Transforming clinical microbiology with bacterial genome sequencing
Whole-genome sequencing of bacteria has recently emerged as a cost-effective and
convenient approach for addressing many microbiological questions. Here, we review the …
convenient approach for addressing many microbiological questions. Here, we review the …
Biological and epidemiological features of antibiotic-resistant Streptococcus pneumoniae in pre-and post-conjugate vaccine eras: a United States perspective
L Kim, L McGee, S Tomczyk, B Beall - Clinical microbiology …, 2016 - Am Soc Microbiol
Streptococcus pneumoniae inflicts a huge disease burden as the leading cause of
community-acquired pneumonia and meningitis. Soon after mainstream antibiotic usage …
community-acquired pneumonia and meningitis. Soon after mainstream antibiotic usage …
ClonalFrameML: efficient inference of recombination in whole bacterial genomes
Recombination is an important evolutionary force in bacteria, but it remains challenging to
reconstruct the imports that occurred in the ancestry of a genomic sample. Here we present …
reconstruct the imports that occurred in the ancestry of a genomic sample. Here we present …
Pandemic-scale phylogenomics reveals the SARS-CoV-2 recombination landscape
Accurate and timely detection of recombinant lineages is crucial for interpreting genetic
variation, reconstructing epidemic spread, identifying selection and variants of interest, and …
variation, reconstructing epidemic spread, identifying selection and variants of interest, and …
Routine use of microbial whole genome sequencing in diagnostic and public health microbiology
Whole genome sequencing (WGS) promises to be transformative for the practice of clinical
microbiology, and the rapidly falling cost and turnaround time mean that this will become a …
microbiology, and the rapidly falling cost and turnaround time mean that this will become a …
Pneumococcal within-host diversity during colonization, transmission and treatment
Characterizing the genetic diversity of pathogens within the host promises to greatly improve
surveillance and reconstruction of transmission chains. For bacteria, it also informs our …
surveillance and reconstruction of transmission chains. For bacteria, it also informs our …
[HTML][HTML] Strain features and distributions in pneumococci from children with invasive disease before and after 13-valent conjugate vaccine implementation in the USA
BJ Metcalf, RE Gertz Jr, RA Gladstone, H Walker… - Clinical Microbiology …, 2016 - Elsevier
The effect of second-generation pneumococcal conjugate vaccines on invasive
pneumococcal disease (IPD) strain distributions have not yet been well described. We …
pneumococcal disease (IPD) strain distributions have not yet been well described. We …
Pneumococcal capsular switching: a historical perspective
Background. Changes in serotype prevalence among pneumococcal populations result from
both serotype replacement and serotype (capsular) switching. Temporal changes in …
both serotype replacement and serotype (capsular) switching. Temporal changes in …
[HTML][HTML] Pandemic-scale phylogenomics reveals elevated recombination rates in the SARS-CoV-2 spike region
Accurate and timely detection of recombinant lineages is crucial for interpreting genetic
variation, reconstructing epidemic spread, identifying selection and variants of interest, and …
variation, reconstructing epidemic spread, identifying selection and variants of interest, and …
Natural transformation and genome evolution in Streptococcus pneumoniae
D Straume, GA Stamsås, LS Håvarstein - Infection, Genetics and Evolution, 2015 - Elsevier
Streptococcus pneumoniae is a frequent colonizer of the human nasopharynx that has the
potential to cause severe infections such as pneumonia, bacteremia and meningitis. Despite …
potential to cause severe infections such as pneumonia, bacteremia and meningitis. Despite …