Aleeza C. Gerstein

The influence of drug dosing regimen on extinction and adaptation during experimental evolution in Candida albicans

This study examines how fluconazole dosing regimens affect extinction and adaptation in Candida albicans, finding that high concentrations with rapid transfers increase extinction risk.

oidyPeaks: R package for automated flow cytometry cell cycle analysis and visualization in fungal microbes

The paper introduces an R package for automated flow cytometry analysis of fungal cell cycle and karyotypic subpopulations, demonstrating its utility on evolving Candida albicans populations.

Chromosome-scale CRISPR screening reveals secretory pathway genes as drivers of aneuploidy-mediated antifungal tolerance

The paper uses CRISPR screening to identify secretory pathway genes that drive antifungal tolerance through aneuploidy in Candida albicans.

Global whole-genome phylogenomics of Nakaseomyces glabratus reveals admixture and refines sequence type-based classification

The paper analyzes whole-genome sequencing data from 548 Nakaseomyces glabratus isolates to assess the concordance between MLST and WGS-based phylogenies, finding strong agreement and proposing a hybrid naming system.

Pooled CRISPRi screening reveals fungal-specific vulnerabilities across environments and genetic backgrounds

This study uses pooled CRISPRi screening in Candida albicans to identify dosage-sensitive genes across diverse environments and genetic backgrounds, highlighting potential antifungal targets.

FungAMR: A comprehensive portrait of antimicrobial resistance mutations in fungi

The paper curates AMR mutations in fungi to create FungAMR, identifies universal resistance mutations, and provides a tool to screen genomes for AMR mutations.

Evolving a mitigation of the stress response pathway to change the basic chemistry of life

This paper uses adaptive laboratory evolution to replace tryptophan in E. coli with a synthetic analog, revealing that stress response inhibition, not translation rigidity, limits genetic code expansion.

Identification of pathogen genomic differences that impact human immune response and disease during Cryptococcus neoformans infection

The paper identifies 40 Cryptococcus neoformans genes associated with human immune response and disease outcomes using clinical and genomic data from Ugandan patients.

Exposure to the oral host niche yields rapid phenotypic and genotypic diversification in Candida albicans

This study shows that Candida albicans rapidly generates genotypic and phenotypic diversity in the mouse oral cavity, with higher mutation rates compared to in vitro conditions.