The Black Sea is a unique brackish basin, largely isolated from the global ocean, and characterized by an extensive drainage basin, strong vertical stratification, variable salinity (from 0.7 to 1.8 in epipelagic to ca. 2-2.2 % in mesopelagic waters) and high concentrations of hydrogen sulfide content below 150-200 m. These conditions confine aerobic biological activity to the upper 100-150 m of the water column, whilst the water mass below these depths has been considered inhospitable and restricted to anaerobic microbes. This project describes metagenomic datasets and Metagenome Assembled Genomes (MAGs) from 4 different depths: 5, 30, 150 and 750 m. Samples were collected in October 2019 and were filtered through a series of 20 and 0.22 micron filters. Sterivex 0.22 micron filters were sequenced with Shotgun sequencing.