Katherine S. Xue

CUPID-seq improves amplicon sequencing by reducing costs and increasing multiplexing through combinatorial indexing, enabling efficient use of high-throughput sequencing platforms.

The paper studies intra-species diversity in microbial communities by competing gut strains, finding strong selection and coexistence due to biotic interactions.

This study shows that blocking intestinal fructose catabolism reduces obesity and insulin resistance by decreasing fat absorption and altering gut microbiome and immune interactions.

This study shows that parental care in poison frogs transfers skin microbes to offspring, influencing their microbial communities, but not necessarily their similarity to adult microbiotas.

This study shows how initial population size and resource competition shape gut microbial community coalescence, with dose-dependent effects persisting even after many generations.

FAVA quantifies compositional variability across multiple microbiome samples using a normalized index, enabling comparison of taxonomic or functional relative abundances across different conditions and sample numbers.