Ling-Dong Shi

The paper identifies three new families of archaeal extrachromosomal elements and shows their relatedness is due to horizontal gene transfer, not common ancestry.

This study identifies microbial cohorts in rice paddies that modulate methane emissions by shifting redox processes over the growing season.

The paper identifies jumbo circular extrachromosomal elements in Methanoperedens archaea, which integrate into chromosomes and carry metabolic and defense genes not found in the host.

The paper identifies and characterizes Borgs and mini-Borgs in Methanoperedens archaea, revealing their evolutionary origins and genomic relationships.

The paper introduces MODIFI, a tool for detecting DNA modifications in metagenomes, and identifies ECE-host linkages in environmental and human samples.

This study shows that transgenic rice genotypes overexpressing PSY genes reduce methane emissions by altering rhizosphere microbial hydrogen cycling through changes in gene activity and metabolic pathways.

The paper analyzes Borg archaeal extrachromosomal elements using in silico methods, revealing features similar to giant eukaryotic viruses, suggesting convergent evolution.

The paper identifies circular 23S rRNA in archaeal ribosomes, showing they are more abundant than linear forms and confirms their structure through sequencing and modeling.

This study identifies mobile genetic elements and defense systems in Asgard archaea, revealing their role in shaping genetic diversity and evolution.