Antimicrobial resistance (AMR) poses a substantial threat to human health. The widespread
prevalence of AMR is, in part, due to the horizontal transfer of antibiotic resistance genes …

Bacteria acquire novel DNA through horizontal gene transfer (HGT), a process that enables
an organism to rapidly adapt to changing environmental conditions, provides a competitive …

Antimicrobial resistance extracts high morbidity, mortality and economic costs yearly by
rendering bacteria immune to antibiotics. Identifying and understanding antimicrobial …

The human gut microbiome is a dense and taxonomically diverse consortium of
microorganisms. While the bacterial components of the microbiome have received …

Short-read, high-throughput sequencing (HTS) methods have yielded numerous important
insights into microbial ecology and function. Yet, in many instances short-read HTS …

Microbial genomes can be assembled from short-read sequencing data, but the assembly
contiguity of these metagenome-assembled genomes is constrained by repeat elements …

Highlights•The human gut microbiome harbours antibiotic resistance genes ('the
resistome').•Antibiotic resistance genes can spread in the gut microbiome through horizontal …

Abstract Characterization of microbiomes has been enabled by high-throughput
metagenomic sequencing. However, existing methods are not designed to combine reads …

Bacterial DNA methylation occurs at diverse sequence contexts and plays important
functional roles in cellular defense and gene regulation. Existing methods for detecting DNA …

The discovery of N6-methyldeoxyadenine (6mA) across eukaryotes led to a search for
additional epigenetic mechanisms. However, some studies have highlighted confounding …