Robert A. Petit III, PhD rpetit3

ABSTRACT The Mycobacteria Amplicon Sequencing Tool ( https://github.com/guthrielab/MAST ) is a modular Nextflow pipeline for antimicrobial resistance prediction and lineage classification of…

Clostridioides difficile ( C.

Candidozyma auris (formerly known as Candida auris) (C auris) is a multidrug-resistant fungal pathogen that has emerged as a significant threat to global health.

Haemophilus influenzae is a Gram-negative bacterium that can exist as a commensal organism or cause a range of diseases, from ear infections to invasive conditions like meningitis.

Staphylococcus aureus is a common cause of skin and soft-tissue infections (SSTIs) and has become the most common cause of bloodstream infections (BSIs) in recent years, but whether the strains…

We report evidence that WGS can complement epidemiological analysis to achieve the End TB strategy goal in Oman.

We report the secretor status and associations with recent norovirus infections

We report the early introductions of SARS-CoV-2 in the US state of Georgia

Carbapenem-resistant Enterobacteriaceae (CRE) represent a significant antibiotic resistance threat, in part because carbapenemase genes can spread on mobile genetic elements.

We created Bactopia, built using Nextflow workflow software, to provide efficient comparative genomic analyses for bacterial species or genera. Analysis of 1,664 public Lactobacillus genomes was conducted to demonstrate the usage of Bactopia.