Airway commensal bacteria in cystic fibrosis inhibit the growth of P. aeruginosa via a released metabolite

Tony-Odigie, Andrew; Dalpke, Alexander H.; Boutin, Sébastien; Yi, Buqing

doi:10.1016/j.micres.2024.127680

Cited by 2 publications

(1 citation statement)

References 72 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The pipeline includes several Python scripts that manage the analysis workflow. Briefly, it allows for the filtering of genomes, the alignment of genomes in NextClade (https://clades.nextstrain.org) 5 , phylogenetic tree inference in IQ-Tree [12][13][14] , tree dating 15 and ancestral state construction and annotation. The phylogeny analysis is rooted by Wuhan-Hu-1/2019 (GISAID Accession ID: EPI_ISL_402125).…”

Section: Phylogenetic and Phylogeographical Analyses Of Sars-cov-2mentioning

confidence: 99%

The potential impact of the spreading of highly transmissible Omicron variant XBB.1.5 and JN.1 on the evolution of SARS-CoV-2

2024

Preprint

Self Cite

View full text Add to dashboard Cite

In spite of three-year pandemic time caused by Covid-19, the trend and impact of the evolution of SARS-CoV-2 remain unclear. For newly emerging variants, it is still hard to predict how possibly they could impact the pandemic/endemic course. The spreading of highly transmissible variant XBB.1.5 and JN.1 has brought many questions. Could the high transmission ability of such variant lead to a different global spreading pattern compared to other previously existing variants of concern (VOCs)? How that may possibly affect the further evolution of SARS-CoV-2? This study aimed to explore the evolution course of SARS-CoV-2 variants, with focus on VOCs. The investigation was carried out through integration of multiple virus genomic epidemiology approaches. Phylogeny and phylodynamic analyses were used to investigate dynamic changes of virus evolution course. Through this study, an overview check of the evolution events of SARS-CoV-2 VOCs, including the alpha variant, delta variant and omicron variant, has been performed, and the further course of evolution has been predicted, especially taking the potential impact of the spreading of XBB.1.5 and JN.1 into consideration. Furthermore, the early spreading pattern of XBB.1.5 was compared with the early spreading patterns of BQ.1.1 to investigate the impact of evolution on virus spreading pattern. The information acquired through this study provided insights into the effect of SARS-CoV-2 evolution on spreading pattern and the potential impact of the spreading of XBB.1.5 and JN.1 on the further evolution of SARS-CoV-2.

show abstract

Section: Phylogenetic and Phylogeographical Analyses Of Sars-cov-2mentioning

confidence: 99%

The potential impact of the spreading of highly transmissible Omicron variant XBB.1.5 and JN.1 on the evolution of SARS-CoV-2

2024

Preprint

Self Cite

View full text Add to dashboard Cite

show abstract

Investigating the cause of a 2021 winter wave of COVID-19 in a border region in eastern Germany: a mixed-methods study, August to November 2021

Yi,

Patrasová,

Šimůnková

et al. 2024

Epidemiol. Infect.

Self Cite

View full text Add to dashboard Cite

It is so far unclear how the COVID-19 winter waves started and what should be done to prevent possible future waves. In this study, we deciphered the dynamic course of a winter wave in 2021 in Saxony, a state in Eastern Germany neighbouring the Czech Republic and Poland. The study was carried out through the integration of multiple virus genomic epidemiology approaches to track transmission chains, identify emerging variants and investigate dynamic changes in transmission clusters. For identified local variants of interest, functional evaluations were performed. Multiple long-lasting community transmission clusters have been identified acting as driving force for the winter wave 2021. Analysis of the dynamic courses of two representative clusters indicated a similar transmission pattern. However, the transmission cluster caused by a locally occurring new Delta variant AY.36.1 showed a distinct transmission pattern, and functional analyses revealed a replication advantage of it. This study indicated that longlasting community transmission clusters starting since early autumn caused by imported or locally occurring variants all contributed to the development of the 2021 winter wave. The information we achieved might help future pandemic prevention.

show abstract

Airway commensal bacteria in cystic fibrosis inhibit the growth of P. aeruginosa via a released metabolite

Cited by 2 publications

References 72 publications

The potential impact of the spreading of highly transmissible Omicron variant XBB.1.5 and JN.1 on the evolution of SARS-CoV-2

The potential impact of the spreading of highly transmissible Omicron variant XBB.1.5 and JN.1 on the evolution of SARS-CoV-2

Investigating the cause of a 2021 winter wave of COVID-19 in a border region in eastern Germany: a mixed-methods study, August to November 2021

Contact Info

Product

Resources

About