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dc.contributor.authorYang, Y
dc.contributor.authorZhang, C
dc.contributor.authorLenton, TM
dc.contributor.authorYan, X
dc.contributor.authorZhu, M
dc.contributor.authorZhou, M
dc.contributor.authorTao, J
dc.contributor.authorPhelps, TJ
dc.contributor.authorCao, Z
dc.date.accessioned2022-07-28T14:34:35Z
dc.date.issued2021-05-16
dc.date.updated2022-07-28T14:24:18Z
dc.description.abstractPrimordial nitrification processes have been studied extensively using geochemical approaches, but the biological origination of nitrification remains unclear. Ammonia-oxidizing archaea (AOA) are widely distributed nitrifiers and implement the rate-limiting step in nitrification. They are hypothesized to have been important players in the global nitrogen cycle in Earth's early history. We performed systematic phylogenomic and marker gene analyses to elucidate the diversification timeline of AOA evolution. Our results suggested that the AOA ancestor experienced terrestrial geothermal environments at ∼1,165 Ma (1,928-880 Ma), and gradually evolved into mesophilic soil at ∼652 Ma (767-554 Ma) before diversifying into marine settings at ∼509 Ma (629-412 Ma) and later into shallow and deep oceans, respectively. Corroborated by geochemical evidence and modeling, the timing of key diversification nodes can be linked to the global magmatism and glaciation associated with the assembly and breakup of the supercontinent Rodinia, and the later oxygenation of the deep ocean. Results of this integrated study shed light on the geological forces that may have shaped the evolutionary pathways of the AOA, which played an important role in the ancient global nitrogen cycle.en_GB
dc.description.sponsorshipNational Key R&D Program of Chinaen_GB
dc.description.sponsorshipNational Nature Science Foundation of Chinaen_GB
dc.description.sponsorshipNatural Environment Research Council (NERC)en_GB
dc.description.sponsorshipFundamental Research Funds for the Central Universitiesen_GB
dc.description.sponsorshipShenzhen Key Laboratory of Marine Archaea Geo-Omics, Southern University of Science and Technologyen_GB
dc.description.sponsorshipSouthern Marine Science and Engineering Guangdong Laboratory (Guangzhou)en_GB
dc.format.extent3637-3648
dc.format.mediumPrint
dc.identifier.citationVol. 38(9), pp. 3637-3648en_GB
dc.identifier.doihttps://doi.org/10.1093/molbev/msab129
dc.identifier.grantnumber2017YFC0908400en_GB
dc.identifier.grantnumber2019YFA0905900en_GB
dc.identifier.grantnumber2017YFC1700200en_GB
dc.identifier.grantnumber2016YFA0601101en_GB
dc.identifier.grantnumber2018YFA0605800en_GB
dc.identifier.grantnumber91851210en_GB
dc.identifier.grantnumber41530105en_GB
dc.identifier.grantnumber41661134048en_GB
dc.identifier.grantnumberNE/P01365en_GB
dc.identifier.grantnumber1350219165en_GB
dc.identifier.grantnumberZDSYS201802081843490en_GB
dc.identifier.grantnumberK19313901en_GB
dc.identifier.urihttp://hdl.handle.net/10871/130440
dc.identifierORCID: 0000-0002-6725-7498 (Lenton, Timothy M)
dc.language.isoenen_GB
dc.publisherOxford University Press (OUP)en_GB
dc.relation.urlhttps://www.ncbi.nlm.nih.gov/pubmed/33993308en_GB
dc.relation.urlhttps://github.com/YiyanYang0728/AOA_Evolutionen_GB
dc.relation.urlhttps://www.ncbi.nlm.nih.gov/genbank/en_GB
dc.relation.urlhttps://img.jgi.doe.gov/cgi-bin/m/main.cgien_GB
dc.rights© The Author(s) 2021. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.en_GB
dc.subjectammonia-oxidizing archaeaen_GB
dc.subjectarchaeal evolutionen_GB
dc.subjectnitrificationen_GB
dc.subjectoxygenationen_GB
dc.subjectphylogenomicen_GB
dc.titleThe Evolution Pathway of Ammonia-Oxidizing Archaea Shaped by Major Geological Eventsen_GB
dc.typeArticleen_GB
dc.date.available2022-07-28T14:34:35Z
dc.identifier.issn0737-4038
exeter.place-of-publicationUnited States
dc.descriptionThis is the final version. Available on open access from Oxford University Press via the DOI in this recorden_GB
dc.descriptionData Availability: The data underlying this article are available at https://github.com/YiyanYang0728/AOA_Evolution as well as in the article and in its online supplementary material. The data sets were derived from sources in the public domain: GenBank (https://www.ncbi.nlm.nih.gov/genbank/) and IMG/M (https://img.jgi.doe.gov/cgi-bin/m/main.cgi), as indicated in the Materials and Methods section and supplementary data 1, 2, and 4, Supplementary Material online. The phylogenomic tree and amoA gene tree generated during this study are provided with this article in supplementary data 3 and 5, Supplementary Material online.en_GB
dc.identifier.eissn1537-1719
dc.identifier.journalMolecular Biology and Evolutionen_GB
dc.relation.ispartofMol Biol Evol, 38(9)
dc.rights.urihttps://creativecommons.org/licenses/by/4.0/en_GB
dc.rights.licenseCC BY
rioxxterms.versionVoRen_GB
rioxxterms.licenseref.startdate2021-05-16
rioxxterms.typeJournal Article/Reviewen_GB
refterms.dateFCD2022-07-28T14:29:00Z
refterms.versionFCDVoR
refterms.dateFOA2022-07-28T14:34:36Z
refterms.panelCen_GB
refterms.dateFirstOnline2021-05-16


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© The Author(s) 2021. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution.
This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
Except where otherwise noted, this item's licence is described as © The Author(s) 2021. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.