{"@context":{"@vocab":"https://cir.nii.ac.jp/schema/1.0/","rdfs":"http://www.w3.org/2000/01/rdf-schema#","dc":"http://purl.org/dc/elements/1.1/","dcterms":"http://purl.org/dc/terms/","foaf":"http://xmlns.com/foaf/0.1/","prism":"http://prismstandard.org/namespaces/basic/2.0/","cinii":"http://ci.nii.ac.jp/ns/1.0/","datacite":"https://schema.datacite.org/meta/kernel-4/","ndl":"http://ndl.go.jp/dcndl/terms/","jpcoar":"https://github.com/JPCOAR/schema/blob/master/2.0/"},"@id":"https://cir.nii.ac.jp/crid/1361699996428790912.json","@type":"Article","productIdentifier":[{"identifier":{"@type":"DOI","@value":"10.1128/aem.65.6.2402-2408.1999"}},{"identifier":{"@type":"URI","@value":"https://journals.asm.org/doi/pdf/10.1128/AEM.65.6.2402-2408.1999"}}],"dc:title":[{"@value":"Vertical Distribution of Methanogens in the Anoxic Sediment of Rotsee (Switzerland)"}],"description":[{"type":"abstract","notation":[{"@value":"<jats:title>ABSTRACT</jats:title><jats:p>Anoxic sediments from Rotsee (Switzerland) were analyzed for the presence and diversity of methanogens by using molecular tools and for methanogenic activity by using radiotracer techniques, in addition to the measurement of chemical profiles. After PCR-assisted sequence retrieval of the 16S rRNA genes (16S rDNA) from the anoxic sediment of Rotsee, cloning, and sequencing, a phylogenetic analysis identified two clusters of sequences and four separated clones. The sequences in cluster 1 grouped with those of<jats:italic>Methanosaeta</jats:italic>spp., whereas the sequences in cluster 2 comprised the methanogenic endosymbiont of<jats:italic>Plagiopyla nasuta</jats:italic>. Discriminative oligonucleotide probes were constructed against both clusters and two of the separated clones. These probes were used subsequently for the analysis of indigenous methanogens in a core of the sediment, in addition to domain-specific probes against members of the domains<jats:italic>Bacteria</jats:italic>and<jats:italic>Archaea</jats:italic>and the fluorescent stain 4′,6-diamidino-2-phenylindole (DAPI), by fluorescent in situ hybridization. After DAPI staining, the highest microbial density was obtained in the upper sediment layer; this density decreased with depth from (1.01 ± 0.25) × 10<jats:sup>10</jats:sup>to (2.62 ± 0.58) × 10<jats:sup>10</jats:sup>cells per g of sediment (dry weight). This zone corresponded to that of highest metabolic activity, as indicated by the ammonia, alkalinity, and pH profiles, whereas the methane profile was constant. Probes Eub338 and Arch915 detected on average 16 and 6% of the DAPI-stained cells as members of the domains<jats:italic>Bacteria</jats:italic>and<jats:italic>Archaea</jats:italic>, respectively. Probe Rotcl1 identified on average 4% of the DAPI-stained cells as<jats:italic>Methanosaeta</jats:italic>spp., which were present throughout the whole core. In contrast, probe Rotcl2 identified only 0.7% of the DAPI-stained cells as relatives of the methanogenic endosymbiont of<jats:italic>P. nasuta</jats:italic>, which was present exclusively in the upper 2 cm of the sediment. Probes Rotp13 and Rotp17 did not detect any cells. The spatial distribution of the two methanogenic populations corresponded well to the methane production rates determined by incubation with either [<jats:sup>14</jats:sup>C]acetate or [<jats:sup>14</jats:sup>C]bicarbonate. Methanogenesis from acetate accounted for almost all of the total methane production, which concurs with the predominance of acetoclastic<jats:italic>Methanosaeta</jats:italic>spp. that represented on average 91% of the archaeal population. Significant hydrogenotrophic methanogenesis was found only in the organically enriched upper 2 cm of the sediment, where the probably hydrogenotrophic relatives of the methanogenic endosymbiont of<jats:italic>P. nasuta</jats:italic>, accounting on average for 7% of the archaeal population, were also detected.</jats:p>"}]}],"creator":[{"@id":"https://cir.nii.ac.jp/crid/1380013168791523844","@type":"Researcher","foaf:name":[{"@value":"K. Zepp Falz"}],"jpcoar:affiliationName":[{"@value":"<!--label omitted: 1-->Limnological Research Center, Swiss Federal Institute for Environmental Science and Technology (EAWAG), CH-6047 Kastanienbaum, Switzerland1;"}]},{"@id":"https://cir.nii.ac.jp/crid/1381699996428790912","@type":"Researcher","foaf:name":[{"@value":"C. Holliger"}],"jpcoar:affiliationName":[{"@value":"<!--label omitted: 1-->Limnological Research Center, Swiss Federal Institute for Environmental Science and Technology (EAWAG), CH-6047 Kastanienbaum, Switzerland1;"}]},{"@id":"https://cir.nii.ac.jp/crid/1381699996428791040","@type":"Researcher","foaf:name":[{"@value":"R. Großkopf"}],"jpcoar:affiliationName":[{"@value":"<!--label omitted: 2-->Max-Planck-Institut für Terrestrische Mikrobiologie, D-35043 Marburg/Lahn, Germany2;"}]},{"@id":"https://cir.nii.ac.jp/crid/1381699996428790913","@type":"Researcher","foaf:name":[{"@value":"W. Liesack"}],"jpcoar:affiliationName":[{"@value":"<!--label omitted: 2-->Max-Planck-Institut für Terrestrische Mikrobiologie, D-35043 Marburg/Lahn, Germany2;"}]},{"@id":"https://cir.nii.ac.jp/crid/1381699996428790915","@type":"Researcher","foaf:name":[{"@value":"A. N. Nozhevnikova"}],"jpcoar:affiliationName":[{"@value":"<!--label omitted: 1-->Limnological Research Center, Swiss Federal Institute for Environmental Science and Technology (EAWAG), CH-6047 Kastanienbaum, Switzerland1;"}]},{"@id":"https://cir.nii.ac.jp/crid/1381699996428791041","@type":"Researcher","foaf:name":[{"@value":"B. Müller"}],"jpcoar:affiliationName":[{"@value":"<!--label omitted: 1-->Limnological Research Center, Swiss Federal Institute for Environmental Science and Technology (EAWAG), CH-6047 Kastanienbaum, Switzerland1;"}]},{"@id":"https://cir.nii.ac.jp/crid/1381699996428790916","@type":"Researcher","foaf:name":[{"@value":"B. Wehrli"}],"jpcoar:affiliationName":[{"@value":"<!--label omitted: 1-->Limnological Research Center, Swiss Federal Institute for Environmental Science and Technology (EAWAG), CH-6047 Kastanienbaum, Switzerland1;"}]},{"@id":"https://cir.nii.ac.jp/crid/1381699996428790914","@type":"Researcher","foaf:name":[{"@value":"D. Hahn"}],"jpcoar:affiliationName":[{"@value":"<!--label omitted: 3-->Department of Chemical Engineering, Chemistry and Environmental Sciences, New Jersey Institute of Technology, Newark, New Jersey 071023; and"},{"@value":"<!--label omitted: 4-->Department of Biological Sciences, Rutgers University, Newark, New Jersey 07102-18114"}]}],"publication":{"publicationIdentifier":[{"@type":"PISSN","@value":"00992240"},{"@type":"EISSN","@value":"10985336"},{"@type":"PISSN","@value":"https://id.crossref.org/issn/00992240"}],"prism:publicationName":[{"@value":"Applied and Environmental Microbiology"}],"dc:publisher":[{"@value":"American Society for Microbiology"}],"prism:publicationDate":"1999-06","prism:volume":"65","prism:number":"6","prism:startingPage":"2402","prism:endingPage":"2408"},"reviewed":"false","dc:rights":["https://journals.asm.org/non-commercial-tdm-license"],"url":[{"@id":"https://journals.asm.org/doi/pdf/10.1128/AEM.65.6.2402-2408.1999"}],"createdAt":"2019-12-19","modifiedAt":"2022-10-09","relatedProduct":[{"@id":"https://cir.nii.ac.jp/crid/1360566395359788928","@type":"Article","relationType":["isReferencedBy"],"jpcoar:relatedTitle":[{"@value":"Metatranscriptomic insights into microbial consortia driving methane metabolism in paddy soils"}]},{"@id":"https://cir.nii.ac.jp/crid/1390001204345243520","@type":"Article","relationType":["isReferencedBy"],"jpcoar:relatedTitle":[{"@language":"en","@value":"Methanogenesis as an Important Terminal Electron Accepting Process in Estuarine Sediment at the Mouth of Orikasa River"}]},{"@id":"https://cir.nii.ac.jp/crid/1390301474385701376","@type":"Article","resourceType":"学術雑誌論文(journal article)","relationType":["isReferencedBy"],"jpcoar:relatedTitle":[{"@language":"en","@value":"Ferrihydrite Addition Activated <i>Geobacteraceae</i>, the Most Abundant Iron-reducing Diazotrophs, and Suppressed Methanogenesis by Heterogeneous Methanogens in Xylan-amended Paddy Soil Microcosms"},{"@value":"Ferrihydrite Addition Activated Geobacteraceae, the Most Abundant Iron-reducing Diazotrophs, and Suppressed Methanogenesis by Heterogeneous Methanogens in Xylan-amended Paddy Soil Microcosms"}]},{"@id":"https://cir.nii.ac.jp/crid/2051151842060379776","@type":"Article","resourceType":"学術雑誌論文(journal article)","relationType":["isReferencedBy"],"jpcoar:relatedTitle":[{"@value":"Detection of planktonic coenzyme factor 430 in a freshwater lake : small-scale analysis for probing archaeal methanogenesis"}]}],"dataSourceIdentifier":[{"@type":"CROSSREF","@value":"10.1128/aem.65.6.2402-2408.1999"},{"@type":"CROSSREF","@value":"10.1186/s40645-021-00450-7_references_DOI_BUHEHzQ8bbFl9Afkrz8VTIIk2GG"},{"@type":"CROSSREF","@value":"10.1080/00380768.2018.1457409_references_DOI_Gc6DFF4aMMZMkzSf3ozhod2tKUu"},{"@type":"CROSSREF","@value":"10.1264/jsme2.me24028_references_DOI_Gc6DFF4aMMZMkzSf3ozhod2tKUu"},{"@type":"CROSSREF","@value":"10.1264/jsme2.20.41_references_DOI_Gc6DFF4aMMZMkzSf3ozhod2tKUu"}]}