2022
Prophage-encoded immune evasion factors are critical for Staphylococcus aureus host infection, switching, and adaptation
Chaguza C, Smith J, Bruce S, Gibson R, Martin I, Andam C. Prophage-encoded immune evasion factors are critical for Staphylococcus aureus host infection, switching, and adaptation. Cell Genomics 2022, 2: 100194. PMID: 36465278, PMCID: PMC9718559, DOI: 10.1016/j.xgen.2022.100194.Peer-Reviewed Original ResearchGenome-wide association studiesPopulation genomic studiesBacterial genetic variationMulti-host pathogensSpecific genetic lociGenomic studiesGenetic variationGenetic lociHost infectionAdditional lociAnimal hostsAssociation studiesImmune evasion factorsOverall heritabilityImmune evasion genesGenetic variantsAnimal isolatesLociHuman hostInfection of humansEvasion genesHostKey roleAdaptationIsolates
2021
RCandy: an R package for visualizing homologous recombinations in bacterial genomes
Chaguza C, Tonkin-Hill G, Lo S, Hadfield J, Croucher N, Harris S, Bentley S. RCandy: an R package for visualizing homologous recombinations in bacterial genomes. Bioinformatics 2021, 38: 1450-1451. PMID: 34864895, PMCID: PMC8826011, DOI: 10.1093/bioinformatics/btab814.Peer-Reviewed Original ResearchConceptsBacterial genomesHomologous recombinationRecombination eventsImportant evolutionary processPlatform-independent R packageGenomic sequence diversityValuable biological insightsSuch recombination eventsR packageGenomic regionsSequence diversityBiological insightsEvolutionary processesGenomeSupplementary dataRecombinationMIT licenseProkaryotesBioinformaticsDiversityBacteriaMacOSXAdaptation