@article{3b7535c4ebcd4a40a7d1440931dfb992,
title = "Alternative strategies of nutrient acquisition and energy conservation map to the biogeography of marine ammonia-oxidizing archaea",
abstract = "Ammonia-oxidizing archaea (AOA) are among the most abundant and ubiquitous microorganisms in the ocean, exerting primary control on nitrification and nitrogen oxides emission. Although united by a common physiology of chemoautotrophic growth on ammonia, a corresponding high genomic and habitat variability suggests tremendous adaptive capacity. Here, we compared 44 diverse AOA genomes, 37 from species cultivated from samples collected across diverse geographic locations and seven assembled from metagenomic sequences from the mesopelagic to hadopelagic zones of the deep ocean. Comparative analysis identified seven major marine AOA genotypic groups having gene content correlated with their distinctive biogeographies. Phosphorus and ammonia availabilities as well as hydrostatic pressure were identified as selective forces driving marine AOA genotypic and gene content variability in different oceanic regions. Notably, AOA methylphosphonate biosynthetic genes span diverse oceanic provinces, reinforcing their importance for methane production in the ocean. Together, our combined comparative physiological, genomic, and metagenomic analyses provide a comprehensive view of the biogeography of globally abundant AOA and their adaptive radiation into a vast range of marine and terrestrial habitats.",
author = "Wei Qin and Yue Zheng and Feng Zhao and Yulin Wang and Hidetoshi Urakawa and Willm Martens-Habbena and Haodong Liu and Xiaowu Huang and Xinxu Zhang and Tatsunori Nakagawa and Mende, {Daniel R.} and Annette Bollmann and Baozhan Wang and Yao Zhang and Amin, {Shady A.} and Nielsen, {Jeppe L.} and Koji Mori and Reiji Takahashi and {Virginia Armbrust}, E. and Winkler, {Mari K.H.} and DeLong, {Edward F.} and Meng Li and Lee, {Po Heng} and Jizhong Zhou and Chuanlun Zhang and Tong Zhang and Stahl, {David A.} and Ingalls, {Anitra E.}",
note = "Funding Information: Acknowledgements We thank Anthony Bertagnolli, Xiaohua Zhang, and Yanfen Zheng for technical assistance. Jiwei Tian and the crew and scientist party of the R/V Dong Fanghong #2 are thanked for providing the cruise opportunity in which the Mariana Trench F8-1 and F8-2 samples were obtained. This work was supported by the National Natural Science Foundation of China grants 21777155 and 21322703 (to FZ), 41530105 and 91851210 (to CZ), 41907027 (to YZ), U1805242 (to YZ), USA National Science Foundation grants OCE-1046017 and DEB-1664052, and Simons Foundation grants (SCOPE Award ID 329108 to AEI). WQ was supported by Simons Postdoctoral Fellowship in Marine Microbial Ecology (548565). WMH was supported by Florida Agricultural Experiment Station (Hatch project FLA-FTL-005680) and UF IFAS Early Career award (00129069). CZ and HL were also supported by the Shenzhen Key Laboratory of Marine Archaea Geo-Omics, Southern University of Science and Technology (ZDSYS201802081843490). JLN was supported by the Novo Nordisk Foundation (NNF16OC0021818). Publisher Copyright: {\textcopyright} 2020, The Author(s).",
year = "2020",
month = oct,
day = "1",
doi = "10.1038/s41396-020-0710-7",
language = "English (US)",
volume = "14",
pages = "2595--2609",
journal = "ISME Journal",
issn = "1751-7362",
publisher = "Nature Publishing Group",
number = "10",
}