Christopher P. Mancuso

High Precision Binary Trait Association on Phylogenetic Trees

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.

A genetic platform for a biocementation bacterium

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

Phage-mediated lysis does not determine Cutibacterium acnes colonization on human skin

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.

Intraspecies associations from strain-rich metagenome samples

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

Intraspecies warfare restricts strain coexistence in human skin microbiomes

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

No evidence that synonymous mutations in yeast genes are mostly deleterious

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.

A generalizable experimental framework for automated cell growth and laboratory evolution

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.