Cefiderocol treatment for carbapenem-resistant Acinetobacter baumannii infection in the ICU during the COVID-19 pandemic: a multicentre cohort study.

OBJECTIVES: To analyse the impact of cefiderocol use on outcome in patients admitted to the ICU for severe COVID-19 and further diagnosed with carbapenem-resistant Acinetobacter baumannii (CR-Ab) infection.
METHODS: Retrospective multicentre observational study was performed at four Italian hospitals, from January 2020 to April 2021. Adult patients admitted to ICU for severe COVID-19 and further diagnosed with CR-Ab infections were enrolled. Patients treated with cefiderocol, as compassionate use, for at least 72 h were compared with those receiving alternative regimens. Primary endpoint was all-cause 28 day mortality. The impact of cefiderocol on mortality was evaluated by multivariable Cox regression model.
RESULTS: In total, 107 patients were enrolled (76% male, median age 65 years). The median time from ICU admission to CR-Ab infection diagnosis was 14 (IQR 8-20) days, and the main types of CR-Ab infections were bloodstream infection (58%) and lower respiratory tract infection (41%). Cefiderocol was administered to 42 patients within a median of 2 (IQR 1-4) days after CR-Ab infection diagnosis and as monotherapy in all cases. The remaining patients received colistin, mostly (82%) administered as combination therapy. All-cause 28 day mortality rate was 57%, without differences between groups (cefiderocol 55% versus colistin 58% P = 0.70). In multivariable analysis, the independent risk factor for mortality was SOFA score (HR 1.24, 95% CI 1.15-1.38, P < 0.001). Cefiderocol was associated with a non-significant lower mortality risk (HR 0.64, 95% CI 0.38-1.08, P = 0.10).
CONCLUSIONS: Our study confirms the potential role of cefiderocol in the treatment of CR-Ab infection, but larger clinical studies are needed.

Introduction

Antibiotic resistance has been recognized as a public health concern due to its impact on patient morbidity and mortality. Carbapenem-resistant Acinetobacter baumannii (CR-Ab) is the top-ranked pathogen in the WHO priority list. Indeed, CR-Ab infections are associated with very high mortality rates, partially due to the hosts, which are generally represented by critically ill and/or immunocompromised patients, and due to the limited therapeutic options, which are mostly unable to safely achieve the optimal pharmacokinetic/pharmacodynamic (PK/PD) targets for severe infections. In addition, the burden of CR-Ab has been increasing during the COVID-19 pandemic; the weakening in antimicrobial resistance surveillance activities, the need for reorganizing ICU spaces and activities during pandemic waves and the overuse of antibiotics for COVID-19 pneumonia are some of the factors contributing to this increase.,

Cefiderocol is a new drug developed to overcome challenges presented by common carbapenem-resistance mechanisms; it is active against a variety of drug-resistant pathogens including CR-Ab. Clinical evidence on its efficacy in treating severe CR-Ab infections is still limited, consisting of one randomized controlled trial (RCT) and a few case series. The RCT reported higher rates of mortality at 14 and 28 days in patients with severe CR-Ab infections treated with cefiderocol versus ‘best available therapy’, while the case series reported high rates of clinical cure and survival associated with cefiderocol use. To overcome these controversial results, additional clinical data from either RCT or observational studies on the use of cefiderocol in severe CR-Ab infections are needed.

The aim of our study was to describe the antibiotic treatment of patients diagnosed with CR-Ab infection during COVID-19 pandemic; the impact of cefiderocol use on 28 day mortality was further investigated.

Methods

Study design

We performed a retrospective multicentre cohort study of patients with CR-Ab infection admitted to the ICU from January 2020 to April 2021.

Carbapenem resistance was defined according to EUCAST criteria. Infection was defined according to CDC criteria. The databases of Microbiology Laboratories were used as a data source. Clinical charts and hospital records of each patient with CR-Ab isolation during the study period were reviewed to assess the presence of CR-Ab infection and for data collection. CR-Ab infection was assessed by a senior investigator (R.P.) blinded to therapeutic management and patient outcome.

The study was approved by our Ethics Committee (Comitato Etico Indipendente di Area Vasta Emilia Centro, no. 283/2020/Oss/AOUBo).

Population

All consecutive adult (≥18 years) patients admitted to the ICU and diagnosed with CR-Ab infection during the study period were included. Exclusion criteria were: (i) rectal or respiratory CR-Ab colonization without symptoms and/or signs of infection; and (ii) clinical data not available. Patients were considered only once, at the time of first CR-Ab infection diagnosis.

Setting

Participating hospitals consist of three facilities (IRCCS Policlinico di Sant’Orsola, Bellaria Hospital and Maggiore Hospital) from the metropolitan area of Bologna, Emilia Romagna Region, with on average 75 ICU beds for adult patients. The other centre is San Salvatore Hospital from Pesaro, Marche region, with 40 ICU beds. Due to the COVID-19 pandemic, during the study period the number of ICU beds increased and they were mostly dedicated to the management of patients with critical COVID-19. An infection control programme was active in all the sites and included weekly surveillance for CR-Ab on respiratory and rectal specimens during ICU stay.

Variables and definitions

For the assessment of endpoints, Time 0 was defined as the day of sample collection yielding CR-Ab infection. The primary endpoint was all-cause mortality within 28 days after CR-Ab infection diagnosis (Time 0). Secondary endpoints were assessed at 14 days after CR-Ab infection diagnosis and included clinical cure, defined by resolution of fever and hypotension, and microbiological cure, defined by the clearance of follow-up blood cultures and/or respiratory samples that were performed in all patients as per local policy.

The main exposure variable was treatment with cefiderocol for at least 72 h, assessed from infection onset to ICU discharge or death. Cefiderocol was obtained through the compassionate Shionogi Europe Early Access Program in patients fulfilling the following criteria: age ≥18 years, hospitalization, clinically documented infection, identification or suspicion of carbapenem-resistant Gram-negative pathogen and a failed/unavailable existing treatment option due to other concurrent clinical conditions. Exclusion criteria included: history of hypersensitivity/allergic reaction to cephalosporins, penicillins or carbapenems, central nervous system infection, pregnancy or breastfeeding and uncontrolled seizure disorders. Stocks unemployed on patients for whom they were originally requested were initiated in patients for whom a new request was performed, according to the patient inclusion and exclusion criteria of the programme, under the responsibility of the clinician, and after obtaining Ethics Committee approval case by case. The drug was administered intravenously at a standard dose of 2 g every 8 h, with dosage adjustments for renal impairment as recommended by the manufacturers.

The other exposure variables were assessed at ICU admission and included age, sex and underlying conditions recorded according to the Charlson comorbidity index. Immunosuppression included neutropenia (neutrophil count <500 cells/mm3); solid organ transplantation; haematopoietic stem cell transplantation; corticosteroid therapy at a dosage higher than or equivalent to prednisone 16 mg/day for 15 days; or uncontrolled HIV infection (CD4 cell count <200 cells/mm3).

Infection types were established according to CDC criteria. In the absence of a recognized source, bloodstream infection (BSI) was considered as the primary source. BSI was defined as complicated when the infection source was not fully removable. Two investigators (R.P., Z.P.) independently assessed the diagnosis of lower respiratory tract infection (LRTI) following CDC criteria. Disagreements were resolved through discussion or by consulting a third senior investigator (M.G.). Clinical severity at infection onset was assessed according to SOFA score and new septic shock criteria.

Empirical therapy was defined as antibiotics administered before the susceptibility report was available. It was considered appropriate when at least one in vitro active drug (according to the susceptibility pattern of the isolate) was administered within 24 h from infection onset. Delayed or no active antibiotic administration within this period was considered as inappropriate empirical therapy.

Regarding the SARS-CoV-2 infection, defined as a positive RT-PCR test on nasopharyngeal swabs, clinical severity at ICU admission, antiviral and immunomodulatory treatment and the need for mechanical ventilation were collected. Clinical severity of SARS-CoV-2 infection was defined according to WHO criteria.

Microbiology

During the study period, CR-Ab isolates were tested for antimicrobial susceptibility using the MicroScan Walkaway-96 automated system (Beckman Coulter, Brea, CA, USA). Antimicrobial susceptibility testing for cefiderocol was performed with a broth microdilution panel using iron-depleted CAMHB (ID-CAMHB). In brief, ID-CAMHB was prepared by the removal of divalent cations using a cation-binding Chelex® 100 resin (Bio-Rad Laboratories, Hercules, CA, USA). Cation-depleted medium was filtered with a 0.2 μm pore-size filter and autoclaved. Then, medium was supplemented with CaCl2, MgCl2 and ZnSo4 at final concentrations of 25 mg/L, 12.5 mg/L and 1.0 mg/L, respectively. The cefiderocol powder (Shionogi & Co. Ltd) was dissolved in sterile normal saline and the 96-well plate microdilution panel was inoculated with a final concentration of 5 × 105 cfu/mL and incubated for 20 h at 35 ± 1°C.

The MICs of cefiderocol were determined following EUCAST guidelines by evaluating the relative growth reduction (button of <1 mm) in comparison to the ID-CAMHB growth control well. For cefiderocol MIC ≥2 mg/L, antimicrobial resistance was confirmed by disc diffusion antimicrobial susceptibility testing, according to EUCAST standard methodology for non-fastidious organisms on regular Mueller–Hinton agar.

Blood cultures were incubated using the Bactec FX Automated Blood Culture System (Becton Dickinson, Franklin Lakes, NJ, USA). All positive blood cultures were processed with the MALDI Biotyper MALDI-TOF MS system (Bruker Daltonics, Bremen, Germany) for rapid and reliable species identification of microorganisms.

Statistical analysis

For descriptive analysis, categorical variables were presented as absolute numbers and their relative frequencies and continuous variables were presented as mean ± standard deviation (SD) if normally distributed, or as median and IQR if non-normally distributed. Patients treated with and without cefiderocol were compared using the χ2 test, the exact test was used when appropriate; continuous variables were compared using the non-parametric Mann–Whitney test. To assess the impact of cefiderocol on 28 day mortality, univariable and multivariable analyses of risk factors for 28 day mortality were performed considering cefiderocol treatment as the variable of interest. All the variables with P < 0.1 at univariable analysis were introduced in the multivariable Cox regression model using the stepwise backward approach; patients were considered from the day of infection diagnosis to death or 28 days, whichever occurred first. The analysis was further adjusted for steroid use, as this variable was different among patients treated with and without cefiderocol, and for bloodstream infection for clinical relevance. Statistical significance was defined as a P value <0.05. All the analyses were carried out using SPSS 21.00 software.

Results

Over the study period, CR-Ab isolation was reported in 196 patients. Of them, 68 were excluded: 58 patients had CR-Ab colonization and for 10 patients clinical data were not available. Thus, 128 patients were analysed; 46 received cefiderocol and 82 received other regimens. Hospital distribution of patients is showed in Table S1 (available as Supplementary data at JAC-AMR Online), and the characteristics of the overall population are shown in Table S2. Since for most patients the underlying condition for being admitted to ICU was severe COVID-19, we decided to restrict the analysis to this subgroup in order to study a homogeneous setting (see study flow chart depicted in Figure 1).

Figure 1.

Study population flow chart.

Thus, we analysed 107 patients admitted to ICU for severe COVID-19 and further diagnosed with CR-Ab infection. Of them, 76% of patients were male, the median age was 65 (IQR 59–72) years, the median Charlson comorbidity index was 3 (IQR 2–4) and 31.8% of them had an impaired renal function. Almost all patients required mechanical ventilation (98%) for COVID-19 pneumonia. The median time from ICU admission to the diagnosis of CR-Ab infection was 14 (IQR 8–20) days. Almost all patients (105/107, 98%) were found to be CR-Ab carriers before infection diagnosis. The main types of CR-Ab infection were bloodstream infection and lower respiratory tract infection in 58% and 41% of cases, respectively. At CR-Ab infection onset, median SOFA score was 8 (IQR 6–11), and 43 (41%) patients fulfilled septic shock criteria. All-cause 14 and 28 day mortality rates were 46% and 57%, respectively (data shown in Table 1).

Table 1.

Characteristics of patients admitted to the ICU for severe COVID-19 who developed CR-Ab superinfection, and comparison between cefiderocol and other treatment groups

	Total, N = 107	Cefiderocol, N = 42	Other treatment, N = 65	P a
Demographics
Age, years, median (IQR)	65 (59–72)	64 (55–73)	65 (60–71)	0.972
Male sex, n (%)	82 (76)	32 (76)	50 (77)	0.930
Comorbidities
Charlson comorbidity index, median (IQR)	3 (2–4)	2 (1–3)	3 (2–4)	0.316
Immunosuppression, n (%)	9 (8.4)	3 (7)	6 (9)	0.704
Impaired renal function at baseline (serum Cr >1.2 mg/dL), n (%)	34 (31.8)	13 (31)	21 (32.3)	0.883
COVID-19 at time of A. baumannii infection, n (%)
Critical COVID-19	103 (96)	42 (100)	61 (94)	0.443
Mechanical ventilation due to COVID-19	105 (98)	42 (100)	63 (97)	0.251
COVID-19 therapy
Tocilizumab	58 (54)	24 (57)	34 (52)	0.624
Steroid therapy	89 (83)	42 (100)	47 (72)	<0.001
A. baumannii infection
Source of infection, n (%)
LRTI	44 (41)	14 (33)	30 (46)	0.18
BSI	62 (58)	27 (64)	35 (54)	0.28
Source of A. baumannii BSI
CVC related	8 (13)	2 (7.4)	6 (17)
Lower respiratory tract	31 (50)	17 (63)	14 (40)
Clinical severity at BSI onset
SOFA score, median (IQR)	8 (6–11)	9 (5–11)	8 (5–12)	0.666
Septic shock, n (%)	43 (41)	18 (46)	25 (38)	0.441
Polymicrobial infection, n (%)	34 (32)	12 (27)	22 (34)	0.567
Complicated infection, n (%)	8 (7.5)	5 (11.9)	3 (4.6)	0.153
Therapeutic management of A. baumannii infection
Appropriate empirical therapy	41 (38)	20 (47)	21 (32)	0.108
Time from infection diagnosis to active antibiotic initiation, days, median (IQR)	1 (1–3)	1 (1–2)	1 (1–3)	0.628
Outcomes
Time to microbiological cure, days, median (IQR)	7 (5–12)	6 (4–14)	7 (6–12)	0.951
Outcome at Day 14
Clinical cure (14 days)	41 (38)	17 (40)	24 (36)	0.453
Microbiological cure (14 days)	26 (24)	12 (28)	14 (21)	0.246
SOFA score at Day 14, median (IQR)	0 (0–4)	1 (0–5)	0 (0–2)	0.063
Assessment of renal function according to RIFLE classification
Risk (increased serum Cr ×1.5 or GFR decrease >25%)	3 (2.8)	1 (2.4)	2 (3.1)	0.831
Injury (increased serum Cr ×2 or GFR decrease >50%)	5 (4.7)	2 (4.8)	3 (4.6)	0.972
Failure (increased serum Cr ×3 or GFR decrease >75% or Cr ≥4 mg per 100 mL)	1 (0.9)	0 (0)	1 (1.5)	0.251
End stage renal disease	1 (0.9)	0	1	0.421
Composite acute kidney injury	10 (9.3)	4 (9.5)	6 (9.2)	0.944
Death (14 days)	50 (46)	17 (40)	33 (51)	0.147
Outcome at Day 28
Death	61 (57)	23 (55)	38 (58)	0.706

Cr, creatinine; CVC, central venous catheter; GFR, glomerular filtration rate.

Significant differences are highlighted in bold.

Forty-two patients (39%) were treated with cefiderocol; it was administered as empirical and definitive therapy in 11/42 (26.2%) patients and only as definitive therapy in the remaining 31/42 (73.8%) patients, and it was always employed as monotherapy (see Figure 2).

Figure 2.

Description of empirical and definitive regimens with and without cefiderocol. COL, colistin; MPM, meropenem; PIP/TZB, piperacillin/tazobactam; CAZ, ceftazidime; AVI, avibactam; TIGE, tigecycline; FOSFO, fosfomycin; TMP/SMX, trimethoprim/sulfamethoxazole; SULB, sulbactam; CEF, cefiderocol.

The median time to cefiderocol administration from CR-Ab infection diagnosis was 2 (IQR 1–4) days. Cefiderocol was tested in all isolates obtained from patients receiving this drug to confirm susceptibility: the median MIC was 1 (IQR 0.5–1) mg/L. The remaining 65 patients were treated with colistin-based regimens (data shown in Figure 2).

The only significant difference between cefiderocol and non-cefiderocol treated patients was steroid treatment for COVID-19 (100% versus 72%, P < 0.001). There were no differences in 14 day and 28 day mortality rates (data shown in Table 1). Furthermore, we analysed the subset of patients with CR-Ab BSI and found no significant differences in mortality rates in this subgroup (data shown in Table S4).

Univariable analysis of risk factors for 28 day mortality is shown in Table S3. On multivariable analysis, the independent risk factor for mortality was SOFA score (HR 1.24, 95% CI 1.15–1.38, P < 0.001); cefiderocol treatment remained in the final model as a protective factor but with a non-statistically significant value (HR 0.64, 95% CI 0.38–1.08, P = 0.10) (data shown in Table 2). The subgroup analysis including only patients with CR-Ab BSI confirmed these findings (Tables S5 and S6).

Table 2.

Multivariable analysis of independent risk factors for 28 day mortality adjusted for male sex, SOFA score, septic shock, steroid treatment for COVID-19, bloodstream infection and cefiderocol as the variable of interest

	HR (95% CI)	P
SOFA score	1.24 (1.15–1.38)	<0.001
Cefiderocol	0.64 (0.38–1.08)	0.10

Discussion

We analysed a large cohort (n = 107) of patients with CR-Ab superinfection during ICU admission for severe COVID-19, of them more than one-third (39%) were treated with cefiderocol. Underlying conditions and clinical severity at CR-Ab infection onset between cefiderocol- and non-cefiderocol-treated patients were similar. On multivariable analysis for 28 day mortality, there was a non-statistically significant lower mortality in patients treated with cefiderocol.

This is one of the largest real-life experiences of cefiderocol use for severe CR-Ab infections in current clinical practice; in addition, comparison with non-cefiderocol-treated patients was performed. Although there was no randomization, the two groups were similar with regard to underlying conditions, severity of COVID-19 and severity of CR-Ab superinfection. The only difference consisted of steroid use for COVID-19, which was more frequent among the cefiderocol group. For this reason, we adjusted the multivariable analysis of risk factors for 28 day mortality for steroid use.

In our study, the main types of CR-Ab infection were BSI and LRTI, where cefiderocol has been associated with higher mortality rates in the CREDIBLE-CR trial. One may argue that the diagnosis of LRTI in COVID-19 patients is extremely difficult and subjective. Indeed, clinical and radiological criteria may overlap with COVID-19, and laboratory criteria may be altered by immunomodulatory treatments administered for the hyperinflammatory syndrome., To overcome these issues two senior ID consultants, blinded to antibiotic treatments and patient outcome, reviewed all the records of patients with a CR-Ab isolation to establish the final diagnosis of infection, with a third advisor in case of disagreements. In addition, we adjusted the multivariable analysis for the presence of BSI considering this as an unequivocal index of true and severe infection. Furthermore, we performed a subgroup analysis of patients with BSI without finding differences in outcome.

A compassionate programme allowed access to cefiderocol during the study period. In such contexts, administrative and ethical issues may cause a delay in drug onset that is crucial in time-dependent severe infections such as septic shock, which was present in 41% of our patients. For this reason, this variable was also included in the multivariable analysis. Therefore, it is worth mentioning that the access to cefiderocol was very well organized, indeed the median time to cefiderocol initiation was 2 (IQR 1–4) days, often prompted by the knowledge of carriage status, susceptibility of colonizing pathogen and the local epidemiology during pandemic waves.

Cefiderocol is a very appealing resource in the management of carbapenem-resistant infections, in particular of CR-Ab, for its mechanism of action, in vitro activity, PK/PD characteristics and safety profile. However, as stated in the introduction, current clinical data are extremely controversial.,,, We found that cefiderocol remained as a protective factor against mortality in our multivariable analysis but at a non-statistically significant value. It remains to be established whether the lack of significance was true or related to the limitations of our study. In the first case, another element to explore should be the relationship between cefiderocol exposure and treatment failure as recently shown for ceftazidime/avibactam in a large Italian real-life experience.

Our study has several limitations. First, the small sample size may have hampered a powerful analysis. However, this is one of the largest real-life experiences with cefiderocol use in patients with CR-Ab infections compared with alternative regimens. Second, the high mortality rate associated with critical COVID-19 could make difficult to evaluate the effect of cefiderocol treatment on medium- and long-term outcome (i.e. 6 month or 1 year mortality). On the other hand, the selection of patients admitted to the ICU for the same reason could have mitigated the influence of the underlying cause of ICU admission on early outcomes (i.e. 14 day and 28 day mortality).

To conclude, our experience suggests that cefiderocol could be an effective treatment option for CR-Ab infection in critically ill patients admitted for COVID-19. Large studies are needed to confirm the role of cefiderocol in the therapeutic armamentarium against severe carbapenem-resistant infections.

Funding

This study was carried out as part of our routine work and supported by internal funding.

Transparency declarations

None to declare.

Supplementary data

Tables S1 to S6 are available as Supplementary data at JAC-AMR Online.

Click here for additional data file.