Cd, 18.7 µg g −1 ; and Pb, 6.55 µg g −1 ) were found to be higher of comparable magnitudes than the Arabian Sea zooplankton (Fe, 1786 µg g −1 ; Co, 14.2 µg g −1 ; Ni, 18.6 µg g −1 ; Cu, 21.5 µg g −1 ; Zn, 374 µg g −1 ; Cd, 16.5 µg g −1 ; and Pb, 4.0 µg g −1 ). The spatial variability of metal contents in zooplankton from both basins indicates that it is markedly enriched in coastal samples than offshore samples. The metal enrichment in zooplankton from the coastal areas of the eastern Arabian Sea occurs due to a combined effect of upwelling, riverine, and anthropogenic sources, whereas the latter two are only dominating in the coastal Bay of Bengal zooplankton. A comparison of average trace metal concentrations in the zooplankton from the Arabian Sea and Bay of Bengal showed that the enrichment of Fe, Zn, Cd, Ni, Cu, and Pb in the Bay of Bengal zooplankton may be due to high bioaccumulation factor of these elements, whereas the slight Co enrichment may be due to the bioavailability of this metal in the seawater.