Molecular and isotopic evidence of the distribution of nitrogen-cycling microbial communities in the oxygen minimum zone of the Tropical Mexican Pacific

Microbial communities play a central role in the N cycle of oceanic oxygen minimum zones (OMZs), such as in the Eastern Tropical North Pacific (ETNP). We explored the spatial distribution of the genetic potential for ammonia oxidation (amoA gene for bacteria and archaea), denitrification (nirS and nirK), anammox (hzo) and DNRA (nrfA) and their relationships with the hydrological variables and isotopic composition of nitrate in the ETNP off Mexico. Oxygen concentration, the availability of N chemical forms and the upwelling shaped the distribution of N cycling genes along the water column. The high abundance of N genes and the isotopic composition of nitrate suggest the N cycling is very dynamic in the OMZ core. The accumulation of nitrite, the high abundance of archaeal amoA genes, and the deviation of the N and O isotopes of nitrate from the expected 1:1 ratio for nitrate reduction in the upper portion of this OMZ indicate that nitrification is a relevant process that fuels the denitrifier community. Conversely, the high abundances of nitrate, ammonium, and nrfA genes in the deeper layer indicate that DNRA is a crucial process enhancing anammox there. These results show the need for more detailed studies of the N processes in OMZs.