T. D. Read

Average Nucleotide Identity based Staphylococcus aureus strain grouping allows identification of strain-specific genes in the pangenome

This study uses ANI to group S. aureus strains and identifies strain-specific genes in the pangenome by analyzing gene distribution patterns.

Genomic insights into the evolution of secondary metabolism of Escovopsis and its allies, specialized fungal symbionts of fungus-farming ants

This study investigates the evolution of secondary metabolism in Escovopsis and related fungi, revealing unique biosynthetic pathways linked to their symbiotic lifestyle with fungus-growing ants.

Experimentally Evolved Staphylococcus aureus Survives in the Presence of Pseudomonas aeruginosa by Acquiring Mutations in the Amino Acid Transporter, GltT

This study identifies mutations in the amino acid transporter GltT that enable Staphylococcus aureus to survive in the presence of Pseudomonas aeruginosa through altered glutamate metabolism.

Patterns of within-host spread of Chlamydia trachomatis between vagina, endocervix and rectum revealed by comparative genomic analysis

The paper uses genomic analysis of C. trachomatis from multiple body sites to show that most infections are recent and single-strain, while some show multiple strains across sites.

Development of an amplicon nanopore sequencing strategy for detection of mutations conferring intermediate resistance to vancomycin in Staphylococcus aureus strains

The paper develops a nanopore sequencing method to detect VISA-causing mutations in S. aureus by amplifying and sequencing 16 genes associated with resistance.

Species-scale genomic analysis of S. aureus genes influencing phage host range and their relationships to virulence and antibiotic resistance genes

The paper analyzes S. aureus genomes to identify phage resistance genes and their evolutionary patterns, finding that superinfection immunity genes best predict phage resistance and horizontal gene transfer.

Genotypic and phenotypic diversity of Staphylococcus aureus from cystic fibrosis lung infections and their interactions with Pseudomonas aeruginosa

This study analyzes the genotypic and phenotypic diversity of Staphylococcus aureus from cystic fibrosis lung infections and their interactions with Pseudomonas aeruginosa, finding that isolates retain virulence factors and exhibit varied survival responses to P. aeruginosa.