Brian P. H. Metzger

The paper investigates the evolutionary dynamics of self-assembly in prokaryotic citrate synthases, finding frequent transitions between different assembly types without strong functional consequences.

The paper responds to criticisms of their reference-free analysis method by addressing claims about high-order epistasis and methodological equivalences.

Reference-free analysis with a sigmoid link shows additive plus pairwise effects explain a median 96% of phenotypic variance across 20 combinatorial protein mutagenesis datasets.

The paper identifies trans-regulatory mutations affecting gene expression in S. cerevisiae and shows their genomic distribution overlaps with segregating variants.

The paper quantifies mutation effects on TDH3 promoter activity in yeast across environments and finds natural selection limits plasticity between glucose and galactose.

The paper identifies 181 yeast genes absent from the reference genome and validates their role in environmental adaptations using reverse genetics and association mapping in Saccharomyces cerevisiae.