Qiaojuan Shi

The paper profiles gut bacterial extracellular vesicles (bEVs) and links their cargo composition to host transcriptional responses across different cell types.

The paper introduces a method to map microbiome-host interactions in the gut at high spatial resolution using in situ polyadenylation and spatial RNA sequencing, revealing microbial biogeography and host-microbe interactions in a mouse model.

The paper uses bacterial Hi-C to study horizontal gene transfer of mobile antibiotic resistance genes in gut microbiomes, finding distinct HGT networks between individuals and increased dispersal in neutropenic patients.

The paper shows that human AMY1 gene copy number affects oral and gut microbiome composition and function, with low-AMY1 associated with enhanced complex carbohydrate breakdown and high-AMY1 linked to resistant starch fermentation and higher adiposity.