Managing Fungal Infections in Cystic Fibrosis Patients: Challenges in Clinical Practice.

Cystic Fibrosis (CF) is an autosomal recessive disease characterized by a mutation in the cystic fibrosis transmembrane conductance regulator (CFTR) protein. Impairment of the CFTR protein in the respiratory tract results in the formation of thick mucus, development of inflammation, destruction of bronchial tissue, and development of bacterial or fungal infections over time. CF patients are commonly colonized and/or infected with fungal organisms, Candida albicans or Aspergillus fumigatus, with prevalence rates ranging from 5% to 78% in the literature. Risk factors for acquiring fungal organisms include older age, coinfection with Pseudomonas aeruginosa, prolonged use of oral and inhaled antibiotics, and lower forced expiratory volume (FEV1). There are limited data available to differentiate between contamination, colonization, and active infection. Furthermore, the pathogenicity of colonization is variable in the literature as some studies report a decline in lung function associated with fungal colonization whereas others showed no difference. Limited data are available for the eradication of fungal colonization and the treatment of active invasive aspergillosis in adult CF patients. In this review article, we discuss the challenges in clinical practice and current literature available for laboratory findings, clinical diagnosis, and treatment options for fungal infections in adult CF patients.

Introduction

Cystic Fibrosis (CF) is an autosomal recessive disease characterized by a mutation in the cystic fibrosis transmembrane conductance regulator (CFTR) protein. The CFTR protein is responsible for balancing salt and water homeostasis throughout the body including the respiratory tract. Impairment in the CFTR protein results in the formation of thick mucus, development of inflammation, destruction of bronchial tissue, and development of bacterial or fungal infections over time.1

CF care involves aggressive monitoring and treatment of infectious exacerbations to prevent a decline in lung function. Only 75% of CF patients return to within 90% of their baseline lung function, as measured by the forced expiratory volume (FEV1), with treatment.2 Clinicians involved in the management of CF patients should complete routine microbiological assessments of expectorated sputum at a minimum annually but preferably on a quarterly basis.3 Routine surveillance for infectious organisms includes bacterial cultures, antibiotic susceptibility testing, and acid fast bacillus (AFB) cultures. However, certain patients may require screening for fungal infections especially those who have lack benefit from routine antibiotics in recovering lung function. Other considerations for fungal infection treatment include abnormal imaging, new fever, change in sputum characteristics, and hemoptysis. As the prevalence of fungal organisms continues to rise, the clinical significance of detecting fungal species in the CF airway remains unclear.4 The fungal species detected, the clinical context in which it is isolated, as well as the duration of fungal species in sputum all play a role in determining colonization versus infection.

Conflicting data exist regarding the consequences of detecting Aspergillus in respiratory samples, with some studies suggesting a worse clinical outcome, and others having found no difference.5–7 However, patients diagnosed with allergic bronchopulmonary aspergillosis (ABPA) should be treated based on their symptoms and classification. In addition, patients in whom invasive fungal infections are suspected should also be treated. Criteria for differentiating invasive fungal infections are not clearly defined. However, several groups have published recommendations for criteria for “highly probable” invasive fungal infections in CF patients (versus colonization) that would require prompt treatment.4,8

In view of the current state of diagnostic challenges for fungal infections in patients with CF, the microbiological, immunological and clinical context of the patient must all be integrated to determine the best treatment pathway for the patient.

Pathology of Fungal Infections in Cystic Fibrosis

CFTR dysfunction has been linked to an increased risk of Aspergillus spp. colonization.9 The dysfunction of this protein may cause a profound Th2 response to inhaled A. fumigatus, which results in hyperinflammatory immune responses leading to the development of ABPA.10 The importance of the CFTR protein in fungal colonization is further supported in a study by Chaudhary et al examing the role of CFTR in the interactions between epithelial cells and A. fumigatus.11 This study showed that when CFTR knockout mice (CFTR-/-) were challenged with inhaled A. fumigatus, the mice developed aberrant pulmonary inflammation and also exhibited poor mucociliary clearance of fungus. Furthermore, Knutsen et al attributed the impaired mucociliary clearance mechanism to the thick and viscous mucus found in CF airways, which in turn created a perfect environment for Aspergillus colonization.12 Thus, the dysfunction of the CFTR protein and resulting impairment in mucociliary clearance predispose CF airways to fungal infections.

The high incidence of bacterial infections in CF patients is also a risk factor for developing fungal infections. The chronic usage of antibiotics to treat bacterial infections has been associated with increased fungal colonization in CF.13 This finding is supported by a prospective evaluation of 56 CF patients showing that chronic use of antibiotics, oral and inhaled steroids predisposed patients to oral colonization of Candida spp.14

The notion that treatment of bacterial infections may lead to enhanced growth of fungal species is an interesting one. This may mean that fungi are not harmful to the host as they are usually accompanied by a rise in FEV1. However, it is not clear whether fungi hasten the return of Pseudomonas aeruginosa over time because of a potential interaction between Candida spp. and P. aeruginosa resulting in biofilm formation.15 It is also thought that several strains of fungi may coexist in the same individual and that variable susceptibilities to these strains exist within the same individual.16 This highlights the complexity of fungal colonies in chronically infected CF patients in addition to the uncertainty of which exogenous and environmental risk factors play a role in the evolution of fungi.

Risk Factors for Fungal Infections

As the understanding of fungal epidemiology in CF airways continues to evolve, various risk factors have been identified for the development of fungal organisms in CF specimens.

A retrospective study investigating the epidemiologic trend of fungal infections in CF patients found that older age was a risk factor for fungal isolation, specifically adults over the age of 18 years old were 51% more likely to grow filamentous fungi.17 Sudfeld et al also found that fungal colonization onset was significantly associated with older age and the use of inhaled antibiotics.

The use of inhaled tobramycin as an intermittent regimen for chronic maintenance therapy in CF patients has been linked to increased isolation of fungal species, such as C. albicans and Aspergillus spp.13 Jubin et al also found a strong association between long-term use of azithromycin and Aspergillus spp. colonization in CF patients.18 This finding is supported by Bargon et al who showed a significant relationship between inhaled and oral antibiotics with Aspergillus colonization.19 They attributed this association to the antagonistic relationship between P. aeruginosa and Aspergillus species. It has been reported that P. aeruginosa species inhibit A. fumigatus filamentation by releasing extracellular molecules that inhibit intracellular communication therefore limiting fungal growth.20

In a retrospective review of 16,095 patients from 2006 to 2012 Cystic Fibrosis Foundation (CFF) registry data, 9.6% of patients (n=1541) persistently grew Aspergillus. Upon further examination, the following risk factors were identified for persistent Aspergillus isolation: chronic inhaled antibiotics (Odds Ratio [OR] 1.33; 95% confidence interval 1.21– 1.46, p<0.001), macrolides (OR 1.23, 95% CI 1.14–1.32, p<0.001), and inhaled corticosteroids (OR 1.14, 95% CI 1.09– 1.20, p=0.001).9

Aspergillus spp. can coexist with many bacteria. Stenotrophomonas maltophilia and Aspergillus spp. coexistence is actually quiet common.7 However, A. fumigatus and P. aeruginosa are the most common pathogens in CF airways and coexistence with these pathogens is associated with poorer FEV1 scores.21 Patients with co-colonization are also associated with increased risk of exacerbations and hospitalizations.7

Prevalence and Pathogenicity of Fungal Organisms

A wide spectrum of fungi have been isolated in patients with CF. The most common fungal organisms detected in CF are Candida albicans, Aspergillus fumigatus, Scedosporium spp. and Exophilia dermatitidis.22,23 [Table 1] Figure 1 shows these different fungal organisms grouped together based on chronicity and pathogenicity.4

Table 1

Common Fungal Organisms in Cystic Fibrosis Patients

Aspergillus fumigatus

Aspergillus flavus

Aspergillus niger

Candida albicans

Candida dubliniensis

Candida glabrata

Candida parapsilosis

Candida lusitaniae

Candida krusei

Exophiala spp.

Lomentospora prolificans (formerly Scedosporium prolificans)23

Penicillium spp.

Rasamsonia argillacea

Scedosporium apiospermum

Scedosporium aurantiacum

Scedosporium boydii (formerly Pseudallescheria boydii)23

Scedosporium minutisporum

Trichosporon mycotoxinivorans

Trichosporon spp.

Wangiella (Exophiala) dermatitidis

Note: Data from these studies.22,23

Figure 1

Chronicity and pathogenicity of fungal organisms in cystic fibrosis. Data from Tracy and Moss.4

Candida spp

Candida spp. are fungi commonly found in the oral cavity. Candida spp. are identified as dead yeast in sputum cultures following the release of a phenazine toxin.24 Yeast are known to have a high chronicity (ie persist for long durations with difficulty eradicating) due to chronic use of antibiotics and steroids; however, their pathogenicity, or ability to cause active infection, remains a matter of debate.

In a 2016 evaluation of nearly 26,000 sputum samples of CF patients over a 5-year period, Candida spp. was detected in nearly 75% of samples with the most prevalent species being C. albicans (38%).22 A retrospective analysis of 3235 patients from nine European CF centers found geographic variations in the prevalence of Candida spp. C. albicans was reportedly the most prevalent yeast in every center with prevalence rates ranging from 33.8% up to 77.9%. Other Candida species were also detected at lower and more diverse frequencies across each center.25 The effect of Candida on CF disease progression, however, is not well understood.

A prospective observational study in 89 CF patients (3916 sputum samples over 11 years) showed that 49.4% of patient were colonization with C. albicans. Furthermore, colonization with C. albicans was associated with significantly increased rates of hospital-treated pulmonary exacerbations (P=0.004) and FEV1 decline (P<0.001).26

A similar study was conducted in 91 CF patients in Isreal (4244 sputum samples over 7 years). Patients were stratified into three groups: chronic, intermittent or no C. albicans colonization. Patients in the chronic C. albicans colonization group (n=34) had lower FEV1% predicted (74.3 ±23.1% vs. 93.9 ±22.2%) and a higher annual rate of FEV1 decline (−1.9 ±4.2% vs. 0.7 ±4.5%) compared to the non-colonized group (n=27).27

C. dubliniensis has also been associated with a decline in lung function over time.28,29 A 16-year retrospective study on fungal prevalence in Sweden (n=133) showed that CF patients with positive C. dubliniensis cultures for three consecutive years experienced a 7.6% reduction in percent predicted forced expiratory volume in the first second (ppFEV1; p=0.001).28

Microbial colonization and corresponding lung function were characterized for 770 adolescent CF patients in Europe. The results were conflicting as those colonized with C. albicans demonstrated a protective effect on lung function compared to those colonized with C. glabrata who demonstrated an overall decline in FEV1 from baseline.30

Given high prevalence rates and conflicting clinical findings, distinguishing between colonization and pathogenicity, or active infection, can be quite challenging.

Aspergillus spp

Another fungal species that has been isolated in sputum cultures of CF patients is Aspergillus spp. The most common organisms detected are A. fumigatus and A. terreus; these organisms have been identified to be both chronic colonizers and sources of active infection in CF patients. A. flavus, A. niger, and A. nidulans have also been commonly detected in respiratory cultures.31

A. fumigatus spores are 2–4 µm in diameter and inhaled with ease throughout the environment.32 The spores settle on the mucous membranes of the airway and lungs, and as they grow cause the failure of mucociliary clearance. The cells secrete proteolytic enzymes (eg proteases, phosphatases) that inhibit phagocytosis and further facilitate adhesion and colonization within the airways in the presence of melanin and class I hydrophobins.24

Aspergillus spp. have been described in the literature in various classifications: ABPA, colonization, sensitization, bronchitis, and invasive aspergillosis.33 The prevalence of A. fumigatus colonization is widely variable in the literature ranging from 5% to 78%.7, 34–36 In a 2016 evaluation of nearly 26,000 sputum samples of CF patients over a 5-year period, Aspergillus spp. was detected in 35% of samples with the most prevalent species being A. fumigatus (29%).22 Schwartz et al performed a retrospective analysis of 66,616 samples from 3235 CF patients in nine European CF centers. They reported A. fumigatus dominance in most of the centers with prevalence rates ranging from 3.9% up to 42.4%.25

Several studies demonstrate that colonization with A. fumigatus results in declining pulmonary function.7,30,36–38 A case–control study of 20 CF patients chronically colonized with A. fumigatus matched against 60 control patients showed an FEV1 that was 8.66% lower over a 7-year time period compared to those never colonized with A. fumigatus (p=0.020). This study also found that control patients with lower baseline FEV1 values had a higher risk of chronic colonization with A. fumigatus.36

A characterization of microbial organisms in adolescent CF patients showed that patients colonized with A. fumigatus had lower lung function as demonstrated by a decline in FEV1 compared to non-colonized patients (P<0.0001) and an increased risk of colonization with P. aeruginosa.30

In an evaluation of 238 pediatric CF patients, those with persistent A. fumigatus infections had an FEV1 3.61% lower than uninfected patients (P≤0.0001) and an increased risk of pulmonary exacerbations requiring hospitalization (Relative Risk [RR] = 1.94, P=0.0002).7

However, these findings of a decline in pulmonary function are conflicting in the literature.38,39 In an evaluation of 259 CF patients, colonization with A. fumigatus was not associated with lower lung function nor more severe lung function decline over a 5-year period.38 Given these conflicting findings, it is difficult to determine the necessity of eradication therapy for chronic colonization with Aspergillus spp.

Pneumocystis jirovecii

P. jirovecii was detected in a bronchoalveolar lavage (BAL) fluid sample from a non-HIV-infected 15 week-old child diagnosed with CF presenting with pneumonia.40 Following this diagnosis, other countries evaluated the prevalence of Pneumocystis colonization in cystic fibrosis patients. Prevalence rates range from 1.3% to 21.6% throughout Europe.41 The difference in prevalence rate for different countries may be due to the difference in population density or climate factors.41 The seasonal changes in winter months appear to be associated with maximal respiratory infectious diseases; however, the data is conflicting as German researchers found opposing weather patterns with maximal respiratory observed in summer months. Incidental acquisition of P. jirovecii has also been postulated in individuals frequently hospitalized and sharing rooms with patients actively infected with P. jirovecii.41

Exophiala dematitidis

The prevalence of E. dermatitidis varies significantly around the world. A German study reported prevalence rates of 4% in comparison to 17% in Sweden.24 The Swedish study showed that patients presenting with E. dermatitidis were more often colonized with non-tuberculous mycobacteria (NTM) and had lower than predicted FEV1.24 E. dermatitidis infections are more frequently reported in patients with pancreas failure and advanced disease.

Several of the studies described above aimed to address the question of whether colonization carries morbidity, leads to worsening pulmonary function, or in effect, infection. The high prevalence of fungal organisms in the CF population brings to forefront the importance of distinguishing between colonization and active infection.42 Given conflicting results of the overall pathogenicity of fungal infections, it is imperative to rely on diagnostic tools to aid in the diagnosis of infection and ultimately determine if treatment is necessary.

Diagnostic Criteria

Diagnosis of active pulmonary fungal infection is challenging because there are no guidelines nor consensus statements addressing diagnostic criteria, specifically in the CF population.4 Aspergillus spp. have been described in the literature in various states: colonization, ABPA, sensitization, bronchitis, and invasive aspergillosis.

Baxter et al performed extensive laboratory research to develop immunologic classifications of aspergillosis in adult patients with cystic fibrosis34,35 [Table 2].

Table 2

Immunologic Classification of Aspergillosis in Adult Cystic Fibrosis

Class		RT-PCR Aspergillus (Sputum)	Total IgE	Specific A. fumigatus IgE	Specific A. fumigatus IgG	GM Index (Sputum)
I	Nondiseased CF patient	±	Normal	Normal	Normal	Negative
II	Serologic ABPA (ABPA-S)	Positive	Increased	Increased	Increased	Positive
III	Aspergillus IgE-sensitization	±	Increased (less than ABPA)	Increased (less than ABPA)	Normal	Negative
IV	Aspergillus infection/bronchitis	Positive	Normal	Normal	Increased	Positive

Note: Data from these studies.34,35 Abbreviations: ABPA, allergic bronchopulmonary aspergillosis; IgE, immunoglobulin E; IgG, immunoglobulin G; GM, galactomannan; RT-PCR, real-time polymerase chain reaction.

ABPA

ABPA is caused by an allergic response to antigens of Aspergillus species. Pathophysiologically, ABPA is a result of Th2 CD4+ mediated response causing IgG and IgE-specific to Aspergillus spp. This can cause persistent inflammation which leads to bronchiectasis and fibrosis. Clinical features are characterized by wheezing, pulmonary infiltrates on imaging and recurrent exacerbations. The prevalence of ABPA in CF is reported to range from 3% to 25%.34

Both the CFF Consensus Conference and the International Society for Human and Animal Mycology (ISHAM) have published guidelines for the screening and diagnosis of ABPA in CF patients, as there is a higher incidence of ABPA in this patient population.43,44 The CFF Consensus Conference proposed the following diagnostic criteria for ABPA in CF:

Acute or subacute clinical deterioration not attributable to another etiology.

Serum total IgE concentration >1000 IU/mL.

Immediate cutaneous reactivity to Aspergillus or in vitro presence of serum IgE antibody to A. fumigatus.

Precipitating antibodies to A. fumigatus or serum IgG antibody to A. fumigatus by an in vitro test.

New or recent abnormalities on chest radiography or chest CT (ie bronchiectasis) that do not resolve with therapy.43

Routine screening for ABPA in CF includes yearly evaluations of serum IgE level in children over the age of 6 years to help determine if further testing and treatment is required.

Active Fungal Infection

Diagnostic criteria have been proposed for “highly probable” invasive pulmonary fungal infection in an effort to distinguish from fungal colonization:

Increased sputum production.

Multiple isolation of the same fungal species from sputum or bronchoalveolar lavage (BAL) (at least two culture-positive samples in 6 months).

Pulmonary infiltrate(s) on chest CT scan or X-ray.

Treatment failure with antibiotic therapy (two and more antibiotic treatments, duration two or more weeks).

Unexplained lung function decline (exclusion of new CF-related disease).

Exclusion of new/other bacteria (eg non-tuberculous mycobacteria or P. aeruginosa).

Exclusion of ABPA.8

Alternatively, authors from a recently published review article proposed diagnostic criteria for differentiating fungal colonization from active infection in CF lung disease following a thorough review of available literature4 [Table 3].

Table 3

Proposed Diagnostic Criteria for Fungal Colonization and Active Infection

Criteria	Colonization	Infection
Major criteria
Microbiology	Minimum of 2 cultures within 12 months
Clinical symptoms	None	New s/sx and/or worsening lung function
Exclude fungal allergy	No evidence of ABPA or Aspergillus sensitization
Bacterial organism	May be present	May be present as comorbidity
Chest imaging	No change	New infiltrate or airway thickening
Response to antibiotics	Clinical improvement	None
Response to antifungal therapy	None	Clinical improvement
Minor criteria
Specific Fungal IgG	Negative or results within normal range	Elevated
GM (sputum or BAL)	Negative	Positive
Bronchoscopy  BAL  Endobronchial biopsy  Transbronchial biopsy	Fungi within alveolar macrophages or airway/alveolar exudates	Fungi within alveolar macrophages or airway/alveolar exudates Mucosal erythema and/or ulceration Invasion of mucosa by fungal hyphae with acute inflammation

Note: Data from Tracy and Moss.4 Abbreviations: ABPA, allergic bronchopulmonary aspergillosis; BAL, bronchoalveolar lavage; IgG, immunoglobulin G; GM, galactomannan; s/sx, signs and symptoms.

Diagnostic Methods

The diagnosis of fungal disease in patients with CF can be challenging. This was demonstrated when patients from the same CF cohort had specimens processed at two centers with different prevalence rates for fungal infections. This leads the authors to conclude that methodological differences in specimen analysis rather than geographic variation are likely the reason for the disparity.45 This was also demonstrated in another study, in which routine processing procedures for isolating filamentous fungi from respiratory sputum samples underestimated fungal prevalence in patients with COPD.46 Culture-based detection methods are the primary approach for isolating fungi. Unfortunately, processing guidelines are not standardized for the several variables that include differences in 1) sample collections, 2) sample processing, 3) and methods of detection.

Sample collection can significantly impact the detection of fungal species. First, the source of the specimen appears to affect yield, with BAL samples detecting more A fumigatus in 29% of specimens, compared to 14% of sputum specimens, and 0.8% of cough swabs in one pediatric study.47 Second, the actual volume of respiratory samples used for culture may be a possible confounder in comparing prevalence rates across centers, with the isolation of Aspergillus being more successful with a higher volume of specimen plated.48 Third, the frequency of sampling may be another confounder. In one study, in which a single sputum specimen collection was compared to a repeated longitudinal design, the recovery of fungal species was more than doubled in the frequent sampling.49

In addition, the methodology used to process the samples may contribute to further disparities in detecting fungal species in patients with CF. For example, due to the viscous quality of the sputum of patients with CF, chemical homogenization of specimens is recommended. This can increase the sensitivity of culture detection from approximately 72% to 96% in one study.50 The addition of sonication to the chemical homogenization increases sensitivity with using PCR testing.51

Finally, the choice of media can also influence the sensitivity of testing for fungal species. In one study, standard culture yielded a positive culture in only 18% of patients in one study, compared to the use of DNA extraction detected fungi in 100% of patients.52 Similar results were reported in a cohort study that compared selective fungal media to traditional bacterial culture for the identification of several fungal species. The authors found that of the 184 samples identified with one or more of these fungal species, bacterial culture detected fungal species in only 26% of these samples, with three other fungal selective media having much higher recovery rates, from 63% to 65.8%.53 In another study, mucolytically treated sputum from 243 patients with CF were plated on 6 different semi-selective media. The authors found that by taking into account individual performances of each medium, they were able to propose a standardized protocol to identify both Aspergillus and non-aspergillus fungal species.54 Another more recent group also compared the performance of different media for fungal isolation in CF patients to accurately assess the respiratory mycobiome in this patient population.55

Given these numerous challenges in correctly identifying fungal species in culture, molecular approaches, especially PCR performed on respiratory samples, are increasingly being applied in conjunction with traditional diagnostic methods. These include panfungal PCR assays, multiplex/pathogen-directed assays, real-time PCR, and probe-based assays. Real-time sputum PCR was shown to have a sensitivity of 74% compared to 46% galactomannan for detection of Aspergillus in patients with CF.35 In addition, molecular approaches may play a critical role in the correct identification of the evolving fungal microbiome of CF patient lungs.16 This is especially important in lung transplant recipients, in which invasive aspergillosis is a feared complication.56 While promising, these newer technologies have limited clinical applications at this time due to variations in assays. An excellent review of these newer modalities is described in the article by Chen et al.57 Additionally, there are emerging data identifying recombinant proteins specific to Scedosporium spp. that would allow for differentiation from Aspergillus spp.; identification and detection of recombinant proteins may lay the groundwork for the development of standardized serological testing.58

Management

As previously described, treatment of Candida spp. in sputum cultures is controversial given a lack of distinction between airway colonization and active infection. The 2016 Infectious Diseases Society of America clinical practice guidelines for the management of candidiasis states that, “growth of Candida from respiratory secretions usually indicates colonization and rarely requires treatment with antifungal therapy”.59 However, given a reported association between Candida colonization and decline in lung function,26 one may consider eradication of colonization in patients with worsening FEV1. Fluconazole is traditionally the drug of choice for C. albicans, C. parapsilosis, C. lusitaniae, and C. dubliniensis. Fluconazole should not be used to treat C. krusei due to intrinsic resistance and caution is advised when treating C. glabrata due to dose-dependent susceptibility.60 The pharmacokinetic profile for fluconazole can be found in Table 4.63,64,76 In the setting of fluconazole resistance, echinocandins (eg caspofungin, anidulafungin, micafungin) can be used to treat Candida spp. Echinocandins are only available in parenteral formulations due to poor gastrointestinal absorption and are generally well tolerated.60

Table 4

Pharmacokinetics and Pharmacodynamic Properties of Triazole Antifungals

Medication	Bioavailability (%)	Protein Binding (%)	Metabolism	t1/2 (hr)a	Excretion	Renal Dosing Adjustments
Fluconazole	>90	11–12	Hepatic: CYP2C19 (strong) CYP2C9 (mod) CYP3A4 (mod)	30	80% unchanged in urine	Yes, when CrCl≤50 mL/min
Itraconazole	Variable 55, increasing by 30% under fasted conditions (oral solution)	99.8	Hepatic: CYP3A4 (major)	34–42	<1% active drug excreted in urine; 54% in feces	No
Voriconazole	96	58	Hepatic: CYP2C19 (major) CYP2C9 (minor) CYP3A4 (minor)	Variable, dose-dependent	<2% unchanged in urine	Caution with CrCl<50 mL/min with intravenous product
Posaconazole	Variable	>98	Hepatic: substrate of UGT1A4	26–35	66% unchanged in feces; 13% in urine	Caution with CrCl<50 mL/min with intravenous product
Isavuconazole	98	>99	Hepatic: CYP3A4 (major)	130	<1% unchanged in urine; 33% unchanged in feces	No

Notes: at1/2 listed is for adults with normal renal function. Data from these studies.63,64,76

Abbreviations: t1/2, half-life; Mod, moderate; CrCl, creatinine clearance.

Because ABPA is caused by an allergic response to antigens of Aspergillus spp, the mainstay of treatment for ABPA focuses on the reduction of inflammation or immunological activity with corticosteroids.33,43 The optimal dosing schedule for oral steroids and duration of treatment for ABPA remains unclear. The most common initial dosing for prednisolone is 0.5 mg/kg/day for 2 weeks.61 Subsequent dosing and steroid taper are dependent upon symptoms, IgE levels, and radiologic fundings. Given the long-term side effects associated with systemic steroid use, dose tapering is recommended based on symptom control with the ultimate goal of corticosteroid discontinuation.

Treatment of ABPA also aims to reduce the antigen burden arising from fungal colonization of the bronchial tree by using antifungal agents. A systematic review of antifungal treatment in ABPA showed that antifungal agents, itraconazole and voriconazole most commonly demonstrated improvement in symptoms, frequency of exacerbations, and lung function. Additionally, antifungals showed a positive impact on biomarkers and radiological pulmonary infiltrates. Given the low quality of evidence and the adverse effects associated with triazoles, the use of antifungal agents remains controversial.62

The mainstay of treatment for Aspergillus spp. is triazoles including voriconazole, posaconazole, and itraconazole63,64,76 [Table 4].

Itraconazole has been used for eradication therapy in a randomized placebo-controlled trial for CF patients chronically colonized with A. fumigatus. Thirty-five patients received oral itraconazole 5 mg/kg/day or placebo for 24 weeks. There were no differences in the rate of respiratory exacerbations requiring intravenous antibiotics nor change in FEV1. However, this study was limited by a small sample size and subtherapeutic itraconazole concentrations.65

Eradication therapy for Aspergillus colonization has become the mainstay of therapy in lung transplant recipients due to an increased risk of morbidity. In a single-center retrospective cohort study of cystic fibrosis-lung transplant recipients, 70% of patients had pretransplant Aspergillus colonization (n=93). Thirty-six patients had positive intraoperative Aspergillus cultures and these patients had a four-fold higher risk of developing invasive aspergillosis post-lung transplant (OR 4.36, 95% CI 1.35–14.05, p=0.01).66

Due to an increased risk of invasive aspergillosis in an immunosuppressed population, voriconazole has been used preemptively in CF lung transplant patients colonized with Aspergillus as well as inhaled amphotericin B.66,67 In an evaluation of 328 lung transplant recipients, preemptive antifungal treatment resulted in a lower rate of invasive pulmonary aspergillosis compared with patients who did not receive 3 months of preemptive antifungal treatment (0% vs 18%, OR=0.8, P=0.003).67

As previously discussed, there are no guidelines for the prevention or treatment of fungal infections in patients with cystic fibrosis. However, the Infectious Diseases Society of America published guidelines for the management of aspergillosis in 2016.68 The treatment recommendations in this guideline are not specific to CF patients but are often used as a reference in the treatment of aspergillosis in CF. The 2016 IDSA guideline supports the use of voriconazole and other triazoles as first-line treatment options. Although not discussed in detail in this publication, triazoles are also used to treat other fungal organisms known to colonize or infect CF patients: Lomentospora prolificans (formerly Scedosporium prolificans), Exophiala dermatitidis, and Trichosporon mycotoxinivorans.22,69

Pharmacology

Triazoles have significant side effect profiles including gastrointestinal upset, skin rash, hepatotoxicity, visual disturbances, and neurological toxicities. Most triazoles cause QTc prolongation; however, isavuconazole can cause QTc shortening.63 Liver function tests and therapeutic drug monitoring are required to monitor and minimize some of the above-mentioned side effects. Additionally, the absorption of the different dosage forms may be impacted by food and/or acid-suppressing medications [Table 5]63,64; thus, therapeutic drug monitoring may be favorable in settings where medication absorption is impacted63,64 [Table 6].

Table 5

Food and Acid-Suppressing Medication Interactions with Triazole Antifungals

Medication	Effect of Food on Medication	Effect of PPI/H2RA on Medication
Fluconazole	No effect on absorption	No effect on absorption
Itraconazole	Food decreases absorption of oral solution	No effect on absorption of oral solution
	Capsule/tablet best taken with food	Decreased absorption of capsule/tablet when gastric acidity is reduced
Voriconazole	Food decrease absorption	No effect on absorption
Posaconazole	Oral suspension best taken with food	Decreased absorption of oral suspension when gastric acidity is reduced
	Delayed release tablets best taken with food	No effect on absorption of delayed release tablets
Isavuconazole	No effect on absorption	No effect on absorption

Note: Data from these studies.63,64Abbreviations: PPI, proton pump inhibitor: dexlansoprazole, esomeprazole, lansoprazole, omeprazole, pantoprazole, rabeprazole; H2RA, histamine H2 receptor antagonist: cimetidine, famotidine, ranitidine.

Table 6

Therapeutic Drug Monitoring of Triazole Antifungals

Medication	Timing	Recommended Trough Range
Itraconazole	4–7 days after initiation or dose adjustment	>0.5 −1 mcg/mL
Voriconazole	4–7 days after initiation, dose adjustment, or change interacting medications	>1 mcg/mL; >5 mcg/mL associated with toxicity
Posaconazole	6–10 days after initiation, dose adjustment, or change interacting medications	>0.7 mcg/mL, increase to >1/25 mcg/mL if response is poor
Fluconazole and isavuconazole	No recommendations for therapeutic drug monitoring	No recommendations for therapeutic drug monitoring

Note: Data from these studies.63,64

Triazoles have significant drug–drug interactions with other medications via the cytochrome P450 pathway. One of the most notable drug–drug interactions exists between triazoles and Cystic Fibrosis Transmembrane Conductance Receptor (CFTR) modulators. With the introduction of CFTR modulator elexacaftor/tezacaftor/ivacaftor and ivacaftor in October 2019, eligibility for CFTR modulators expanded significantly to nearly 90% of the CF population given that patients need only one copy of the F508del coupled with any other mutation to qualify for treatment.70 Drug–drug interactions between triazoles and elexacaftor/tezacaftor/ivacaftor and ivacaftor require significant dose adjustments to the CFTR modulator63,71–73 [Table 7].

Table 7

Dose Adjustments Required for Drug–Drug Interactions Between Moderatea and Strongb CYP3A Inhibitors and Elexacaftor/Tezacaftor/Ivacaftor and Ivacaftor

Moderatea CYP3A Inhibitors
	Day 1	Day 2	Day 3	Day 4
Morning dose	Two elexacaftor/tezacaftor/ivacaftor tablets	One ivacaftor tablet	Two elexacaftor/tezacaftor/ivacaftor tablets	One ivacaftor tablet
Evening dose	The evening dose of ivacaftor should not be taken.
Strongb CYP3A Inhibitors
	Day 1	Day 2	Day 3	Day 4
Morning dose	Two elexacaftor/tezacaftor/ivacaftor tablets	No dose	No dose	Two elexacaftor/tezacaftor/ivacaftor tablets
Evening dose	The evening dose of ivacaftor should not be taken.

Notes: aModerate CYP3A4 inhibitor: fluconazole. bStrong CYP3A4 inhibitor: itraconazole, posaconazole, voriconazole. Data from Trikafta [Package Insert].71

Due to growing azole-resistant aspergillosis, amphotericin B and echinocandins can also be considered for the management of aspergillosis.8,74,75 Unfortunately, efficacy of both agents, specifically in the CF population, is restricted to case reports.75 Amphotericin B is available in the United States as three different formulations: conventional, liposomal, and lipid complex. All formulations of amphotericin B have toxicities that limit their use: nephrotic, hepatic, hematologic, infusion-related, and electrolyte abnormalities. However, the lipid-based formulations are associated with significantly less nephrotoxicity.60,76 Inhaled amphotericin B provides targeted administration directly to the lungs thus minimizing systemic exposure and subsequent toxicity. Amphotericin B is not commercially available as an inhaled product. The intravenous solution must be administered via nebulization. Coordination with specialty pharmacies is advisable for medication and supply fulfillment, insurance authorization, and patient education.

Conclusion

CF airways have complex microbial environments predominantly occupied by bacteria. Through newer culture techniques and molecular methods, we now recognize that fungi are increasingly common in CF airways as filamentous organisms and yeast in both adults and children. Whether they play an active role in disease or are microbial bystanders remains unclear. This conundrum has forced clinicians to decide whether to continue with surveillance cultures or initiate antifungal therapy. Although CF management has historically focused on treating the usual suspects like Pseudomonas aeruginosa, Staphylococcus aureus or nontuberculosis mycobacterium, there is emerging evidence that filamentous fungi like Aspergillus and yeast may play an active role in the progression of the disease. Candida species are commensal fungi in the human microbiome as well as considered opportunistic pathogens particularly in the immunocompromized host, so it becomes unclear to clinicians how to interpret the presence of Candida in the sputum: contaminant or active pathogen. Similarly, Aspergillus is very common in soil and air and can become an opportunistic pathogen in the right host.

Future studies are needed to address several key areas such as standardization of diagnostic criteria for fungal organisms, determining whether bacterial and fungal co-infections have additive effects on the lungs, evaluating the immune system’s ability to manage fungal and bacterial coinfection, and determining whether bacteria and fungi alter each other’s pathophysiology.

Thus, it is imperative to establish laboratory and clinical diagnostic criteria to differentiate between benign and active pathogens. This distinction will aid in determining whether treatment of the potential fungal infection is warranted. Treatment with antifungal agents requires a careful understanding of pharmacology, drug–drug interactions, and potential side effect of therapies.