Background: For the present study, we collected mesozooplankton in the upper layer (above 100 m in depth) of four stations in the northern South China Sea (SCS) to determine the influence of different water masses on their distribution and abundance from 27 September to 2 October 1999. Results: In total, 18 major zooplankton taxa were recovered from the samples. Calanoid copepods, Noctilucales, and chaetognaths were dominant and together comprised 65.90% of the overall zooplankton counts. Zooplankton densities ranged from 102.19 to 1,285.24 individuals per cubic meters (ind./m