Jason Travis

TL;DR: This study demonstrates how NASP compares with other tools in the analysis of two real bacterial genomics datasets and one simulated dataset and demonstrates differences in results based on the choice of the reference genome and choice of inferring phylogenies from concatenated SNPs or alignments including monomorphic positions.

TL;DR: This study highlights difficulties in identifying isolates from the Trichophyton mentagrophytes/interdigitale clade of the genus using currently available molecular tools and highlights the potential of this organism to rapidly spread alleles that might be driving antifungal resistance among its population.

TL;DR: This study demonstrates how NASP compares to other tools in the analysis of two real bacterial genomics datasets and one simulated dataset and demonstrates differences in results based on the choice of the reference genome and choice of inferring phylogenies from concatenated SNPs or alignments including monomorphic positions.

TL;DR: In this article, the authors performed whole-genome sequencing on samples collected during 2006-2014 and found no evidence for recombination or nonneutral mutation accumulation; these findings do not support common source or patient-to-patient transmission.

TL;DR: A combination of antimicrobial resistance and gain and loss of specific genes may explain the prominent association of this sequence type with C. difficile infection cases worldwide.