Aetiology of lower respiratory tract infection in adults in primary care: a prospective study in 11 European countries

Ieven, Margareta; Coenen, Samuel; Loens, Katherine; Lammens, Christine; Coenjaerts, Frank E. J.; Vanderstraeten, Anouk; Henriques‐Normark, Birgitta; Crook, Derrick W.; Huygen, Kris; Butler, Christopher Collett; Verheij, Theo; Little, Paul; Zlateva, Kalina T.; Loon, Anton van; Claas, Eric C. J.; Goossens, Herman

doi:10.1016/j.cmi.2018.02.004

Cited by 132 publications

(140 citation statements)

References 29 publications

(28 reference statements)

Supporting

Mentioning

125

Contrasting

Unclassified

Order By: Relevance

“…The majority of acute respiratory infections is caused by viruses, such as rhinovirus (RV), influenza (INF) A and B viruses, metapneumovirus (MPV), and respiratory syncytial virus (RSV) [4]. However, in 20-62% of the patients, no pathogen is detected [4–6]. This might be the result of diagnostic failures or even infection by unknown pathogens, such as the Middle East respiratory syndrome coronavirus (MERS-CoV), that was first recognized in 2012 [7].…”

Section: Introductionmentioning

confidence: 99%

Metagenomic Sequencing for Combined Detection of Rna and Dna Viruses in Respiratory Samples From Paediatric Patients

Pappas

et al. 2018

Preprint

View full text Add to dashboard Cite

show abstract

Section: Introductionmentioning

confidence: 99%

Metagenomic Sequencing for Combined Detection of Rna and Dna Viruses in Respiratory Samples From Paediatric Patients

Pappas

et al. 2018

Preprint

View full text Add to dashboard Cite

show abstract

“…A first phylogenetic analysis, including 147 genomes from various streptococci of the mitis group (SMG) species, was performed to classify 24 isolates collected from lower-respiratory tract infections (LRTI) within the EU project GRACE (22) which we suspected to be S. pseudopneumoniae (n=16) or S. mitis (n=3), or for which no definitive classification was possible to obtain using traditional typing methods and MLSA (n=5) (Fig. 1).…”

Section: Resultsmentioning

confidence: 99%

“…While SPPN_RS06420 had a G+C content challenging for the design of PCR primers (average of 27.1%) further analysis of SPPN_RS10375 and its surrounding intergenic regions in the 44 genomes indicated that this 627-bp locus could be a good candidate for a molecular marker. 8 clinical isolates, not subjected to whole-genome sequencing, and collected during the same LRTI study (22), that were either impossible to identify (n=4) or suspected to be S. pseudopneumoniae (n=4), were found to be positive by PCR for SPPN_RS10375, indicating they are all S. pseudopneumoniae . These strains were also positive for the recently published S. pseudopneumoniae marker SPS0002 (12) (Fig.…”

Section: Resultsmentioning

confidence: 99%

“…In this study we used a collection of suspected S. pseudopneumoniae strains isolated from LRTI patients (22). The classification of some of these isolates could only be resolved through WGS and phylogenetic analyses.…”

Section: Resultsmentioning

confidence: 99%

“…32 α-hemolytic strains isolated from sputum or nasopharyngeal swabs of lower-respiratory tract infection patients collected during the GRACE study (22) and presenting atypical results in traditional biochemical tests to identify S. pneumoniae were included in this study. Isolates were tested for optochin susceptibility as described elsewhere (7) and bile solubility (41) and tested by PCR for pneumococcal markers ( lytA , cpsA , spn_9802 , 16SrRNA) and by RFLP for pneumococcal-specific signatures ( lytA , ply/mly ) (7).…”

Section: Methodsmentioning

confidence: 99%

See 2 more Smart Citations

Comparative genomic analysis of the emerging pathogen Streptococcus pseudopneumoniae: novel insights into virulence determinants and identification of a novel species-specific molecular marker

Garriss

Nannapaneni

Simões

et al. 2018

Preprint

View full text Add to dashboard Cite

31Streptococcus pseudopneumoniae is a close relative of the major human pathogen S. 32 pneumoniae. While initially considered as a commensal species, it has been increasingly 33 associated with lower-respiratory tract infections and high prevalence of antimicrobial 34 resistance (AMR). S. pseudopneumoniae is difficult to identify using traditional typing 35 methods due to similarities with S. pneumoniae and other members of the mitis group (SMG). 36 Using phylogenetic and comparative genomic analyses of SMG genomes, we identified a new 37 molecular marker specific for S. pseudopneumoniae and absent from any other bacterial 38 genome sequenced to date. We found that a large number of known virulence and 39 colonization genes are present in the core S. pseudopneumoniae genome and we reveal the 40 impressive number of known and new surface-exposed proteins encoded by this species. 41 Phylogenetic analyses of S. pseudopneumoniae show that specific clades are associated with 42 allelic variants of core proteins. Resistance to tetracycline and macrolides, the two most 43 common resistances, were encoded by Tn916-like integrating conjugative elements and 44 Mega-2. Overall, we found a tight association of genotypic determinants of AMR as well as 45 phenotypic AMR with a specific lineage of S. pseudopneumoniae. Taken together, our results 46 sheds light on the distribution in S. pseudopneumoniae of genes known to be important during 47 invasive disease and colonization and provide insight into features that could contribute to 48 virulence, colonization and adaptation. 50Importance 51 S. pseudopneumoniae is an overlooked pathogen emerging as the causative agent of lower-52 respiratory tract infections and associated with chronic obstructive pulmonary disease 53 (COPD) and exacerbation of COPD. However, much remains unknown on its clinical 54 importance and epidemiology, mainly due to the lack of specific means to distinguish it from 55 S. pneumoniae. Here, we provide a new molecular marker entirely specific for S. 56 pseudopneumoniae. Furthermore, our research provides a deep analysis of the presence of 57 virulence and colonization genes, as well as AMR determinants in this species. Our results 58 provide crucial information and pave the way for further studies aiming at understanding the 59 pathogenesis and epidemiology of S. pseudopneumoniae. 61 62Streptococcus pseudopneumoniae is a close relative of the human pathogen 64 Streptococcus pneumoniae. It was first described in 2004 (1), and belongs to the mitis group 65 which includes 13 other species of which some are the most common colonizers of the oral 66 cavity, such as S. mitis, S. sanguinis, S. oralis and S. gordonii (2). An increasing number of 67 reports indicate that S. pseudopneumoniae is a potential pathogen, usually associated with 68 underlying conditions (3-5), and that it can be isolated from both invasive and non-invasive 69 sites (6-9). It has been shown to be virulent in a mouse peritonitis/sepsis model (10), and to be 70 the probable ca...

show abstract

Age and Location in Severity of COVID‐19 Pathology: Do Lactoferrin and Pneumococcal Vaccination Explain Low Infant Mortality and Regional Differences?

Root‐Bernstein

2020

BioEssays

View full text Add to dashboard Cite

Two conundrums puzzle COVID-19 investigators: 1) morbidity and mortality is rare among infants and young children and 2) rates of morbidity and mortality exhibit large variances across nations, locales, and even within cities. It is found that the higher the rate of pneumococcal vaccination in a nation (or city) the lower the COVID-19 morbidity and mortality. Vaccination rates with Bacillus Calmette-Guerin, poliovirus, and other vaccines do not correlate with COVID-19 risks, nor do COVID-19 case or death rates correlate with number of people in the population with diabetes, obesity, or adults over 65. Infant protection may be due to maternal antibodies and antiviral proteins in milk such as lactoferrin that are known to protect against coronavirus infections. Subsequent protection might then be conferred (and correlate with) rates of Haemophilus influenzae type B (Hib) (universal in infants) and pneumococcal vaccination, the latter varying widely by geography among infants, at-risk adults, and the elderly. Also see the video abstract here https://youtu.be/GODBYRbPL00.

show abstract

Aetiology of lower respiratory tract infection in adults in primary care: a prospective study in 11 European countries

Cited by 132 publications

References 29 publications

Metagenomic Sequencing for Combined Detection of Rna and Dna Viruses in Respiratory Samples From Paediatric Patients

Metagenomic Sequencing for Combined Detection of Rna and Dna Viruses in Respiratory Samples From Paediatric Patients

Comparative genomic analysis of the emerging pathogen Streptococcus pseudopneumoniae: novel insights into virulence determinants and identification of a novel species-specific molecular marker

Age and Location in Severity of COVID‐19 Pathology: Do Lactoferrin and Pneumococcal Vaccination Explain Low Infant Mortality and Regional Differences?

Contact Info

Product

Resources

About