The rare earth elements and yttrium (REY) in bioapatite from deep-sea sediments are potential proxies for reconstructing paleoenvironmental conditions. However, the REY enrichment mechanism and the reliability of this tracer remain elusive because of the lack of key information from ambient pore water. Here, we report high-resolution geochemical data for pore water, bottom water, and bioapatite from deep-sea sites in the western Pacific. Our results reveal that the benthic flux of REY from the deep sea is less substantial than from the shallow marine realm, resulting in REY-rich sediment. The depth distribution of REY in pore water is opposite to that of bioapatite, and REY patterns and neodymium isotopic compositions are not uniformly distributed within bioapatite. These results indicate alteration of REY and neodymium isotopic compositions during early diagenesis. Therefore, we infer that REY from bioapatite are not robust recorders of the deep marine environment through Earth’s history.

Oxygenated deep-sea pelagic sediments with Fe-Mn–oxide particles represent a key oceanic oxic sink for transition metals in the modern ocean. However, the isotopic composition of authigenic Zn in the pelagic zone remains poorly constrained, which hampers our understanding of the global budget of Zn isotopes. Here, we analyzed the Zn isotopic compositions of two deep-sea pelagic sediment columns collected from the Pacific Ocean. The results show that authigenic Zn in deep-sea sediments is primarily hosted by the Fe-Mn (oxyhydr)oxides. The light Zn isotopic signatures (δ66Zn: −0.02‰ to 0.34‰, n = 42; computed as the per mille deviation of the 66Zn/64Zn ratio from the JMC-Lyon standard) observed in deep-sea sediments are completely different from the previously assumed values of ~1.0‰ based on the Zn isotopic compositions of Fe-Mn crusts and nodules. Based on this observation (Zn flux of deep-sea sediments = 5.3 × 108 mol yr–1), we propose a new, balanced global budget for Zn isotopes.