Vaughn S. Cooper

This study shows that Csu pili in A. baumannii have opposing roles in early and late stages of chronic lung infection, reducing bacterial burden initially but promoting persistence later.

This study shows that RNA quality control through rny mutations enables antibiotic tolerance in Streptococcus pneumoniae by balancing transcriptional resilience and degradation.

This study uses optimized urine metagenomic methods to analyze microbial community dynamics in catheterized patients and identifies predictors of transition from asymptomatic colonization to CAUTI.

This study shows that MRSA can exhibit antibiotic sensitivity due to reduced mecA expression and altered PBP2a levels in certain environments, suggesting new therapeutic targets.

This study evolves three bacterial species in single- and mixed-species biofilms, showing mixed-species interactions constrain diversification while promoting specific adaptive mutations.

This study finds that respiratory viral infections increase Pseudomonas abundance in cystic fibrosis airways, with persistent microbial changes and associations with pro-inflammatory cytokines.

The paper shows that filamentous phages in Pseudomonas aeruginosa can reduce host and phage fitness through hyperactivation and subsequent miniphage invasion.

This study identifies genetic adaptations in Pseudomonas aeruginosa during chronic infection that lead to hyperbiofilm phenotypes through mutations in lipopolysaccharide and type IV pili biosynthesis.

Students identified novel biofilm regulators through experimental evolution, revealing mutations that influence microbial adaptation and niche differentiation.

The paper identifies mutations in Pseudomonas aeruginosa that confer cross-resistance to multiple beta-lactam antibiotics during treatment with ceftazidime/avibactam.

This study compares how two Acinetobacter baumannii strains from different eras respond to tigecycline, showing historical differences influence transcriptional responses and resistance adaptation mechanisms.

SprayNPray provides a user-friendly tool for taxonomic profiling of genome and metagenome contigs using multiple metrics to classify and analyze sequences.

The paper examines mutation rate variation in bacterial genomes linked to replication timing, finding periodic patterns in mutation rates across chromosomes.

The paper analyzes the fitness effects of spontaneous mutations in Burkholderia cenocepacia using mutation accumulation experiments and genome sequencing.

This study examines the phenotypic and genetic responses of Escherichia coli to short-term selection, finding diverse fitness effects and reduced mutation benefits in adapted genotypes across environments.

This study analyzes the mutation rates and spectra in Burkholderia cenocepacia, revealing non-AT-biased mutations and chromosome-specific variation.