{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,5]],"date-time":"2026-10-05T18:15:26Z","timestamp":1791224126675,"version":"4.1.0"},"reference-count":67,"publisher":"American Society for Microbiology","issue":"16","license":[{"start":{"date-parts":[[2012,8,15]],"date-time":"2012-08-15T00:00:00Z","timestamp":1344988800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/journals.asm.org\/non-commercial-tdm-license"}],"content-domain":{"domain":["journals.asm.org"],"crossmark-restriction":true},"short-container-title":["Appl Environ Microbiol"],"published-print":{"date-parts":[[2012,8,15]]},"abstract":"<jats:title>ABSTRACT<\/jats:title>\n                  <jats:p>\n                    Aerobic biological ammonia oxidation is carried out by two groups of microorganisms, ammonia-oxidizing bacteria (AOB) and the recently discovered ammonia-oxidizing archaea (AOA). Here we present a study using cultivation-based methods to investigate the differences in growth of three AOA cultures and one AOB culture enriched from freshwater environments. The strain in the enriched AOA culture belong to thaumarchaeal group I.1a, with the strain in one enrichment culture having the highest identity with \u201c\n                    <jats:named-content content-type=\"genus-species\">Candidatus<\/jats:named-content>\n                    Nitrosoarchaeum koreensis\u201d and the strains in the other two representing a new genus of AOA. The AOB strain in the enrichment culture was also obtained from freshwater and had the highest identity to AOB from the\n                    <jats:named-content content-type=\"genus-species\">Nitrosomonas oligotropha<\/jats:named-content>\n                    group (\n                    <jats:named-content content-type=\"genus-species\">Nitrosomonas<\/jats:named-content>\n                    cluster 6a). We investigated the influence of ammonium, oxygen, pH, and light on the growth of AOA and AOB. The growth rates of the AOB increased with increasing ammonium concentrations, while the growth rates of the AOA decreased slightly. Increasing oxygen concentrations led to an increase in the growth rate of the AOB, while the growth rates of AOA were almost oxygen insensitive. Light exposure (white and blue wavelengths) inhibited the growth of AOA completely, and the AOA did not recover when transferred to the dark. AOB were also inhibited by blue light; however, growth recovered immediately after transfer to the dark. Our results show that the tested AOB have a competitive advantage over the tested AOA under most conditions investigated. Further experiments will elucidate the niches of AOA and AOB in more detail.\n                  <\/jats:p>","DOI":"10.1128\/aem.00432-12","type":"journal-article","created":{"date-parts":[[2012,6,8]],"date-time":"2012-06-08T23:59:21Z","timestamp":1339199961000},"page":"5773-5780","update-policy":"https:\/\/doi.org\/10.1128\/asmj-crossmark-policy-page","source":"Crossref","is-referenced-by-count":182,"title":["Ecophysiological Characterization of Ammonia-Oxidizing Archaea and Bacteria from Freshwater"],"prefix":"10.1128","volume":"78","author":[{"given":"Elizabeth","family":"French","sequence":"first","affiliation":[{"name":"Miami University, Department of Microbiology, Oxford, Ohio, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jessica A.","family":"Kozlowski","sequence":"additional","affiliation":[{"name":"Miami University, Department of Microbiology, Oxford, Ohio, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Maitreyee","family":"Mukherjee","sequence":"additional","affiliation":[{"name":"Bowling Green State University, Department of Biological Sciences, Bowling Green, Ohio, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"George","family":"Bullerjahn","sequence":"additional","affiliation":[{"name":"Bowling Green State University, Department of Biological Sciences, Bowling Green, Ohio, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Annette","family":"Bollmann","sequence":"additional","affiliation":[{"name":"Miami University, Department of Microbiology, Oxford, Ohio, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"235","reference":[{"key":"e_1_3_3_2_2","doi-asserted-by":"publisher","DOI":"10.1007\/s00203-002-0452-0"},{"key":"e_1_3_3_3_2","first-page":"53","volume-title":"Molecular microbial ecology manual","author":"Bateson MM","year":"2008","unstructured":"BatesonMM WardDM. 2008. Methods for extracting DNA from microbial mats and cultivated micro-organisms: high molecular weight DNA from French press lysis, p 53\u201360. In KowalchukGA de BruijnFJ HeadIM AkkermansADL van ElsasJD (ed), Molecular microbial ecology manual, vol 1. 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PHYLIP (Phylogenetic Inference Package), version 3.6. Department of Genome Science, University of Washington, Seattle, WA."},{"key":"e_1_3_3_18_2","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.0506625102"},{"key":"e_1_3_3_19_2","doi-asserted-by":"publisher","DOI":"10.1111\/j.1747-0765.2010.00449.x"},{"key":"e_1_3_3_20_2","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.01787-07"},{"key":"e_1_3_3_21_2","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.0708857105"},{"key":"e_1_3_3_22_2","doi-asserted-by":"publisher","DOI":"10.1111\/j.1462-2920.2007.01358.x"},{"key":"e_1_3_3_23_2","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.02806-08"},{"key":"e_1_3_3_24_2","doi-asserted-by":"publisher","DOI":"10.1128\/jb.119.3.899-906.1974"},{"key":"e_1_3_3_25_2","doi-asserted-by":"publisher","DOI":"10.1111\/j.1462-2920.2009.01891.x"},{"key":"e_1_3_3_26_2","doi-asserted-by":"publisher","DOI":"10.1139\/m88-237"},{"key":"e_1_3_3_27_2","doi-asserted-by":"publisher","DOI":"10.3354\/meps026175"},{"key":"e_1_3_3_28_2","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.05787-11"},{"key":"e_1_3_3_29_2","doi-asserted-by":"publisher","DOI":"10.1007\/BF00257924"},{"key":"e_1_3_3_30_2","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.00463-06"},{"key":"e_1_3_3_31_2","doi-asserted-by":"publisher","DOI":"10.1038\/nature03911"},{"key":"e_1_3_3_32_2","doi-asserted-by":"publisher","DOI":"10.1111\/j.1574-6941.2001.tb00847.x"},{"key":"e_1_3_3_33_2","first-page":"778","volume-title":"The prokaryotes 5.","author":"Koops HP","year":"2007","unstructured":"KoopsHP PurkholdU Pommerening-R\u00f6serA TimmermannG WagnerM. 2007. The lithoautotrophic ammonia-oxidizing bacteria, p 778\u2013811. In DworkinM FalkowS RosenbergE SchleiferK-H StackebrandtE (ed), The prokaryotes 5. Springer, New York, NY."},{"key":"e_1_3_3_34_2","doi-asserted-by":"publisher","DOI":"10.1146\/annurev.micro.55.1.485"},{"key":"e_1_3_3_35_2","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.1107196108"},{"key":"e_1_3_3_36_2","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkh293"},{"key":"e_1_3_3_37_2","doi-asserted-by":"publisher","DOI":"10.1038\/nature08465"},{"key":"e_1_3_3_38_2","doi-asserted-by":"publisher","DOI":"10.1111\/j.1574-6968.2011.02457.x"},{"key":"e_1_3_3_39_2","doi-asserted-by":"publisher","DOI":"10.1111\/j.1462-2920.2008.01764.x"},{"key":"e_1_3_3_40_2","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.1106427108"},{"key":"e_1_3_3_41_2","doi-asserted-by":"publisher","DOI":"10.1111\/j.1462-2920.2008.01701.x"},{"key":"e_1_3_3_42_2","doi-asserted-by":"publisher","DOI":"10.1111\/j.1365-2427.2004.01316.x"},{"key":"e_1_3_3_43_2","doi-asserted-by":"publisher","DOI":"10.1111\/j.1574-6941.2009.00725.x"},{"key":"e_1_3_3_44_2","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.01478-10"},{"key":"e_1_3_3_45_2","doi-asserted-by":"publisher","DOI":"10.1111\/j.1365-2672.2006.03176.x"},{"key":"e_1_3_3_46_2","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.68.6.3094-3101.2002"},{"key":"e_1_3_3_47_2","doi-asserted-by":"publisher","DOI":"10.1111\/j.1574-6941.2008.00466.x"},{"key":"e_1_3_3_48_2","doi-asserted-by":"publisher","DOI":"10.1111\/j.1462-2920.2010.02205.x"},{"key":"e_1_3_3_49_2","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.69.5.2928-2935.2003"},{"key":"e_1_3_3_50_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.talanta.2007.06.039"},{"key":"e_1_3_3_51_2","doi-asserted-by":"publisher","DOI":"10.1042\/bj2260499"},{"key":"e_1_3_3_52_2","unstructured":"SigeeDC. 2005. Freshwater microbiology: biodiversity and dynamic interactions of microorganisms in the aquatic environment. John Wiley & Sons Chichester Great Britain."},{"key":"e_1_3_3_53_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.tim.2010.06.003"},{"key":"e_1_3_3_54_2","doi-asserted-by":"publisher","DOI":"10.1016\/S0723-2020(98)80040-4"},{"key":"e_1_3_3_55_2","doi-asserted-by":"publisher","DOI":"10.1128\/jb.120.1.556-558.1974"},{"key":"e_1_3_3_56_2","doi-asserted-by":"publisher","DOI":"10.1111\/j.1462-2920.2007.01563.x"},{"key":"e_1_3_3_57_2","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.1013488108"},{"key":"e_1_3_3_58_2","doi-asserted-by":"publisher","DOI":"10.1111\/j.1462-2920.2005.00906.x"},{"key":"e_1_3_3_59_2","first-page":"117","volume-title":"Nitrification.","author":"Urakawa H","year":"2011","unstructured":"UrakawaH Martens-HabbenaW StahlDA. 2011. Physiology and genomics of ammonia-oxidizing archaea, p 117\u2013155. In WardBB ArpDJ KlotzMG (ed), Nitrification. 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