The clearance rates of co-occurring appendicularian species, Oikopleura longicauda and O. fusiformis, in Kaneohe Bay, Hawaii, were investigated to evaluate and compare their roles in a tropical food web. Individual appendicularians were captured in situ and allowed to feed on the natural plankton assemblage for 60 to 180 min. Feeding rate estimates were based on flow-cytometry analyses of cell-density changes for heterotrophic bacteria (Hbact), Synechococcus spp. (Syn) and <13.0 µm autotrophic eukaryotes (Aeuks). Despite morphological differences, O. longicauda and O. fusiformis cleared the largest prey size-fraction at statistically indistinguishable rates. For the 3 prey categories (Hbact, Syn and Aeuks), mean clearance rates (± 95% CI) were 12 ± 7, 27 ± 6 and 34 ± 18 ml individual (ind.)-1 h -1 and 25 ± 12, 26 ± 15 and 38 ± 20 ml ind. , O. fusiformis can remove an almost equivalent amount (> 50%). Nevertheless, the consistently higher abundances of O. longicauda make this species a more significant link between picoplankton production and higher-level consumers (chaetognaths and fishes) in this coastal tropical embayment.