Dataset: CTD profile data from R/V Atlantis cruise AT50-08 in the ETNP oxygen minimum zone

Seawater samples (10 × 100 L) were collected during R/V Atlantis cruise AT50-08 (Feb–Mar 2023) at two stations in the Oxygen Minimum Zone of the Eastern Tropical North Pacific (10–600 m depth). Samples were collected by CTD rosette, pre-filtered through 0.22 µm filters to remove cells and debris, and concentrated ~500× by tangential flow filtration (100 kDa cutoff).

The resulting concentrates contained both viruses and extracellular vesicles (EVs). EVs were enriched on board using a lectin-based binding column. Transmission electron microscopy (JEOL JEM 1400, Stony Brook University CryoEM facility) confirmed EV enrichment after column purification.

Subsequent EV analyses were performed at the University of Pennsylvania School of Veterinary Medicine EV Core Facility. Methods included size-based separation (SEC-HPLC, gravity-driven iZon column, density-gradient ultracentrifugation), particle quantification (resistive pulse sensing, nCS1; nanoparticle tracking analysis, NTA), and immunophenotyping (nanoscale flow cytometry; ExoView™ chip array). See related datasets.