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This study investigated the structure, functional activity, and environmental drivers of three ammonia-oxidizing microbial communities in sediments with different emergent macrophytes (Phragmites australis, Typha orientalis, and Thalia dealbata) in Meixi Lake, Changsha.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Methods and results<\/jats:title>\n                    <jats:p>Metagenomic sequencing, quantitative PCR (qPCR), potential nitrification rate, and N2O yield were integrated to reveal the influence of riparian vegetation on the structural dynamics and ecological effects of ammonia-oxidizing microorganisms. The results indicated that the emergent macrophytes altered the sediment physicochemical properties, thereby exerting certain selective effects on specific ammonia-oxidizing microbial communities. The microbial community structure was similar in the P. australis and T. orientalis sediments, whereas significantly different in the T. dealbata sediment. Comammox Nitrospira dominated across all sediments, with a maximum absolute abundance of 2.10\u00a0\u00d7\u00a0109 copies g\u22121. Notably, the T. orientalis sediment exhibited the highest comammox-driven potential nitrification rate (1.196\u00a0mg N kg\u207b\u00b9 d\u207b\u00b9), while the T. dealbata sediment showed the highest N2O production rate (3.042\u00a0ng N g\u22121 h\u22121). Environmental factor analysis revealed that organic matter and plant biomass facilitated N2O emissions driven by comammox and ammonia-oxidizing archaea (AOA), respectively. Furthermore, AOA abundance was positively regulated by pH whereas negatively regulated by ammonium nitrogen (NH\u2084\u207a-N).<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Conclusions<\/jats:title>\n                    <jats:p>This study demonstrates that different emergent macrophytes influence the nitrogen transformation processes by modulating the abundance and activity of key microbial communities, providing a scientific basis for optimizing plant configuration in ecological restoration to mitigate greenhouse gas emissions.<\/jats:p>\n                  <\/jats:sec>","DOI":"10.1093\/jambio\/lxag178","type":"journal-article","created":{"date-parts":[[2026,7,16]],"date-time":"2026-07-16T11:43:32Z","timestamp":1784202212000},"source":"Crossref","is-referenced-by-count":0,"title":["Emergent macrophytes specifically regulate ammonia-oxidizing microbial communities and functions: comammox dominance and N2O emission effects"],"prefix":"10.1093","volume":"137","author":[{"given":"Qinghua","family":"Zhang","sequence":"first","affiliation":[{"name":"Laboratory of Eco-Environmental Engineering Research, Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtze River), Huazhong Agricultural University , Wuhan 430070 ,","place":["China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zhixin","family":"Niu","sequence":"additional","affiliation":[{"name":"Key Laboratory of Ecological Restoration of Regional Contaminated Environment, Ministry of Education , Shenyang 110044 ,","place":["China"]},{"name":"College of Environment of Shenyang University , Shenyang 110044 ,","place":["China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jianzhao","family":"Li","sequence":"additional","affiliation":[{"name":"Social Affairs and Peace Construction Office of Gufu Town Government , Xingshan County, Xingshan, 443700 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