The Western Antarctic Peninsula (WAP) is experiencing rapid climate warming, resulting in affecting the marine food web. To investigate the microzooplankton spatial distribution and to assess how climate change could affect the tintinnids community, sea water samples were collected during late summer 2018 at 19 stations in three different areas: Deception Island, Elephant Island and Antarctic Sound. The microzooplankton community comprised mainly tintinnids, aloricate ciliates, heterotrophic dinoflagellates and micrometazoans. Microzooplankton abundance varied between 3 and 109 ind. L−1 and biomass ranged from 0.009 to 2.55 μg C L−1. Significant differences in terms of abundance and taxonomic composition of microzooplankton were found among the three sampling areas. Deception Island area showed 44% of tintinnids and the rest were heterotrophic dinoflagellate, aloricate ciliates and micrometazoans. In Elephant Island and Antarctic Sound areas, tintinnids reached, respectively, 73% and 83% of the microzooplankton composition, with all the other groups varying between 20 and 30%. Tintinnids were the most representative group in the area, with the species Codonellopsis balechi, Codonellopsis glacialis, Cymatocylis convallaria and Cymatocylis drygalskii. The highest amounts of tintinnids were found at the surface and 100 m depth. The above mentioned species may be considered key species for the WAP and therefore they can be used to track environmental and hydrographical changes in the area. In late summer, microzooplankton presented low abundances and biomass, nevertheless they represented an important fraction of the planktonic community in the area.