Christopher P. Mancuso

This paper introduces SimPhyNI, a framework for microbial GWAS that improves precision and recall in detecting gene-gene and gene-trait associations in bacterial genomes.

This paper develops a genetic toolkit for Sporosarcina pasteurii, enabling genome modification and uncovering genes involved in biocementation.

The paper investigates the role of phage-mediated selection in shaping Cutibacterium acnes populations on human skin and finds weak phage pressure due to physical barriers limiting phage exposure.

PHLAME improves strain-resolved metagenomic analysis by combining reference-based methods with novelty detection, revealing new intraspecies associations in human microbiomes.

The paper shows that intraspecies warfare limits strain coexistence in human skin microbiomes by analyzing interactions between Staphylococcus epidermidis isolates.

The paper reveals hidden strain dynamics in skin microbiome species, showing that while strains are transient, some are more stable and may be targets for therapeutic interventions.

The paper reanalyzes data from Shen et al. to argue that most synonymous mutations in yeast genes are not deleterious, challenging their original conclusions about fitness effects.

The paper introduces eVOLVER, a scalable DIY framework for automated cell growth and laboratory evolution, demonstrating its versatility through yeast experiments and novel millifluidic modules.