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PMID: 20870784 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

Cultivation of autotrophic ammonia-oxidizing archaea from marine sediments in coculture with sulfur-oxidizing bacteria.

Applied and environmental microbiology ·Vol. 76 ·No. 22 ·2010-11-00 ·Pages 7575-87

Park BJ, Park SJ, Yoon DN, Schouten S, Sinninghe Damsté JS, Rhee SK

Abstract

The role of ammonia-oxidizing archaea (AOA) in nitrogen cycling in marine sediments remains poorly characterized. In this study, we enriched and characterized AOA from marine sediments. Group I.1a crenarchaea closely related to those identified in marine sediments and "Candidatus Nitrosopumilus maritimus" (99.1 and 94.9% 16S rRNA and amoA gene sequence identities to the latter, respectively) were substantially enriched by coculture with sulfur-oxidizing bacteria (SOB). The selective enrichment of AOA over ammonia-oxidizing bacteria (AOB) is likely due to the reduced oxygen levels caused by the rapid initial growth of SOB. After biweekly transfers for ca. 20 months, archaeal cells became the dominant prokaryotes (>80%), based on quantitative PCR and fluorescence in situ hybridization analysis. The increase of archaeal 16S rRNA gene copy numbers was coincident with the amount of ammonia oxidized, and expression of the archaeal amoA gene was observed during ammonia oxidation. Bacterial amoA genes were not detected in the enrichment culture. The affinities of these AOA to oxygen and ammonia were substantially higher than those of AOB. [(13)C]bicarbonate incorporation and the presence and activation of genes of the 3-hydroxypropionate/4-hydroxybutyrate cycle indicated autotrophy during ammonia oxidation. In the enrichment culture, ammonium was oxidized to nitrite by the AOA and subsequently to nitrate by Nitrospina-like bacteria. Our experiments suggest that AOA may be important nitrifiers in low-oxygen environments, such as oxygen-minimum zones and marine sediments.

MeSH Terms
Ammonia/metabolism Archaea/classification,growth & development,isolation & purification,metabolism Bacteria/classification,growth & development,isolation & purification,metabolism Cluster Analysis Coculture Techniques DNA, Archaeal/chemistry,genetics DNA, Bacterial/chemistry,genetics DNA, Ribosomal/chemistry,genetics DNA, Ribosomal Spacer/chemistry,genetics Genes, rRNA Geologic Sediments/microbiology Molecular Sequence Data Oxidation-Reduction Phylogeny RNA, Archaeal/genetics RNA, Bacterial/genetics RNA, Ribosomal, 16S/genetics Sequence Analysis, DNA Sequence Homology, Nucleic Acid Sulfur/metabolism
Chemicals
DNA, Archaeal DNA, Bacterial DNA, Ribosomal DNA, Ribosomal Spacer RNA, Archaeal RNA, Bacterial RNA, Ribosomal, 16S Sulfur Ammonia
Authors & Affiliations
6 authors, click to expand affiliations / ORCID
Park Byoung-Joon
Department of Microbiology, Chungbuk National University, Heungduk-gu, Cheongju 361-763, South Korea.
Park Soo-Je
Yoon Dae-No
Schouten Stefan
Sinninghe Damsté Jaap S
Rhee Sung-Keun
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Article Info
Journal
Applied and environmental microbiology
Abbr.
Appl Environ Microbiol
ISSN
1098-5336
DOI
10.1128/AEM.01478-10
Published
2010-11-00
Epub
2010-00-24
Pages
7575-87
Language
English
Region
United States
NLM ID
7605801
PMCID
PMC2976178
Subset
IM
Databases
GENBANK
FJ656473, FJ656505, FJ656506, FJ656507, FJ656508, FJ656509, FJ656510, FJ656511, FJ656512, FJ656513, FJ656514, FJ656515, FJ656516, FJ656517, FJ656518, FJ656519, FJ656520, FJ656521, FJ656522, FJ656523, FJ656524, FJ656525, FJ656526, FJ656527, FJ656528, FJ656529, FJ656530, FJ656531, FJ656532, FJ656533, FJ656534, FJ656535, FJ656536, FJ656537, FJ656538, FJ656539, FJ656540, FJ656541, FJ656542, FJ656543, FJ656544, FJ656545, FJ656546, FJ656547, FJ656548, FJ656549, FJ656550, FJ656551, FJ656552, FJ656553, FJ656554, FJ656555, FJ656556, FJ656557, FJ656558, FJ656559, FJ656560, FJ656561, FJ656562, FJ656563, FJ656564, FJ656565, FJ656566, FJ656567, FJ656568, FJ656569, FJ656570, FJ656571, FJ656572, FJ656573, FJ656574, FJ656575, FJ656576, FJ656577, FJ656578, FJ656579, FJ656580, FJ656581, FJ656582, FJ656583, FJ656584, FJ656585, FJ656586, FJ656587, FJ656588, FJ656589, FJ656590, FJ656591, FJ656592, FJ656593, FJ656594, FJ656595, FJ656596, FJ656597, FJ656598, FJ656599, FJ656600, FJ656601, FJ656602, FJ656603, FJ656604, FJ656605, FJ656606, FJ656607, FJ656608, FJ656609, FJ656610, FJ656611, FJ656612, FJ656613, FJ656614, FJ656615, FJ656616, FJ656617, FJ656618, FJ656619, FJ656620, FJ656621, FJ656622, FJ656623, FJ656624, FJ656625, FJ656626, FJ656627, FJ656628, FJ656629, FJ656630, FJ656631, FJ656632, FJ656633, FJ656634, FJ656635, FJ656636, FJ656637, FJ656638, FJ656639, FJ656640, FJ656641, FJ656642, FJ656643, FJ656644, FJ656645, FJ656646, FJ656647, FJ656648, FJ656649, FJ656650, FJ656651, FJ656652, FJ656653, FJ656654, FJ656655, FJ656656, FJ656657, FJ656658, FJ656659, FJ656660, FJ656661, FJ656662, FJ656663, FJ656664, FJ656665, FJ656666, FJ656667, FJ656668, FJ656669, FJ656670, FJ656671, FJ656672, FJ656673, FJ656674, FJ656675, FJ656676, FJ656677, FJ656678, FJ656679, FJ656680, FJ656681, FJ656682, FJ656683, FJ656684, FJ656685, FJ656686, FJ656687, FJ656688, FJ656689, FJ656690, FJ656691, FJ656692, FJ656693, FJ656694, FJ656695, FJ656696, FJ656697, FJ656698, FJ656699, FJ656700, FJ656701, FJ656702, FJ656703, FJ656704, FJ971108, FJ971126
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PubMed source DOI: 10.1128/AEM.01478-10 PMC Full Text View journal details
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