For many decades, Salmonella enterica has been subdivided by serological properties into
serovars or further subdivided for epidemiological tracing by a variety of diagnostic tests with …

Background Rising antimicrobial resistance (AMR) is a threat to modern medicine, and
increasing international mobility facilitates the spread of AMR. Infections with resistant …

Antimicrobial resistance (AMR) is a major threat to global health. Understanding the
emergence, evolution, and transmission of individual antibiotic resistance genes (ARGs) is …

Anaemia is a global public health concern, afflicting adolescent girls, women of reproductive
age, pregnant women and children in low-and middle-income countries. 1 Reduction of …

Illumina sequencing platforms have enabled widespread bacterial whole genome
sequencing. While Illumina data is appropriate for many analyses, its short read length limits …

Antibiotic resistance is a major problem in Salmonella enterica serovar Typhi, the causative
agent of typhoid. Multidrug-resistant (MDR) isolates are prevalent in parts of Asia and Africa …

Rapidly decreasing genome sequencing costs have led to a proportionate increase in the
number of samples used in prokaryotic population studies. Extracting single nucleotide …

Visualization is frequently used to aid our interpretation of complex datasets. Within
microbial genomics, visualizing the relationships between multiple genomes as a tree …

Whole-genome sequencing (WGS) has been vital for revealing the rapid temporal and
spatial evolution of antimicrobial resistance (AMR) in bacterial pathogens. Some …

Summary Background Salmonella enterica serovar Typhi (S Typhi) is responsible for an
estimated 20 million infections and 200 000 deaths each year in resource poor regions of …