Zhemin Zhou

Healthcare Infrastructure Shapes Evolutionary Trade-offs and Geographic Dissemination of Multidrug-Resistant Acinetobacter baumannii

This study shows how hospital network structure influences the evolution and spread of drug-resistant bacteria, identifying two distinct evolutionary strategies in Acinetobacter baumannii.

Evolutionary landscape of oral microbiome over 100,000 years

This study traces the evolutionary changes in the human oral microbiome over 102,400 years, revealing co-evolution with cultural and medical transitions and highlighting shifts in microbial ecology and antimicrobial resistance.

A Cross-Sectional Study on the Current Status and Determinants of Human Papillomavirus Infection in Women from Suzhou, China

This study examines HPV infection rates and risk factors in Suzhou women, finding high prevalence and identifying key risk factors for targeted prevention.

Wave succession in the pandemic clone of Vibrio parahaemolyticus driven by gene loss

The paper investigates gene loss in Vibrio parahaemolyticus pandemic clones, showing it drives wave succession through environmental and transmission advantages.

Multi-Omics Analysis of Wound Microbiome and Staphylococcus aureus in Pressure Ulcer

This study uses multi-omics approaches to analyze the wound microbiome and Staphylococcus aureus in pressure ulcers, revealing reduced microbial diversity, antimicrobial resistance, and biofilm formation characteristics.

Geographic-specific Diversification of Vaginal Microbiota in China

This study analyzes vaginal microbiota diversity across five Chinese provinces, finding low alpha diversity, CST stability, and geographic variation in Lactobacillus crispatus prevalence.

EnteroBase in 2025: exploring the genomic epidemiology of bacterial pathogens

The paper updates the EnteroBase platform with new data and tools for genomic epidemiology of bacterial pathogens, including antimicrobial resistance detection and visualization features.

HierCC: A multi-level clustering scheme for population assignments based on core genome MLST

HierCC assigns genomes to hierarchical population structures using core genome MLST, enabling scalable and incremental clustering.

Accurate reconstruction of bacterial pan- and core- genomes with PEPPAN

PEPPAN reconstructs bacterial pan- and core-genomes with high accuracy and speed, outperforming existing methods in a case study of Streptococcus genomes.

Metagenomics of the modern and historical human oral microbiome with phylogenetic studies on Streptococcus mutans and Streptococcus sobrinus

The paper analyzes the oral microbiome of historical and modern humans using metagenomics, revealing microbial diversity and changes in caries-associated species over time.

GrapeTree: Visualization of core genomic relationships among 100,000 bacterial pathogens

GrapeTree visualizes genomic relationships among 100,000 bacterial pathogens using a minimum spanning tree algorithm and interactive layouts.

Accurate Reconstruction of Microbial Strains from Metagenomic Sequencing Using Representative Reference Genomes

SPARSE improves taxonomic classification of metagenomic reads by reducing false positives and enhancing sensitivity for low-abundance species detection.