Critical roles of rare species in the anaerobic ammonium oxidizing bacterial community in coastal sediments

Abstract

Anaerobic ammonium oxidation (anammox) plays a critical role in nitrogen loss in estuarine and marine environments. However, the mechanisms underlying the formation and maintenance of the anammox bacterial community remain unclear. This study analyzed the anammox bacterial diversity, community structure, and interspecific relationships in three estuaries along the Chinese coastline —the Changjiang Estuary (CJE), the Oujiang Estuary (OJE), and the Jiulong River Estuary (JLE) — as well as the South China Sea (SCS) to elucidate their community assembly mechanisms. The results indicated that the anammox bacterial community exhibited the highest ammonium concentration as well as the Shannon’s diversity index reflecting both species richness and evenness in the JLE. The lowest Shannon index was observed in the SCS. However, the anammox bacterial species richness was greatest in the CJE. Candidatus Scalindua was the predominant anammox bacteria identified in the coastal sediments, especially in the SCS sediments. Candidatus Brocadia and Candidatus Kuenenia were more abundant in the estuarine sediments, particularly in JLE, than in the SCS. Phylogenetic analysis revealed distinct differentiation among Candidatus Scalindua, Candidatus Brocadia, and Candidatus Kuenenia, with the former exhibiting a greater level of diversity. There was significant spatial heterogeneity in the anammox bacteria across the four regions, characterized by distinct distribution patterns for rare species. Low-abundance (rare) bacteria thrived in their native habitats, whereas abundant taxa displayed greater dispersal capabilities. An analysis of the community assembly mechanism suggested that ecological drift predominantly shaped the overall anammox bacterial community in the coastal sediments. Rare species were more susceptible to dispersal limitations and environmental selection. Co-occurrence network analysis identified Candidatus Scalindua as a keystone genus and highlighted that rare species may play a crucial role in maintaining the ecological stability of the anammox bacterial community in coastal sediments.

Special Topic: Ecology & Environmental Biology.

The online version contains supplementary material available at https://doi.org/10.1007/s42995-025-00315-8.

Keywords

Anammox bacteria / Community structure / Community assembly / Co-occurrence network / Rare species

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