Zhiru Liu

The paper compares gut microbiomes of Tsimane and Hadza populations to show that many microbes co-migrated with humans globally, but are now vanishing in industrialized populations.

RootQuant uses deep learning to automatically quantify root traits from minirhizotron images, achieving high accuracy across species without pixel-level annotations.

The paper models dN/dS dynamics in recombining bacterial populations, showing recombination explains most of the decline in dN/dS and reveals weak selection at many coding sites.

The paper introduces a theoretical framework to analyze homoplasy caused by recombination, showing how it depends on mutation rates, selection, drift, and allele frequencies.