Genomic Epidemiology Identifies Azole Resistance Due to TR34/L98H in European Aspergillus fumigatus Causing COVID-19-Associated Pulmonary Aspergillosis

Aspergillus fumigatus has been found to coinfect patients with severe SARS-CoV-2 virus infection, leading to COVID-19-associated pulmonary aspergillosis (CAPA). The CAPA all-cause mortality rate is approximately 50% and may be complicated by azole resistance. Genomic epidemiology can help shed light...

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Bibliographic Details
Published in:Journal of fungi (Basel) 2023-11, Vol.9 (11), p.1104
Main Authors: Simmons, Benjamin C., Rhodes, Johanna, Rogers, Thomas R., Verweij, Paul E., Abdolrasouli, Alireza, Schelenz, Silke, Hemmings, Samuel J., Talento, Alida Fe, Griffin, Auveen, Mansfield, Mary, Sheehan, David, Bosch, Thijs, Fisher, Matthew C.
Format: Article
Language:English
Subjects:
Alleles
Antifungal activity
Aspergillosis
Aspergillus fumigatus
azole-resistant Aspergillus fumigatus
CAPA
coinfection
COVID-19
COVID-19-associated pulmonary aspergillosis
Epidemiology
Gene polymorphism
genetic epidemiology
Genomic analysis
Hospitals
Intensive care
Mortality
Mutation
Patients
Phylogeny
Population genetics
Severe acute respiratory syndrome coronavirus 2
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Summary:Aspergillus fumigatus has been found to coinfect patients with severe SARS-CoV-2 virus infection, leading to COVID-19-associated pulmonary aspergillosis (CAPA). The CAPA all-cause mortality rate is approximately 50% and may be complicated by azole resistance. Genomic epidemiology can help shed light on the genetics of A. fumigatus causing CAPA, including the prevalence of resistance-associated alleles. We present a population genomic analysis of 21 CAPA isolates from four European countries with these isolates compared against 240 non-CAPA A. fumigatus isolates from a wider population. Bioinformatic analysis and antifungal susceptibility testing were performed to quantify resistance and identify possible genetically encoded azole-resistant mechanisms. The phylogenetic analysis of the 21 CAPA isolates showed that they were representative of the wider A. fumigatus population with no obvious clustering. The prevalence of phenotypic azole resistance in CAPA was 14.3% (n = 3/21); all three CAPA isolates contained a known resistance-associated cyp51A polymorphism. The relatively high prevalence of azole resistance alleles that we document poses a probable threat to treatment success rates, warranting the enhanced surveillance of A. fumigatus genotypes in these patients. Furthermore, potential changes to antifungal first-line treatment guidelines may be needed to improve patient outcomes when CAPA is suspected.
ISSN:2309-608X
2309-608X
DOI:10.3390/jof9111104