The practice of medicine is arduous and ever changing. This is never more true than in the realm of infectious diseases where the microorganisms themselves are continuously evolving. On an ongoing basis the Antibiotic Stewardship team is developing educational material and updates on new trends and developments in the use of antimicrobials and ID diagnostics both at UC Davis and nationwide. 

A hospital-wide newsletter was created in January 2019 in order to disseminate regular antibiotic stewardship-related education to UC Davis Medical Center healthcare personnel. Each issue is released bimonthly(ish) and contains a one page summary on a current antimicrobial stewardship topic, brief quiz with prizes, a section devoted to a pediatric or outpatient ID clinical challenges, a list of ASP gold star winners given to exemplary antibiotic stewards, and a fun microbe fact. Issues are archived below for future reference. 


Vol 1, Issue 1    (PDF)   (Sway)

  • One Pager: Asymptomatic Bacteiuria
  • Group A Strep Testing Algorithm


Vol 1, Issue 2   (PDF)  (Sway)

  • One Pager: Aspiration Pneumonitis
  • What's New in the Micro Lab: BioFire Blood Culture ID System


Vol 1, Issue 3   (PDF)   (Sway)

  • One Pager: Cholecystitis & Cholangitis
  • Group A Strep Treatment Algorithm‍


Vol 1, Issue 4   (PDF)   (Sway)

  • One Pager: Cellulitis
  • What's (Not) New in the Micro Lab: MRSA Nasal Swab for PNA


Vol 2, Issue 1   (PDF)   (Sway) 

  • One Pager: C diff
  • C diff Screening at UCDMC
  • Vanc & Pip-Tazo: A Dangeous Combination? 


Vol 2, Issue 2   (PDF)    (Sway) 

  • One Pager: Diverticulitis
  • Aspiration Pneumonia: No More Metro


Vol 2, Issue 3  (PDF)    (Sway) 

  • One Pager: HAP
  • CAP for Kids
  • Extended Infusion Beta-Lactams: Better Pharmacokinetics


Vol 2, Issue 4  (PDF)    (Sway) 

  • One Pager: COPD Exacerbations
  • The 5 D's of Antibiotics


Vol 2, Issue 5  (PDF)    (Sway) 

  • One Pager: VAP
  • Would You Like Some Salt With That? Sodium in IV Antibiotics


    Vol 3, Issue 1  (PDF)     

    • One Pager: UTIs
    • Stewardship in the Time of COVID-19


    Vol 3, Issue 2  (PDF)     

    • One Pager: CAP
    • Oral Fosfomycin for MDR UTIs


    Vol 3, Issue 3  (PDF)     

    • One Pager: Asymptomatic Bacteriuria
    • Neisseria gonorrhea: Changing Treatment Recommendations


    Vol 3, Issue 4  (PDF)

    • One Pager: Aspiration Pneumonitis
    • When Less Is More: Limited Value of the BioFire GI Panel


    Vol 3, Issue 5   (PDF)

    • CAP?
    • CRAB & C auris, Continuing to Spread & Harder to Treat


    Vol 3, Issue 6   (PDF

    • One Pager: Cellulitis
    • New-ish Drugs to Treat C diff

    Vol 4, Issue 1   (PDF

    • One Pager: C diff
    • C diff Screening at UC Davis
    • CRAB & COVID-19, More Info

    Vol 4, Issue 2   (PDF

    • One Pager: Diverticulitis
    • 2021 UCD Antibiograms!

    What’s Unique?

    We screen all eligible adult patients upon admission for Clostridioides difficile (formerly Clostridium difficile, AKA C diff) with a rectal swab PCR test. This test looks for C diff capable of producing toxin. It identifies colonization, not disease. Colonized patients are at greater risk for disease & transmission.


    Things to know…

    • A positive screening test should not be used for diagnosis & does not require a follow up diagnostic test in the absence of symptoms consistent with C diff infection (CDI) 
    • Colonized patients will be placed on “Contact Enteric” precautions for the duration of their hospital stay
    • In the absence of CDI, colonized patients do not need to continue isolation precautions upon discharge or transfer to another facility
    • Hand washing with soap and water is necessary for both colonized and infected patients to further reduce transmission

          What’s the Same?

          Everything else.

          • Diagnostic testing with the “stool toxin EIA” is diagnostic in patients with signs and symptoms compatible with CDI. False positives are still possible, however, if:
            • <3 watery BMs/day…     on stool softeners…     on tube feeds…     other causes of diarrhea present

          • Given increases in community-onset C diff infection (CO-CDI) without traditional risk factors consider early diagnostic testing in those admitted complaining of diarrhea even if at low to moderate risk 
          • There is no utility in tests for cure or repeat testing if < 7 days from last negative test
          • Most cases of CDI can be treated with: Vancomycin 125 mg PO q6h x 10 days.
          • Further guidance for recurrent or severe disease available in the 2018 IDSA guidelines


          Antibiotics save lives, but too many antibiotics can also shorten them. With increasing evidence that the rate of acute kidney injury, Clostridioides difficile, and subsequent multidrug resistant infections increase with every additional day of antimicrobial therapy it is essential that correct antibiotic duration be given in addition to the correct antibiotic. 

          Attached below are three PDFs highlighting the current guidance on appropriate antibiotic duration for common, uncomplicated infections in adults. 





          Procalcitonin (PCT) is a biomarker of bacterial infection shown to reliably guide antibiotic use in some cases. It is acutely produced by a number of tissue types in response to bacterial toxins and various inflammatory mediators associated with bacterial but not viral infection. In some bacterial infections, particularly mild, localized disease, significant procalcitonin production may not occur. PCT therefore does not completely discriminate the presence or absence of a possible bacterial pathogen in all cases. PCT does, however, correlate with disease severity and may help discriminate those patients who would benefit from antibiotics from those who would not in some circumstances. Although it has been studied in a wide variety of populations, it has to date only been shown to consistently and safely guide clinicians in the initiation of antibiotics in non-septic patients with a clinically ambiguous lower respiratory tract infection (LRTI) and in the discontinuation of antibiotics in septic patients without a clear source of infection identified. Further guidance per below:

          The BioFire and GenMark systems at UC Davis Medical Center are important tools for the timely diagnosis and identification common infections including bacteremia, respiratory infections, gastroenteritis, and meningoencephalitis. As with any tool they have certain strengths and limitations dependent on the contexts in which it is ordered and how it is used. All of the BioFire and GenMark panels have significant financial costs which should preclude their routine use for uncomplicated disease processes. The following are some clinical guidance on the optimal use of our various BioFire systems:


          Blood Culture Identification (BCID) Panel (by BioFire) -

          The BCID panel allows for the rapid identification of 24 common pathogens known to cause blood stream infection. The panel additionally tests for 3 common resistance genes associated with some of these pathogens. It is run on positive blood cultures at the same time gram staining is performed with a preliminary identification made in 1-2 hours, about 24 hours sooner than prior methods utilizing MALDI-TOF. It is consistently sensitive (~98% overall) and specific (~99% overall) making the test result useful and actionable for antibiotic management. The test is reflexively done on all initial positive blood cultures, and does not require a separate order. 

          The BCID report appears in Epic attached to blood culture reports as to the right. If a target is detected and is consistent with gram stain results identification is accurate in the great majority of circumstances. Because the BCID panel can detect DNA primers at a higher taxonomic level for some organisms (at the genus and family and not just species), multiple flags may sometimes fire leading to results that may be difficult to interpret. In the example to the right, both "Staphylococcus" and "Staphylococcus aureus" fired because the DNA primers for both Staphylococci in general and Staphylococcus aureus more specifically were detected. If only the "Staphylococcus" target had been detected in the absence of the "Staphylococcus aureus" target it is likely the organism would have eventually be identified by conventional means as a coagulase-negative Staph (CoNS). Similar phenomena may occur with the "Streptococcus" and "Enterobacteriaceae" genus targets. As another example a positive "Enterobacteriaceae" in the absence of any other flags firing likely indicates a gram negative organism present within the family Enterobacteriaceae but not one of the Enterobacteriaceae targeted (i.e. E. cloaecae, E. coli, K. oxytoca, K. pneumoniae, S. marcescens, or Proteus) where as a blood culture with both an "Enterobacteriaceae" and a "Proteus" flag firing is most likely due to presence a Proteus species alone. Also of note in the first example pictured right, the mecA gene was detected indicating this Staphylococcus aureus isolate is most likely methicillin-resistant, or MRSA.  

          If a polymicrobial infection or process is not suspected, antibiotics may be narrowed to target the identified organism in the great majority of cases. Conversely, in a patient without clear signs or symptoms of infection but with a single blood culture bottle growing gram positive cocci and only the "Staphylococcus" flag firing, antibiotics can likely be avoided as the blood culture is likely to grow out CoNS consistent with contamination


          Pathogens include:

          Respiratory Panel (by GenMark) -

          The Respiratory panel detects 9 common respiratory viruses and 2 atypical bacterial pathogens known to cause respiratory disease with a combined sensitivity of 98% and specificity of 99% for nasopharyngeal swabs. It does NOT detect certain strains of coronavirus including the strains that cause MERS and SARS nor does it detect all atypical pathogens such as Legionella or Bordetella. Due to the communicable nature of many of the organisms tested for by the Respiratory panel, ordering a test reflexively results in a patient being placed in droplet and contact precautions until additional results are obtained. The Respiratory panel is frequently ordered, but the results have not always had a clear impact on subsequent patient management. Given the considerable expense involved in ordering a Respiratory panel consider only ordering if the patient's stay is anticipated to be >24 hours (as the tests are batched, only run on the weekends during flu season, and the turnaround time can be up to 48 hours) and results are likely to change management such as avoiding antimicrobials or additional diagnostic work up. 


          Pathogens include:


          Gastrointestinal (GI) Panel (by BioFire) -

          The GI Panel tests for a variety of viral, bacterial, and parasitic causes of gastroenteritis and diarrhea. The overall sensitivity (~98%) and specificity (99%) obviate the need for serial testing for most listed pathogens. Sending a repeat sample within 30 days is therefore unlikely to be useful and should not be performed in most cases. Some infectious causes of acute diarrhea such as Aeromonas and Listeria and some infectious causes of chronic diarrhea such as Microsporidia are not detected by the panel and require additional, separate stool testing if suspected. Due to the communicable nature of many of the organisms tested for by the GI panel, ordering a test reflexively results in a patient being placed in contact enteric precautions until additional results are obtained. As most cases of gastroenteritis are self-limited without treatment options, it is recommended the GI panel be reserved for cases lasting longer than 5-7 days or only if red flag symptoms are present (i.e. fevers, blood in the stool, severe abdominal pain, dehydration, or illness requiring hospitalization). 


          Pathogens include:

          Meningoencephalitis (ME) Panel (by BioFire) -

          The ME Panel tests for 14 different common viral, bacterial, and fungal causes of meningitis and encephalitis with combined sensitivities and specificities of ~94% and ~99% respectively. A negative HSV PCR has excellent sensitivity and specificity allowing for the discontinuation of acyclovir, if empirically started, in most patients. A positive test in a patient with consistent CSF and clinical findings is highly accurate and allows for the early targeting of antimicrobials. The ME Panel does not test for most common arbovirus causes of encephalitis (such as West Nile, St Louis, and western and eastern equine encephalitis), however, nor does it test for other pathogens possibly responsible for meningitis like lymphocytic choriomeningitis virus (LCMV) and Lyme. Due to the communicable nature of Neisseria meningitidis and Haemophilus influenzae, ordering a test reflexively results in a patient being placed in droplet precautions until additional results are obtained or the patient has been on effective therapy for > 24 hours.


          Pathogens include:

          What is asymptomatic bacteriuria?

          Asymptomatic bacteriuria is technically defined as a urine culture growing ≥ 10^5 colony-forming units/mL of a single organism from a clean-catch voided urine sample. In women the recommendation is for this to be repeated as rates of transient bacteriuria are higher. Catheterized specimens more consistently reflect what is happening within the bladder so a repeat sample is not necessary for men or women. In all cases the patient has no signs or symptoms consistent with a urinary tract infection (UTI). 

          From a practical perspective the magnitude of the bacteriuria is typically of less practical value because in the absence of symptoms the clinical management is the same. Asymptomatic bacteriuria is not associated with significantly greater morbidity or mortality than a sterile bladder, and the treatment of asymptomatic bacteriuria has not been shown to be helpful in the great majority of cases.

          What counts as a symptom?

          Dysuria, urinary frequency or urgency, suprapubic or flank pain, and costovertebral angle tenderness are common signs and symptoms reported with UTIs. Delirium and congitive changes in the absence of these and in the absence of fever or hemodynamic instability suggestive of systemic infection are typically not considered symptoms. Guidelines have consistently recommended against up front treatment for patients such as these unless other causes have been ruled out and the cognitive changes persist after a period of observation. 

          Notably the CDC also explicitly recommends against urine culturing for:

          • Malodorous urine
          • Cloudy urine
          • As a reflex to pyuria alone

          Will antibiotic treatment of asymptomatic bacteriuria help my patient?

          No. In fact, antibiotic treatment of asymptomatic bacteriuria will only *hurt* your patient. Multiple studies in multiple different patient populations have revealed *no benefit* from the treatment of asymptomatic bacteriuria. Antibiotic treatment did not prevent future UTIs, sepsis, hospitalization, progression of kidney disease, or death. Antibiotic treatment was, however, associated with the selection of more resistant organisms when the next UTI did occur. 

          The only exceptions to this rule are pregnant women, those about to undergo a urologic procedure, and some patients shortly after kidney transplantation. These individuals *should* be treated for their asymptomatic bacteriuria as in these populations it has been shown to prevent future complications. 

          What about the pyuria?

          Pyuria predicts the presence of bacteriuria, but it does not change the clinical context of the bacteriuria. Although a urinalysis with elevated white blood cells is more likely than one that does not to have a significant amount of bacteria in culture, if the urine was obtained from a patient without signs or symptoms consistent with a UTI its clinical significance is trumped by the absence of symptoms. Asymptomatic bacteriuria has the same prognosis regardless of the presence of urinary white blood cells.

          What about nitrites? 

          Nitrites predict the presence of gram negative, predominately Entoerbacteriaceae, bacteriuria, but, as with pyuria, do not change its clinical context. The patient is more likely to have a positive urine culture, but is no more likely to benefit from antibiotics in the absence of symptoms than if their urine was sterile. 

          How do bladder cathethers factor into all this?

          Bladder catheters significantly increase the risk for UTIs, but the signs and symptoms indicative of a UTI are largely the same in most patient populations (primarily excluding spinal cord injury patients). Notably, many findings are common and do not consistently indicate a UTI including cloudy urine, foul smelling urine, and urinary sediment. It is unclear to what extent these findings can predict the presence of bacteriuria, but regardless in the absence of clinical signs and symptoms of a UTI there is *no* indication for treatment as there is *no* benefit to be obtained from antibiotic therapy. The Agency for Healthcare Research and Quality, part of the Department of Health and Human Services, has released an excellent webinar regarding UTIs in cathterized patients. 

          Where can I get more information?

          The Infectious Disease Society of America released updated guidelines for the diagnosis and management of asymptomatic bacteriuria this year. They can be referenced at:

          IV antibiotics often come with more than just the antibiotic. Sodium is a significant portion of the carrier fluid in many IV ready to use (RTU) formulations or in the IV fluid diluent necessary for the administration of many intravenous antibiotics. In some cases, the amount of sodium infused can exceed 2 g per a day making the treatment of many conditions, congestive heart failure to name just one, significantly more difficult to manage. Yet another reason to switch from IV to PO when it's safe to do so.