Xue‐Song Zhang

This study identifies epigenetic phase variation in the gut microbiome, showing it enhances bacterial adaptation through gene regulation and bet-hedging strategies.

The paper assesses low-biomass microbiome detection in tissues using long-read sequencing, finding that genuine microbiome signals are limited to tissues with natural microbial exposure.

This study shows that the 16p11.2 microdeletion worsens neurodevelopmental issues caused by early-life antibiotic exposure, affecting gut microbiota, hippocampal development, and behavior.

The paper identifies microbially-produced phospholipids that reduce inflammation and counteract antibiotic-induced type 1 diabetes in mice, with similar effects observed in humans.

This paper introduces modFDR, a framework to assess nanopore sequencing for DNA modification detection, showing it reliably detects abundant modifications but has high false positives for rare ones.

mEnrich-seq selectively sequences specific bacterial taxa from microbiome samples by using methylation-sensitive restriction enzymes to enrich target DNA while depleting background microbiota.

This paper introduces a novel SMRT sequencing framework for single molecule-level detection of DNA methylation and epigenetic phasing in bacterial methylomes, revealing improved resolution and distinct epigenetic heterogeneity.