Aetiology of Community-Acquired Pneumonia and the Role of Genetic Host Factors in Hospitalized Patients in Cyprus

被引:1
|
作者
Ladas, Petros [1 ]
Porfyridis, Ilias [2 ]
Tryfonos, Christina [1 ]
Ioannou, Anna [2 ]
Adamide, Tonia [2 ]
Christodoulou, Christina [1 ]
Richter, Jan [1 ]
机构
[1] Cyprus Inst Neurol & Genet, Mol Virol Dept, Iroon Ave 6, CY-2371 Nicosia, Cyprus
[2] Nicosia Gen Hosp, Pulm Dept, Lemesou 215, CY-2029 Nicosia, Cyprus
关键词
microorganism detection and analysis; clinical microbiology; community-acquired pneumonia; genomics; real-time PCR/RT-PCR; next-generation sequencing; REAL-TIME PCR; NITRIC-OXIDE SYNTHASE; RISK-FACTORS; INFLUENZA-A; VIRUSES; POLYMORPHISM; ASSOCIATION; INFECTIONS; DIAGNOSIS; ASSAYS;
D O I
10.3390/microorganisms11082051
中图分类号
Q93 [微生物学];
学科分类号
071005 ; 100705 ;
摘要
Community-acquired pneumonia (CAP) remains the leading cause of hospitalization among infectious disease in Europe, and a major cause of morbidity and mortality. In order to determine and characterize the aetiology of CAP in hospitalized adults in Cyprus, respiratory and blood samples were obtained from hospitalized patients with CAP, and analyzed using Multiplex Real-Time PCR/RT-PCR, and ID/AMR enrichment panel (RPIP) analysis. Probe-based allelic discrimination was used to investigate genetic host factors in patients. The aetiology could be established in 87% of patients. The most prevalent viral pathogens detected were influenza A, SARS-CoV-2, and human rhinovirus. The most common bacterial pathogens detected were Streptococcus pneumoniae, Staphylococcus aureus, and Haemophilus influenzae. Antimicrobial resistance genes were identified in 23 patients. S. aureus was the most common AMR correlated strain in our study. A positive correlation was detected between bacterial infections and the NOS3 rs1799983 G allele and the FCGR2A rs1801274 G allele. A positive correlation was also detected between the TNF-a rs1800629 A allele and sepsis, while a negative correlation was detected with the ACE rs1799752 insertion genotype and the severity of pneumonia. In conclusion, the targeted NGS panel approach applied provides highly sensitive, comprehensive pathogen detection, in combination with antimicrobial resistance AMR insights that can guide treatment choices. In addition, several host factors have been identified that impact the disease progression and outcome.
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页数:16
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