A Genome-Resolved Metagenomic Atlas of Pacific Deep-Sea Polymetallic Nodules and Associated Sediments

This Data Descriptor presents a genome-resolved metagenomic dataset from deep-sea sediments and polymetallic nodules collected across multiple Pacific Ocean. The dataset integrates 22 newly generated metagenomes with 24 publicly available datasets, comprising sediment cores spanning vertical depth profiles and polymetallic nodule samples collected at abyssal water depths. Metagenomic assembly and gene prediction produced over 147 million protein-coding sequences, which were clustered into a non-redundant gene catalog of more than 65 million representative genes with multi-database functional and taxonomic annotations. Genome binning and dereplication yielded 1,680 species-level metagenome-assembled genomes spanning diverse bacterial and archaeal lineages. Together, the non-redundant gene catalog and MAG collection provide a reference resource for comparative genomics, functional annotation, and ecological analyses of microbial communities associated with deep-sea nodule-bearing environments, and support future studies on microbial diversity, metabolic potential, and environmental assessments in abyssal ecosystems.