Yosuke Nishimura

The paper identifies a novel dominant symbiont in deep-sea holothurians, characterizes its genome and spatial distribution, and explores its evolutionary adaptations at the host interface.

VicMAG visualizes circular metagenome-assembled genomes to highlight virulence and antimicrobial resistance genes in bacterial communities.

The paper identifies deep-sea-specific giant viruses with persistent activity and characterizes their unique gene functions adapted to aphotic environments.

The paper shows carotenoids enhance rhodopsin light utilization by accelerating photocycles and light-harvesting in marine bacteria.

The paper identifies a new family of Obelisk-like cccRNAs in hot springs using FLDS, expanding the Obelisk superfamily with structurally similar but sequence-divergent proteins.

The paper identifies a new family of marine bacteriophages with double-stranded RNA genomes, named Paraxenoviridae, based on genomic and structural analyses.

The paper constructs a phylogeny of bacterial plasmids based on replication initiation proteins, revealing new clades and diversity not captured by existing methods.