Genetic determinants underlying the progressive phenotype of β-lactam/β-lactamase inhibitor resistance in .

The increased feasibility of whole-genome sequencing has generated significant interest in using such molecular diagnostic approaches to characterize difficult-to-treat, antimicrobial-resistant (AMR) infections. Nevertheless, there are current limitations in the accurate prediction of AMR phenotypes based on existing AMR gene database approaches, which primarily correlate a phenotype with the presence/absence of a single AMR gene. Our study utilized a large cohort of cephalosporin-susceptible bacteremia samples to determine how increasing the dosage of narrow-spectrum β-lactamase-encoding genes in conjunction with other diverse β-lactam/β-lactamase inhibitor (BL/BLI) genetic determinants contributes to progressively more severe BL/BLI phenotypes.

Xenomake: a pipeline for processing and sorting xenograft reads from spatial transcriptomic experiments.

Xenograft models are attractive models that mimic human tumor biology and permit one to perturb the tumor microenvironment and study its drug response. Spatially resolved transcriptomics (SRT) provide a powerful way to study the organization of xenograft models, but currently there is a lack of specialized pipeline for processing xenograft reads originated from SRT experiments. Xenomake is a standalone pipeline for the automated handling of spatial xenograft reads.

Temporal dynamics of genetically heterogeneous extended-spectrum cephalosporin-resistant bloodstream infections.

Extended-spectrum cephalosporin-resistant (ESC-R-) is an urgent public health threat with sequence type clonal complex 131 (STc131), phylogroup B2 strains being particularly concerning as the dominant cause of ESC-R- infections. To address the paucity of recent ESC-R- molecular epidemiology data in the United States, we used whole-genome sequencing (WGS) to fully characterize a large cohort of invasive ESC-R- at a tertiary care cancer center in Houston, Texas, collected from 2016 to 2020. During the study time frame, there were 1,154 index bloodstream infections (BSIs) of which 389 (33.

Temporal Dynamics of Genetically Heterogeneous Extended-Spectrum Cephalosporin Resistant Bloodstream Infections.

Unlabelled: Extended-spectrum cephalosporin resistant (ESC-R- ) is an urgent public health threat with sequence type clonal complex 131 (STc131), phylogroup B2 strains being particularly concerning as the dominant cause of ESC-R- infections. To address the paucity of recent ESC-R- molecular epidemiology data in the United States, we used whole genome sequencing (WGS) to fully characterize a large cohort of invasive ESC-R- at a tertiary care cancer center in Houston, Texas collected from 2016-2020. During the study timeframe, there were 1154 index bloodstream infections (BSIs) of which 389 (33.