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Characterization of Inflammatory Responses During Intranasal Colonization with Streptococcus pneumoniae
Published on: January 17, 2014
Genome analysis of a MDR Streptococcus pneumoniae 23F serotype causing meningoencephalitis in a 10-months refugee
Tamara Salloum1, Elie Tannous2, Samar Merheb-Ghoussoub3
1Lebanese American University, Byblos, Lebanon. tamara.salloum@lau.edu.
Purpose:
Streptococcus pneumoniae is an important human pathogen causing invasive pneumococcal diseases (IPD). The re-emergence of eradicated S. pneumoniae-associated meningoencephalitis in Lebanon is a major point of concern.
Methods:
We aimed at conducting a comparative genome analysis of a multi-drug resistant S. pneumoniae, LAU-23F, linked to meningoencephalitis and fatality in a 10-months Syrian refugee infant in Lebanon, and 24 related publically available genome sequences. Serotype, capsular genes, MLST, SNPs, phylogenetic relatedness and repertoire of resistance genes were investigated. Genes encoding penicillin binding proteins (PBPs) were examined for mosaicity. Virulence factors were screened for SNPs as compared to reference strains.
Results:
The isolate belonged to ST-277 and was of serotype 23F. It showed an intermediate resistance to ciprofloxacin, cefuroxime and penicillin and carried multiple components of different efflux pumps. Gene mosaicity was observed in pbp2x, it was also distinct from other penicillin-resistant strains; pbp1a and pbp2b appeared to be conserved between LAU-23F and the reference strain SP49. The arrangement of capsular gene loci was similar to ATCC 700669 though polymorphism was detected in the cpsABCD region, believed to be conserved among different Streptococcus species. Amplitude of virulence factors was detected showing varying degrees of conservation compared to reference strains. Observed zones of high heterogeneity were associated with phage encoded regions.
Conclusions:
The fine levels of diversity throughout the genome could account for the pronounced invasiveness of this isolate. The genomics-based methods used support the importance of implementing WGS in routine clinical diagnostics and surveillance of streptococcal diseases.
Insights
Genomic analysis revealed a multidrug-resistant Streptococcus pneumoniae strain, ST-277, linked to infant meningoencephalitis. High genome diversity may explain its invasiveness, highlighting the need for whole-genome sequencing in disease surveillance.
Area of Science:
- Microbiology
- Genomics
- Infectious Diseases
Background:
- Streptococcus pneumoniae is a significant cause of invasive pneumococcal diseases (IPD).
- The resurgence of S. pneumoniae-associated meningoencephalitis in Lebanon is a growing public health concern.
- Multidrug resistance in S. pneumoniae complicates treatment and increases disease severity.
Purpose of the Study:
- To perform a comparative genome analysis of a multidrug-resistant S. pneumoniae isolate (LAU-23F) responsible for meningoencephalitis and fatality in an infant.
- To investigate the genetic basis of the isolate's resistance and invasiveness by comparing it with 24 related public genome sequences.
- To identify specific genetic features contributing to the virulence and resistance profile of the S. pneumoniae strain.
Main Methods:
- Comparative whole-genome sequencing (WGS) of the S. pneumoniae LAU-23F isolate.
- Analysis of serotype, capsular genes, multilocus sequence typing (MLST), and single nucleotide polymorphisms (SNPs).
- Investigation of penicillin-binding protein (PBP) gene mosaicity and screening for virulence factors and resistance genes.
Main Results:
- The isolate was identified as ST-277, serotype 23F, exhibiting intermediate resistance to ciprofloxacin, cefuroxime, and penicillin.
- Gene mosaicity was observed in pbp2x, with pbp1a and pbp2b conserved compared to a reference strain.
- High genomic heterogeneity was noted, particularly in phage-encoded regions, and a diverse array of virulence factors was detected.
Conclusions:
- The extensive genomic diversity of the S. pneumoniae LAU-23F isolate likely contributes to its significant invasiveness.
- Genomic approaches, including WGS, are crucial for effective clinical diagnostics and surveillance of streptococcal infections.
- This study underscores the importance of continuous genomic monitoring to understand and combat emerging infectious threats.
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