Airway Mycobiota-Microbiota During Pulmonary Exacerbation of Cystic Fibrosis Patients: A Culture and Targeted Sequencing Study.

IF 4.1 2区医学 Q1 DERMATOLOGY Mycoses Pub Date : 2025-01-01 DOI:10.1111/myc.70024

Cécile Angebault, Louise-Eva Vandenborght, Laurence Bassinet, Nathalie Wizla, Agnès Ferroni, Rodrigue Dessein, Natacha Remus, Caroline Thumerelle, Nathalie Fauchet, Ralph Epaud, Laurence Delhaes, Françoise Botterel

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Abstract

Background: The airways of patients with cystic fibrosis (pwCF) harbour complex fungal and bacterial microbiota involved in pulmonary exacerbations (PEx) and requiring antimicrobial treatment. Descriptive studies analysing bacterial and fungal microbiota concomitantly are scarce, especially using both culture and high-throughput-sequencing (HTS).

Objectives: We analysed bacterial-fungal microbiota and inter-kingdom correlations in two French CF centres according to clinical parameters and antimicrobial choices.

Methods: Forty-eight pwCF with PEx from Creteil (n = 24) and Lille (n = 24) CF centres were included over 2 years. Sputa were collected for culture and targeted-HTS (ITS2 and V3-V4 targets). Sequencing and culture data, along with clinical, radiological and treatment data, were analysed. Two-level stratified analysis was performed to study potential confounding factors (age, CF mutation, FEV1 and antibiotics) on the centre factor. Inter-kingdom correlations were analysed.

Results: Significant differences in the bacterial microbiota profile were found between centres (p-value = 0.03). For mycobiota, the taxonomic distribution and diversity were comparable. HTS provided concordant but more detailed information than culture and increased detection of main CF fungi (> 25% more positive samples for Aspergillus or Scedosporium). FEV1 and systemic antibiotic before PEx influenced bacterial microbiota, but no clinical association was found with the mycobiota. No inter-kingdom correlation between Pseudomonas and fungi was found.

Conclusions: Describing concomitant bacterial and fungal communities of pwCF at the beginning of PEx using culture and HTS shows greater diversity in HTS and better detection in case of low microbial load. Interesting inter-kingdom correlations were observed, requiring further research on larger cohorts to understand the potential microbial interactions.

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囊性纤维化患者肺加重期气道菌群-微生物群：培养和靶向测序研究。

背景：囊性纤维化（pwCF）患者的气道含有复杂的真菌和细菌微生物群，涉及肺恶化（PEx），需要抗菌治疗。同时分析细菌和真菌微生物群的描述性研究很少，特别是同时使用培养和高通量测序（HTS）。目的：根据临床参数和抗菌药物的选择，我们分析了两个法国CF中心的细菌-真菌微生物群和王国间的相关性。方法：48例来自Creteil （n = 24）和Lille (n = 24) CF中心的PEx pwCF患者，时间超过2年。收集Sputa用于培养和靶向hts （ITS2和V3-V4靶标）。分析测序和培养数据，以及临床、放射学和治疗数据。采用两水平分层分析研究中心因素的潜在混杂因素（年龄、CF突变、FEV1和抗生素）。分析了王国间的相关性。结果：中心间细菌菌群分布差异显著（p值= 0.03）。真菌群的分类分布和多样性具有可比性。与培养相比，HTS提供了一致但更详细的信息，并增加了主要CF真菌的检出率（Aspergillus或sedosporium的阳性样品增加了约25%）。PEx前FEV1和全身抗生素影响细菌微生物群，但未发现与真菌群的临床关联。假单胞菌与真菌之间没有王国间的相关性。结论：利用培养和高温热法描述PEx开始时pwCF伴随的细菌和真菌群落，高温热法具有更大的多样性，在微生物负荷较低的情况下检测效果更好。观察到有趣的王国间相关性，需要进一步研究更大的队列以了解潜在的微生物相互作用。

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来源期刊

Mycoses 医学-皮肤病学

CiteScore

10.00

自引率

8.20%

发文量

143

审稿时长

6-12 weeks

期刊介绍： The journal Mycoses provides an international forum for original papers in English on the pathogenesis, diagnosis, therapy, prophylaxis, and epidemiology of fungal infectious diseases in humans as well as on the biology of pathogenic fungi. Medical mycology as part of medical microbiology is advancing rapidly. Effective therapeutic strategies are already available in chemotherapy and are being further developed. Their application requires reliable laboratory diagnostic techniques, which, in turn, result from mycological basic research. Opportunistic mycoses vary greatly in their clinical and pathological symptoms, because the underlying disease of a patient at risk decisively determines their symptomatology and progress. The journal Mycoses is therefore of interest to scientists in fundamental mycological research, mycological laboratory diagnosticians and clinicians interested in fungal infections.