Invasive Staphylococcus aureus infections are common, causing high mortality,
compounded by the propensity of the bacterium to develop drug resistance. S. aureus is an …

Studying within-species variation has traditionally been limited to culturable bacterial
isolates and low-resolution microbial community fingerprinting. Metagenomic sequencing …

Industrialization has impacted the human gut ecosystem, resulting in altered microbiome
composition and diversity. Whether bacterial genomes may also adapt to the …

Antibiotics have transformed medicine, saving millions of lives since they were first used to
treat a bacterial infection. However, antibiotics administered to target a specific pathogen …

Natural selection shapes bacterial evolution in all environments. However, the extent to
which commensal bacteria diversify and adapt within the human gut remains unclear. Here …

The chronic infection hypothesis for novel severe acute respiratory syndrome coronavirus 2
(SARS-CoV-2) variant emergence is increasingly gaining credence following the …

The high frequency of antibiotic resistance is a global public health concern. More seriously,
widespread metal pressure in the environment may facilitate the proliferation of antibiotic …

Illumina sequencing allows rapid, cheap and accurate whole genome bacterial analyses,
but short reads (< 300 bp) do not usually enable complete genome assembly. Long-read …

Gut microbiota are shaped by a combination of ecological and evolutionary forces. While the
ecological dynamics have been extensively studied, much less is known about how species …

What enables strains of the same species to coexist in a microbiome? Here, we investigate
whether host anatomy can explain strain co-residence of Cutibacterium acnes, the most …