Niche differentiation of ammonia and nitrite oxidizers along a salinity gradient from the Pearl River estuary to the South China Sea
Abstract. The niche differentiation between ammonia and nitrite oxidizers are controversial because they display disparate patterns in estuarine, coastal, and oceanic regimes. We analyzed ammonia-oxidizing archaea (AOA) and β-proteobacteria (AOB) amoA genes, nitrite-oxidizing bacteria (NOB) nxrB and 16S rRNA genes, and nitrification rates to identify their niche differentiation along a salinity gradient from the Pearl River estuary to the South China Sea. The archaeal amoA genes were generally more abundant than the β-AOB amoA genes; however, AOB more clearly attached to particles compared with AOA in the upper reaches of the Pearl River estuary. The NOB Nitrospina had higher abundances in the upper and middle reaches of the Pearl River estuary, while Nitrospina was dominant in the lower estuary. In addition, AOB and Nitrospina could be more active than AOA and Nitrospina since significantly positive correlations were observed between their gene abundance and the nitrification rate in the Pearl River estuary. There is a coupling of ammonia and nitrite oxidizers in the hypoxic waters of the estuary, suggesting metabolic interactions between them. Phylogenetic analysis further revealed that the AOA and NOB Nitrospina subgroups can be separated into different niches based on their adaptations to substrate levels. Water mass mixing is apparently crucial in regulating the distribution of nitrifiers from the estuary to open ocean. However, when eliminating water mass effect, the substrate availability and the nitrifiers’ adaptations to substrate availability via their ecological strategies essentially determine their niche differentiation.