety
- ASF Laboratory — Standard 8 — Post-Examination: Reporting & Critical Values
- ASF Hospital — Standard 4 — Care & Treatment
- ASF Hospital — Standard 6 — Aftercare & Follow-up
Same guideline
- Acute cystitis — MSF Clinical guidelinesChapter 9: Genito-urinary diseases
- Acute diarrhoea — MSF Clinical guidelinesChapter 3: Gastrointestinal disorders
Other guidelines on this topic
- Pulmonary tuberculosis — MSF Tuberculosis
- Acute cystitis — MSF Clinical guidelines
- Handbook for Integrated Vector Management in the Americas
- Recommendations for Cleaning and Disinfection in Homes with Suspected or Confirmed Cases of COVID-19
- PAHO Does Not Recommend Taking Products that Contain Chlorine Dioxide, Sodium Chlorite, Sodium Hypochlorite, or Derivatives
- Issuer
- Médecins Sans Frontières
- Guideline
- Clinical guidelines — Diagnosis and treatment manual
- Chapter
- Chapter 9: Genito-urinary diseases
- Type
- Clinical guideline (chapter)
- Edition
- Current online edition, 2026
- Status
- Current
- Published
- 2026-10-14
- Languages
- English, French
- Scope
- Acute pyelonephritis in all age groups
- Audience
- Clinicians working in resource-limited settings, particularly MSF field teams
- Evidence
- Evidence-based recommendations with cited international guidelines; expert consensus
- Record history
- Created 21 Oct 2026 · updated 21 Oct 2026 · next check Apr 2027
Médecins Sans Frontières. Acute pyelonephritis. In: Clinical guidelines — Diagnosis and treatment manual [Internet]. Paris: MSF; 2026 Oct 14 [cited 2026 Oct 14]. Available from: https://medicalguidelines.msf.org/en/viewport/CG/english/acute-pyelonephritis-23536771.htmlGMJ Guidelines Library records are original summaries written by the GMJ editorial team from the issuer’s published document and reviewed by a physician. They do not replace the full guideline. The document is the copyright of its issuer and is linked, not hosted. Spotted an error or a newer edition? Tell the Guidelines Desk.
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