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July 13, 2023

A Functional Medicine UTI Protocol: Specialized Testing, Therapeutic Diet, and Supplements

Medically Reviewed by
Updated On
September 17, 2024

Nearly one in three women will experience at least one urinary tract infection by the time they are 24 years old. Almost half of all women will experience one urinary tract infection during their lifetime. With staggering numbers underscoring its ubiquity, it's clear that urinary tract infections are more than just a routine inconvenience—they're a pressing healthcare challenge that demands effective diagnosis and treatment protocols. (14)

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What Are Urinary Tract Infections?

Urinary tract infections (UTIs) are infections that occur within the urinary system, which comprises the kidneys, ureters, bladder, and urethra. Most UTIs occur within the lower urinary tract, specifically the bladder (cystitis) and the urethra (urethritis).

Urinary Tract Infection Signs & Symptoms

UTI presents with three hallmark symptoms:

  • Pain with urination (dysuria)
  • Frequent urination of small volumes
  • Urinary urgency  

Other common signs and symptoms associated with UTI include (10, 26):  

  • Foul-smelling and cloudy urine
  • Blood in urine (hematuria)
  • Lower abdominal or pelvic pain
  • Confusion, fatigue, and weakness (more common in elderly patients)
  • Suprapubic tenderness on physical exam

Fever, chills, back pain (costovertebral angle tenderness on physical exam), rapid heartbeat, nausea, and vomiting indicate pyelonephritis (kidney infection).

Root Causes of Urinary Tract Infections

Understanding the root cause of a UTI helps personalize treatment plans to ensure effective eradication of the infection and prevent future ones from recurring. 

Pathogenic Organisms

UTIs are caused by the invasion of pathogenic microorganisms into the urinary tract. 

More than 90% of bladder infections are caused by Escherichia coli (E. coli), a bacteria that resides in the gastrointestinal tract. Other bacteria that cause UTIs include:

  • Enterobacter
  • Proteus
  • Enterococcus
  • Klebsiella 

While rarer, UTIs can be caused by fungi and viruses. Candida albicans is the most common fungus responsible for causing UTIs. Causes of viral UTIs include cytomegalovirus (CMV), type 1 human polyomavirus, and herpes simplex virus (HSV). (20

Anatomy

Women are up to 30 times more likely than men to get UTIs because of the anatomy of the female genitourinary system. The female urethra is much shorter than a man's, making it easier for bacteria to travel into and colonize the bladder. A woman's urethral opening is also close to the vagina and anus, sources of germs that cause UTIs like E. coli. (25

Anatomical abnormalities in the urinary tract can impair the ability to completely empty the bladder, increasing the risk of UTI. For instance, urethral strictures, bladder outpouchings, or urinary tract obstructions can impede the complete emptying of the bladder. Residual urine left in the bladder provides a favorable environment for bacterial growth, leading to an increased risk of infection. (27

Hormonal Changes

Drops in estrogen that occur prior to menstruation and during menopause cause thinning and dryness of urethral tissues, making them more susceptible to infection.

UTIs are one of the most common infections during pregnancy. In addition to the uterus compressing the bladder, elevated progesterone levels can cause smooth muscle relaxation, causing urinary stasis and backward movement of urine from the bladder to the kidneys. (16

How to Diagnose a Urinary Tract Infection

A comprehensive patient history is the most important tool for diagnosing UTI. The onset of urinary frequency and dysuria in the absence of vaginal discharge has a positive predictive value for UTI of 90%.

A focused physical examination and laboratory urinalysis can complement the patient's medical history and confirm the diagnosis of a UTI.

Step 1: Perform Urinalysis

Urinalysis and urine culture performed on a midstream, clean-catch urine sample improves the accuracy of a clinical UTI diagnosis. Urinalysis involves examining the physical and chemical properties of urine. Nitrites and leukocyte esterase on dipstick urinalysis strongly suggest UTI. (21

Urine culture complements urinalysis by identifying the specific microorganism causing the infection and determining their antibiotic susceptibility. A colony count greater than or equal to 103 CFU/mL of a uropathogen is diagnostic for UTI. Antibiotic susceptibility testing guides targeted antibiotic therapy, ensuring effective treatment. (10

The following are urinalysis and culture testing options:

Step 2: Testing to Uncover Root Causes of Recurrent UTIs

Additional testing can uncover the root cause(s) of UTI to prevent recurrence. Recurrent UTIs are defined as at least two urinary tract infections in six months or three in one year. In a primary care setting, 53% of women over age 55 and 36% of younger women report a UTI recurrence within one year of a resolved infection. (13)

Microbiome Analysis

Vaginal and gastrointestinal pathogens can translocate into the urethra, causing UTI. Dysbiosis in either the vaginal or intestinal environments, therefore, can be the source of recurrent UTIs. Assessing the microbial makeup of both environments can be done with comprehensive vaginal and stool cultures.

Tests to assess the vaginal microbiome: 

Tests to assess the intestinal microbiome: 

Comprehensive Hormone Testing

Imbalances in female sex hormones estrogen and progesterone can induce microbial and anatomical changes in the urogenital tract, making it easier for pathogenic organisms to cause UTIs (6).  

Chronic stress can suppress the immune system, making it harder for the body to fight infection naturally. Salivary cortisol is a testing method commonly used to assess the HPA axis as a marker of chronic stress.

These panels are options to measure female reproductive hormones and cortisol: 

Imaging 

Imaging may be recommended for patients with recurrent UTIs or who don't respond to treatment to examine the urinary tract for anatomical anomalies, disease, and injury. Ultrasound, computed tomography (CT), and cystoscopy are typical imaging procedures ordered for a more extensive evaluation of the urinary tract. (23

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Treatment Plan for Urinary Tract Infections

Below is a step-by-step treatment plan that can be personalized for patients struggling with uncomplicated or recurrent UTIs. 

1. Eradicate Infection

Here's Why This Is Important: 

Prompt eradication of UTI prevents undesirable health complications if the infection spreads to the kidneys or into the bloodstream.

How Do You Do This?

Acute, uncomplicated UTIs can be treated with antibiotics or natural supplements.

The first-line antibiotics for treating acute, uncomplicated cystitis include: 

  • Nitrofurantoin 100mg twice daily for five days
  • Trimethoprim-sulfamethoxazole 160 mg/800 mg twice daily for three days
  • Fosfomycin 3 grams in a single dose 

Antimicrobial and antiadhesive herbs and supplements kill and prevent pathogens from adhering to the urinary tract's lining. Research shows that the following supplements effectively treat uncomplicated UTIs. 

2. Reduce Inflammation

Here's Why This Is Important:

UTIs can cause inflammation in the urinary system, contributing to symptoms even after the infection is eradicated. Anti-inflammatory measures help palliate uncomfortable urinary symptoms during treatment and prevent symptoms from lingering after active treatment is complete. 

How Do You Do This?

Water-soluble mucilage herbs, including corn silk and marshmallow root, are often taken in tea form to promote adequate hydration, increase urine flow, and help flush bacteria from the urinary system. Additionally, they soothe irritated urogenital tissues. 

3. Reestablish a Healthy Urogenital Microbiome

Here's Why This Is Important:

Lactobacilli species of bacteria predominate the genitourinary tract of premenopausal women. Lactobacilli produce hydrogen peroxide, which inhibits pathogens from adhering to the bladder walls. 

How Do You Do This?

According to a systematic review, probiotics, especially Lactobacillus rhamnosus and reuteri, effectively prevent recurrent UTIs in women. Studies on UTI treatment and prevention have used probiotic doses ranging from ten thousand to ten billion CFU daily for five days to 12 months. 

4. Establish Good Hygiene Practices

Here's Why This Is Important:

Good hygiene prevents UTI by minimizing bacterial contamination of the urethra. 

How Do You Do This? 

The following hygiene practices prevent the spreading of bacteria into the urethral opening (22, 23):  

  • Wipe from front to back after using the toilet
  • Urinate before and after sexual activity
  • Stay well hydrated by drinking at least half your body weight in ounces every day
  • Avoid douching

The Risks of Untreated Urinary Tract Infections 

Untreated UTIs increase the risk of the following serious health complications:

  • Kidney infection and kidney damage
  • Adverse pregnancy outcomes, including premature delivery and low birth weight, when UTI occurs during pregnancy
  • Urethral narrowing
  • Sepsis

UTI Case Study

Read about a real case study here:

How Megan Beat Her Recurring Urinary Tract Infections by Treating Her Gut

[signup]

Key Takeaways:

  • Effective diagnosis and treatment of urinary tract infections (UTIs) are paramount in alleviating symptoms, preventing complications, and promoting overall well-being.
  • Treatment of acute infections should encompass antimicrobial and palliative therapies to eradicate infection and alleviate urinary symptoms.
  • Motivating patients to implement preventive measures can help reduce the burden of UTIs and minimize the risk of recurrent infections.

Nearly one in three women may experience at least one urinary tract infection by the time they are 24 years old. Almost half of all women might experience one urinary tract infection during their lifetime. With these numbers highlighting its commonality, it's clear that urinary tract infections are more than just a routine inconvenience—they're a healthcare challenge that requires effective diagnosis and management strategies. (14)

[signup]

What Are Urinary Tract Infections?

Urinary tract infections (UTIs) are infections that occur within the urinary system, which comprises the kidneys, ureters, bladder, and urethra. Most UTIs occur within the lower urinary tract, specifically the bladder (cystitis) and the urethra (urethritis).

Urinary Tract Infection Signs & Symptoms

UTI presents with three hallmark symptoms:

  • Pain with urination (dysuria)
  • Frequent urination of small volumes
  • Urinary urgency  

Other common signs and symptoms associated with UTI include (10, 26):  

  • Foul-smelling and cloudy urine
  • Blood in urine (hematuria)
  • Lower abdominal or pelvic pain
  • Confusion, fatigue, and weakness (more common in elderly patients)
  • Suprapubic tenderness on physical exam

Fever, chills, back pain (costovertebral angle tenderness on physical exam), rapid heartbeat, nausea, and vomiting may indicate pyelonephritis (kidney infection).

Root Causes of Urinary Tract Infections

Understanding the root cause of a UTI can help personalize management plans to support the body's natural defenses and reduce the likelihood of future occurrences. 

Pathogenic Organisms

UTIs are often caused by the presence of pathogenic microorganisms in the urinary tract. 

More than 90% of bladder infections are associated with Escherichia coli (E. coli), a bacteria that resides in the gastrointestinal tract. Other bacteria that may contribute to UTIs include:

  • Enterobacter
  • Proteus
  • Enterococcus
  • Klebsiella 

While less common, UTIs can also be associated with fungi and viruses. Candida albicans is the most common fungus linked to UTIs. Viral causes may include cytomegalovirus (CMV), type 1 human polyomavirus, and herpes simplex virus (HSV). (20

Anatomy

Women are up to 30 times more likely than men to experience UTIs due to the anatomy of the female genitourinary system. The female urethra is much shorter than a man's, which may make it easier for bacteria to travel into and colonize the bladder. A woman's urethral opening is also close to the vagina and anus, which are sources of germs that can contribute to UTIs like E. coli. (25

Anatomical variations in the urinary tract can affect the ability to completely empty the bladder, potentially increasing the risk of UTI. For instance, urethral strictures, bladder outpouchings, or urinary tract obstructions can impede the complete emptying of the bladder. Residual urine left in the bladder may provide a favorable environment for bacterial growth, leading to an increased risk of infection. (27

Hormonal Changes

Changes in estrogen levels that occur prior to menstruation and during menopause may cause thinning and dryness of urethral tissues, making them more susceptible to infection.

UTIs are one of the most common infections during pregnancy. In addition to the uterus compressing the bladder, elevated progesterone levels can cause smooth muscle relaxation, potentially leading to urinary stasis and backward movement of urine from the bladder to the kidneys. (16

How to Diagnose a Urinary Tract Infection

A comprehensive patient history is an important tool for diagnosing UTI. The onset of urinary frequency and dysuria in the absence of vaginal discharge has a positive predictive value for UTI of 90%.

A focused physical examination and laboratory urinalysis can complement the patient's medical history and support the diagnosis of a UTI.

Step 1: Perform Urinalysis

Urinalysis and urine culture performed on a midstream, clean-catch urine sample can improve the accuracy of a clinical UTI diagnosis. Urinalysis involves examining the physical and chemical properties of urine. Nitrites and leukocyte esterase on dipstick urinalysis may suggest UTI. (21

Urine culture complements urinalysis by identifying the specific microorganism associated with the infection and determining their antibiotic susceptibility. A colony count greater than or equal to 103 CFU/mL of a uropathogen is considered diagnostic for UTI. Antibiotic susceptibility testing can guide targeted antibiotic therapy, supporting effective management. (10

The following are urinalysis and culture testing options:

Step 2: Testing to Uncover Root Causes of Recurrent UTIs

Additional testing may help uncover the root cause(s) of UTI to support prevention. Recurrent UTIs are defined as at least two urinary tract infections in six months or three in one year. In a primary care setting, 53% of women over age 55 and 36% of younger women report a UTI recurrence within one year of a resolved infection. (13)

Microbiome Analysis

Vaginal and gastrointestinal pathogens can translocate into the urethra, potentially causing UTI. Dysbiosis in either the vaginal or intestinal environments, therefore, can be a source of recurrent UTIs. Assessing the microbial makeup of both environments can be done with comprehensive vaginal and stool cultures.

Tests to assess the vaginal microbiome: 

Tests to assess the intestinal microbiome: 

Comprehensive Hormone Testing

Imbalances in female sex hormones estrogen and progesterone can induce microbial and anatomical changes in the urogenital tract, potentially making it easier for pathogenic organisms to contribute to UTIs (6).  

Chronic stress may affect the immune system, making it harder for the body to manage infections naturally. Salivary cortisol is a testing method commonly used to assess the HPA axis as a marker of chronic stress.

These panels are options to measure female reproductive hormones and cortisol: 

Imaging 

Imaging may be recommended for patients with recurrent UTIs or who don't respond to management to examine the urinary tract for anatomical anomalies, disease, and injury. Ultrasound, computed tomography (CT), and cystoscopy are typical imaging procedures ordered for a more extensive evaluation of the urinary tract. (23

[signup]

Management Plan for Urinary Tract Infections

Below is a step-by-step management plan that can be personalized for individuals dealing with uncomplicated or recurrent UTIs. 

1. Address the Infection

Here's Why This Is Important: 

Promptly addressing a UTI may help prevent undesirable health complications if the infection spreads to the kidneys or into the bloodstream.

How Do You Do This?

Acute, uncomplicated UTIs can be managed with antibiotics or natural supplements.

The first-line antibiotics for managing acute, uncomplicated cystitis may include: 

  • Nitrofurantoin 100mg twice daily for five days
  • Trimethoprim-sulfamethoxazole 160 mg/800 mg twice daily for three days
  • Fosfomycin 3 grams in a single dose 

Certain herbs and supplements may help support the body's natural defenses and prevent pathogens from adhering to the urinary tract's lining. Research suggests that the following supplements may support the management of uncomplicated UTIs. 

2. Support Inflammation Management

Here's Why This Is Important:

UTIs can cause inflammation in the urinary system, contributing to symptoms even after the infection is addressed. Anti-inflammatory measures may help alleviate uncomfortable urinary symptoms during management and prevent symptoms from lingering after active management is complete. 

How Do You Do This?

Water-soluble mucilage herbs, including corn silk and marshmallow root, are often taken in tea form to promote adequate hydration, increase urine flow, and help flush bacteria from the urinary system. Additionally, they may soothe irritated urogenital tissues. 

3. Reestablish a Healthy Urogenital Microbiome

Here's Why This Is Important:

Lactobacilli species of bacteria are commonly found in the genitourinary tract of premenopausal women. Lactobacilli produce hydrogen peroxide, which may inhibit pathogens from adhering to the bladder walls. 

How Do You Do This?

According to a systematic review, probiotics, especially Lactobacillus rhamnosus and reuteri, may help prevent recurrent UTIs in women. Studies on UTI management and prevention have used probiotic doses ranging from ten thousand to ten billion CFU daily for five days to 12 months. 

4. Establish Good Hygiene Practices

Here's Why This Is Important:

Good hygiene may help prevent UTI by minimizing bacterial contamination of the urethra. 

How Do You Do This? 

The following hygiene practices may help prevent the spreading of bacteria into the urethral opening (22, 23):  

  • Wipe from front to back after using the toilet
  • Urinate before and after sexual activity
  • Stay well hydrated by drinking at least half your body weight in ounces every day
  • Avoid douching

The Risks of Untreated Urinary Tract Infections 

Untreated UTIs may increase the risk of the following serious health complications:

  • Kidney infection and kidney damage
  • Adverse pregnancy outcomes, including premature delivery and low birth weight, when UTI occurs during pregnancy
  • Urethral narrowing
  • Sepsis

UTI Case Study

Read about a real case study here:

How Megan Managed Her Recurring Urinary Tract Infections by Supporting Her Gut Health

[signup]

Key Takeaways:

  • Effective diagnosis and management of urinary tract infections (UTIs) are important in alleviating symptoms, supporting overall well-being, and reducing the risk of complications.
  • Management of acute infections should encompass antimicrobial and supportive therapies to address infection and alleviate urinary symptoms.
  • Encouraging individuals to implement preventive measures may help reduce the burden of UTIs and minimize the risk of recurrent infections.
The information provided is not intended to be a substitute for professional medical advice. Always consult with your doctor or other qualified healthcare provider before taking any dietary supplement or making any changes to your diet or exercise routine.

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Lab Tests in This Article

  1. Ahmed, J., Abdu, A., Mitiku, H., et al. (2023). In vitro Antibacterial Activities of Selected Medicinal Plants Used by Traditional Healers for Treating Urinary Tract Infection in Haramaya District, Eastern Ethiopia. Infection and Drug Resistance, Volume 16, 1327–1338. https://doi.org/10.2147/idr.s398204
  2. Akgul, T., & Karakan, T. (2018). The role of probiotics in women with recurrent urinary tract infections. Türk Üroloji Dergisi/Turkish Journal of Urology, 44(5), 377–383. https://doi.org/10.5152/tud.2018.48742
  3. Can You Eat Corn Silk? 4 Health Benefits of Corn Silk. (2023, April 16). Cleveland Clinic. https://health.clevelandclinic.org/benefits-of-corn-silk
  4. Cichowski, S. B. (2023, November). UTIs After Menopause: Why They're Common and What to Do About Them. American College of Obstetricians and Gynecologists. https://www.acog.org/womens-health/experts-and-stories/the-latest/utis-after-menopause-why-theyre-common-and-what-to-do-about-them
  5. Cloyd, J. (2023, May 10). Unlocking the Secrets of Lactobacillus: A Comprehensive Guide to Testing Patient Levels and Deciphering High and Low Levels. Rupa Health. https://www.rupahealth.com/post/lactobacillus-101-how-to-test-your-patients-levels-and-understand-high-and-low-levels
  6. Cloyd, J. (2023, June 14). A Complementary and Integrative Medicine Approach to Reoccurring UTIs: Specialty Testing, Supplements, and Nutrition Options. Rupa Health. https://www.rupahealth.com/post/a-complementary-and-integrative-med-approach-to-reoccurring-utis-testing-supplements-and-nutrition-options
  7. Cloyd, J. (2023, July 13). A Functional Medicine UTI Protocol: Specialized Testing, Therapeutic Diet, and Supplements. Rupa Health. https://www.rupahealth.com/post/a-functional-medicine-uti-protocol-specialized-testing-therapeutic-diet-and-supplements
  8. Cloyd, J. (2024, January 3). Saliva Testing: Cortisol and Hormone Test Result Interpretation Guide. Rupa Health. https://www.rupahealth.com/post/saliva-testing-cortisol-and-hormone-test-result-interpretation-guide
  9. Cloyd, J. (2024, January 24). The Value of Urinalysis in Functional Medicine: A Tool for Comprehensive Health Assessment. Rupa Health. https://www.rupahealth.com/post/the-value-of-urinalysis-in-functional-medicine-a-tool-for-comprehensive-health-assessment
  10. Colgan, R., & Williams, M. (2011). Diagnosis and Treatment of Acute Uncomplicated Cystitis. American Family Physician, 84(7), 771–776. https://www.aafp.org/pubs/afp/issues/2011/1001/p771.html
  11. Das, S. (2020). Natural therapeutics for urinary tract infections—a review. Future Journal of Pharmaceutical Sciences, 6(1). https://doi.org/10.1186/s43094-020-00086-2
  12. Dutta, C., Pasha, K., Paul, S., et al. (2022). Urinary Tract Infection Induced Delirium in Elderly patients: a Systematic Review. Cureus, 14(12), 1–11. https://doi.org/10.7759/cureus.32321
  13. Falagas, M. E., Betsi, G. I., Tokas, T., et al. (2006). Probiotics for Prevention of Recurrent Urinary Tract Infections in Women. Drugs, 66(9), 1253–1261. https://doi.org/10.2165/00003495-200666090-00007
  14. Foxman, B. (2002). Epidemiology of urinary tract infections: incidence, morbidity, and economic costs. The American Journal of Medicine, 113(1), 5–13. https://doi.org/10.1016/s0002-9343(02)01054-9
  15. Greenan, S. (2022, January 28). Common Signs Of Candida Overgrowth And How To Treat Them Naturally. Rupa Health. https://www.rupahealth.com/post/a-functional-medicine-approach-to-candida-overgrowth
  16. Habak, P. J., & Griggs, J. (2020). Urinary Tract Infection In Pregnancy. PubMed; StatPearls Publishing. https://www.ncbi.nlm.nih.gov/books/NBK537047/
  17. Kidney infection. (2022, August 6). Mayo Clinic. https://www.mayoclinic.org/diseases-conditions/kidney-infection/symptoms-causes/syc-20353387
  18. Larsson, B., Jonasson, A., & Fianu, S. (1993). Prophylactic effect of UVA-E in women with recurrent cystitis: A preliminary report. Current Therapeutic Research, 53(4), 441–443. https://doi.org/10.1016/s0011-393x(05)80204-8
  19. Lenger, S. M., Bradley, M. S., Thomas, D. A., et al. (2020). D-mannose vs other agents for recurrent urinary tract infection prevention in adult women: a systematic review and meta-analysis. American Journal of Obstetrics & Gynecology, 223(2), 265.e1–265.e13. https://doi.org/10.1016/j.ajog.2020.05.048
  20. Mancuso, G., Midiri, A., Gerace, E., et al. (2023). Urinary Tract Infections: The Current Scenario and Future Prospects. Pathogens, 12(4), 623. https://doi.org/10.3390/pathogens12040623
  21. Simati, B., Kriegsman, W., & Safranek, S. (2013). Dipstick Urinalysis for the Diagnosis of Acute UTI. American Family Physician, 87(10), online–online. https://www.aafp.org/pubs/afp/issues/2013/0515/od2.html
  22. Suarez, S. (2022, June 28). 5 Tips to prevent a Urinary Tract Infection. Mayo Clinic Health System. https://www.mayoclinichealthsystem.org/hometown-health/speaking-of-health/5-tips-to-prevent-a-urinary-tract-infection
  23. Urinary Tract Infection. (2022, January 14). Centers for Disease Control and Prevention. https://www.cdc.gov/antibiotic-use/uti.html#
  24. Urinary Tract Infection (UTI). (2022). Mayo Clinic. https://www.mayoclinic.org/diseases-conditions/urinary-tract-infection/symptoms-causes/syc-20353447
  25. Urinary tract infections. Office on Women's Health. https://www.womenshealth.gov/a-z-topics/urinary-tract-infections#references
  26. Urinary Tract Infections. (2023, April 6). Cleveland Clinic. https://my.clevelandclinic.org/health/diseases/9135-urinary-tract-infections
  27. Urinary Tract Infections in Adults. (2022, November). Urology Care Foundation. https://www.urologyhealth.org/urology-a-z/u/urinary-tract-infections-in-adults
  28. Xia, J., Yang, C., Xu, D., et al. (2021). Consumption of cranberry as adjuvant therapy for urinary tract infections in susceptible populations: A systematic review and meta-analysis with trial sequential analysis. PLOS ONE, 16(9), e0256992. https://doi.org/10.1371/journal.pone.0256992
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