Xianghui Liu

From gene to structure: Unraveling genomic dark matter in Ca. Accumulibacter

The paper develops a method to annotate genomic dark matter in Ca. Accumulibacter by integrating pangenome analysis, protein structure prediction, and metatranscriptomics, significantly improving gene annotation coverage.

Integrated genomics provides insights for the evolution of the polyphosphate accumulation trait of Ca. Accumulibacter

The paper uses integrated genomic analyses to show that horizontal gene transfer of phoU and ppk2 genes led to Pho dysregulation, enabling phosphorus cycling in Ca. Accumulibacter.

Analysis procedures for assessing recovery of high quality, complete, closed genomes from Nanopore long read metagenome sequencing

The paper describes methods to validate long read assembled genomes using short read metagenome assembled genomes and assesses correction procedures' impact on genome quality, contributing new closed genomes from wastewater bioprocesses.

Improving recovery of member genomes from enrichment reactor microbial communities using MinION--based long read metagenomics

The paper demonstrates that MinION long read sequencing can recover near-complete genomes from low-medium complexity microbial communities.