The O91- Mesozooplankton dataset is based on samples collected in mid October-mid November 1991 at 20 stations in the South Aegean, the SE.Ionian Sea and in NW Levantine. Samples were collected at discrete layers (from the surface till 300m. These data are published. Sampling volume was estimated by multiplying the mouth area with the wire length. The entire sample (for deep layers) or aliquot of Taxon-specific mesozooplankton abundance (1/4) (for the upper layer) was analyzed under the binocular microscope. Copepod and cladoceran species were identified and enumerated; the other zooplankters were identified and enumerated at higher taxonomic level (commonly named as zooplankton groups). Taxonomic identification was done by I.Siokou-Frangou, E.Christou, and N.Fragopoulu, using the relevant taxonomic literature. The entire sample (for deep layers) or aliquot of Mesozooplankton total abundance (1/4) (for the upper layer) was analyzed under the binocular microscope. All zooplankters were enumerated.