Epiphyton as a Niche for Ammonia-Oxidizing Bacteria: Detailed Comparison with Benthic and Pelagic Compartments in Shallow Freshwater Lakes
Next to the benthic and pelagic compartments, the epiphyton of submerged macrophytes may offer an additional niche for ammonia-oxidizing bacteria in shallow freshwater lakes. In this study, we explored the potential activities and community compositions of ammonia-oxidizing bacteria of the epiphytic...
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| Veröffentlicht in: | Applied and Environmental Microbiology 2008-04, Vol.74 (7), p.1963-1971 |
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| container_end_page | 1971 |
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| container_issue | 7 |
| container_start_page | 1963 |
| container_title | Applied and Environmental Microbiology |
| container_volume | 74 |
| creator | Coci, M Bodelier, P.L.E Laanbroek, H.J |
| description | Next to the benthic and pelagic compartments, the epiphyton of submerged macrophytes may offer an additional niche for ammonia-oxidizing bacteria in shallow freshwater lakes. In this study, we explored the potential activities and community compositions of ammonia-oxidizing bacteria of the epiphytic, benthic, and pelagic compartments of seven shallow freshwater lakes which differed in their trophic status, distribution of submerged macrophytes, and restoration history. PCR-denaturing gradient gel electrophoresis analyses demonstrated that the epiphytic compartment was inhabited by species belonging to cluster 3 of the Nitrosospira lineage and to the Nitrosomonas oligotropha lineage. Both the ammonia-oxidizing bacterial community compositions and the potential activities differed significantly between compartments. Interestingly, both the ammonia-oxidizing bacterial community composition and potential activity were influenced by the restoration status of the different lakes investigated. |
| doi_str_mv | 10.1128/AEM.00694-07 |
| format | Article |
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In this study, we explored the potential activities and community compositions of ammonia-oxidizing bacteria of the epiphytic, benthic, and pelagic compartments of seven shallow freshwater lakes which differed in their trophic status, distribution of submerged macrophytes, and restoration history. PCR-denaturing gradient gel electrophoresis analyses demonstrated that the epiphytic compartment was inhabited by species belonging to cluster 3 of the Nitrosospira lineage and to the Nitrosomonas oligotropha lineage. Both the ammonia-oxidizing bacterial community compositions and the potential activities differed significantly between compartments. Interestingly, both the ammonia-oxidizing bacterial community composition and potential activity were influenced by the restoration status of the different lakes investigated.</description><identifier>ISSN: 0099-2240</identifier><identifier>EISSN: 1098-5336</identifier><identifier>DOI: 10.1128/AEM.00694-07</identifier><identifier>PMID: 18263748</identifier><identifier>CODEN: AEMIDF</identifier><language>eng</language><publisher>Washington, DC: American Society for Microbiology</publisher><subject>Ammonia ; Ammonia - metabolism ; Bacteria ; Bacteriology ; Biological and medical sciences ; DNA, Bacterial - analysis ; Electrophoresis, Polyacrylamide Gel ; Fresh water ; Fresh Water - microbiology ; Freshwater ; Fundamental and applied biological sciences. Psychology ; Geologic Sediments - microbiology ; Lakes ; Microbial Ecology ; Microbiology ; Molecular Sequence Data ; Nitrosomonas ; Nitrosomonas oligotropha ; Nitrosospira ; Oxidation ; Polymerase Chain Reaction ; Proteobacteria - classification ; Proteobacteria - genetics ; Proteobacteria - growth & development ; Water Microbiology</subject><ispartof>Applied and Environmental Microbiology, 2008-04, Vol.74 (7), p.1963-1971</ispartof><rights>2008 INIST-CNRS</rights><rights>Copyright American Society for Microbiology Apr 2008</rights><rights>Copyright © 2008, American Society for Microbiology</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c520t-e174e824ad678234aaf16ba719ec7fd23bc1eac85c17811a9f4afb560c36e51d3</citedby><cites>FETCH-LOGICAL-c520t-e174e824ad678234aaf16ba719ec7fd23bc1eac85c17811a9f4afb560c36e51d3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC2292612/pdf/$$EPDF$$P50$$Gpubmedcentral$$H</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC2292612/$$EHTML$$P50$$Gpubmedcentral$$H</linktohtml><link.rule.ids>230,314,727,780,784,885,3186,3187,27923,27924,53790,53792</link.rule.ids><backlink>$$Uhttp://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=20245952$$DView record in Pascal Francis$$Hfree_for_read</backlink><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/18263748$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Coci, M</creatorcontrib><creatorcontrib>Bodelier, P.L.E</creatorcontrib><creatorcontrib>Laanbroek, H.J</creatorcontrib><title>Epiphyton as a Niche for Ammonia-Oxidizing Bacteria: Detailed Comparison with Benthic and Pelagic Compartments in Shallow Freshwater Lakes</title><title>Applied and Environmental Microbiology</title><addtitle>Appl Environ Microbiol</addtitle><description>Next to the benthic and pelagic compartments, the epiphyton of submerged macrophytes may offer an additional niche for ammonia-oxidizing bacteria in shallow freshwater lakes. In this study, we explored the potential activities and community compositions of ammonia-oxidizing bacteria of the epiphytic, benthic, and pelagic compartments of seven shallow freshwater lakes which differed in their trophic status, distribution of submerged macrophytes, and restoration history. PCR-denaturing gradient gel electrophoresis analyses demonstrated that the epiphytic compartment was inhabited by species belonging to cluster 3 of the Nitrosospira lineage and to the Nitrosomonas oligotropha lineage. Both the ammonia-oxidizing bacterial community compositions and the potential activities differed significantly between compartments. Interestingly, both the ammonia-oxidizing bacterial community composition and potential activity were influenced by the restoration status of the different lakes investigated.</description><subject>Ammonia</subject><subject>Ammonia - metabolism</subject><subject>Bacteria</subject><subject>Bacteriology</subject><subject>Biological and medical sciences</subject><subject>DNA, Bacterial - analysis</subject><subject>Electrophoresis, Polyacrylamide Gel</subject><subject>Fresh water</subject><subject>Fresh Water - microbiology</subject><subject>Freshwater</subject><subject>Fundamental and applied biological sciences. Psychology</subject><subject>Geologic Sediments - microbiology</subject><subject>Lakes</subject><subject>Microbial Ecology</subject><subject>Microbiology</subject><subject>Molecular Sequence Data</subject><subject>Nitrosomonas</subject><subject>Nitrosomonas oligotropha</subject><subject>Nitrosospira</subject><subject>Oxidation</subject><subject>Polymerase Chain Reaction</subject><subject>Proteobacteria - classification</subject><subject>Proteobacteria - genetics</subject><subject>Proteobacteria - growth & development</subject><subject>Water Microbiology</subject><issn>0099-2240</issn><issn>1098-5336</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2008</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqF0l9v0zAQAPAIgdgYvPEMBgmeyDg7TmzzgNSVDpAKQxp7tq6O03hL4mKnlPER-NS4tBp_Xniypfv5dOe7LHtI4ZhSJl9OZh-OASrFcxC3skMKSuZlUVS3s0MApXLGOBxk92K8BAAOlbybHVDJqkJweZj9mK3cqr0e_UAwEiQfnWktaXwgk773g8P87Jur3Xc3LMkJmtEGh6_IGzui62xNpr5fYXAxPd-4sSUndhhbZwgONflkO1ym-86MfQpF4gZy3mLX-Q05DTa2G0wpyRyvbLyf3Wmwi_bB_jzKLk5nn6fv8vnZ2_fTyTw3JYMxt1RwKxnHuhKSFRyxodUCBVXWiKZmxcJQi0aWhgpJKaqGY7MoKzBFZUtaF0fZ613e1XrR29qkugJ2ehVcj-Fae3T678jgWr30XzVjilWUpQTP9wmC_7K2cdS9i8Z2HQ7Wr6MWwJmUTP4XMgDGJd_Cp__AS78OQ_qFZEolC8VEQi92yAQfY7DNTckU9HYVdFoF_WsVNGz5oz_b_I33s0_g2R5gNNg1AQfj4o1jqbZSldt2n-xc65btxgWrMfYaba8F10JTVRXJPN6ZBr3GZdoIfXHOgBYAMk1BqOInvOPR4g</recordid><startdate>20080401</startdate><enddate>20080401</enddate><creator>Coci, M</creator><creator>Bodelier, P.L.E</creator><creator>Laanbroek, H.J</creator><general>American Society for Microbiology</general><general>American Society for Microbiology (ASM)</general><scope>FBQ</scope><scope>IQODW</scope><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7QL</scope><scope>7QO</scope><scope>7SN</scope><scope>7SS</scope><scope>7ST</scope><scope>7T7</scope><scope>7TM</scope><scope>7U9</scope><scope>8FD</scope><scope>C1K</scope><scope>FR3</scope><scope>H94</scope><scope>M7N</scope><scope>P64</scope><scope>RC3</scope><scope>SOI</scope><scope>7QH</scope><scope>7UA</scope><scope>F1W</scope><scope>H95</scope><scope>L.G</scope><scope>7X8</scope><scope>5PM</scope></search><sort><creationdate>20080401</creationdate><title>Epiphyton as a Niche for Ammonia-Oxidizing Bacteria: Detailed Comparison with Benthic and Pelagic Compartments in Shallow Freshwater Lakes</title><author>Coci, M ; Bodelier, P.L.E ; Laanbroek, H.J</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c520t-e174e824ad678234aaf16ba719ec7fd23bc1eac85c17811a9f4afb560c36e51d3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2008</creationdate><topic>Ammonia</topic><topic>Ammonia - metabolism</topic><topic>Bacteria</topic><topic>Bacteriology</topic><topic>Biological and medical sciences</topic><topic>DNA, Bacterial - analysis</topic><topic>Electrophoresis, Polyacrylamide Gel</topic><topic>Fresh water</topic><topic>Fresh Water - microbiology</topic><topic>Freshwater</topic><topic>Fundamental and applied biological sciences. Psychology</topic><topic>Geologic Sediments - microbiology</topic><topic>Lakes</topic><topic>Microbial Ecology</topic><topic>Microbiology</topic><topic>Molecular Sequence Data</topic><topic>Nitrosomonas</topic><topic>Nitrosomonas oligotropha</topic><topic>Nitrosospira</topic><topic>Oxidation</topic><topic>Polymerase Chain Reaction</topic><topic>Proteobacteria - classification</topic><topic>Proteobacteria - genetics</topic><topic>Proteobacteria - growth & development</topic><topic>Water Microbiology</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Coci, M</creatorcontrib><creatorcontrib>Bodelier, P.L.E</creatorcontrib><creatorcontrib>Laanbroek, H.J</creatorcontrib><collection>AGRIS</collection><collection>Pascal-Francis</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Bacteriology Abstracts (Microbiology B)</collection><collection>Biotechnology Research Abstracts</collection><collection>Ecology Abstracts</collection><collection>Entomology Abstracts (Full archive)</collection><collection>Environment Abstracts</collection><collection>Industrial and Applied Microbiology Abstracts (Microbiology A)</collection><collection>Nucleic Acids Abstracts</collection><collection>Virology and AIDS Abstracts</collection><collection>Technology Research Database</collection><collection>Environmental Sciences and Pollution Management</collection><collection>Engineering Research Database</collection><collection>AIDS and Cancer Research Abstracts</collection><collection>Algology Mycology and Protozoology Abstracts (Microbiology C)</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Genetics Abstracts</collection><collection>Environment Abstracts</collection><collection>Aqualine</collection><collection>Water Resources Abstracts</collection><collection>ASFA: Aquatic Sciences and Fisheries Abstracts</collection><collection>Aquatic Science & Fisheries Abstracts (ASFA) 1: Biological Sciences & Living Resources</collection><collection>Aquatic Science & Fisheries Abstracts (ASFA) Professional</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>Applied and Environmental Microbiology</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Coci, M</au><au>Bodelier, P.L.E</au><au>Laanbroek, H.J</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Epiphyton as a Niche for Ammonia-Oxidizing Bacteria: Detailed Comparison with Benthic and Pelagic Compartments in Shallow Freshwater Lakes</atitle><jtitle>Applied and Environmental Microbiology</jtitle><addtitle>Appl Environ Microbiol</addtitle><date>2008-04-01</date><risdate>2008</risdate><volume>74</volume><issue>7</issue><spage>1963</spage><epage>1971</epage><pages>1963-1971</pages><issn>0099-2240</issn><eissn>1098-5336</eissn><coden>AEMIDF</coden><abstract>Next to the benthic and pelagic compartments, the epiphyton of submerged macrophytes may offer an additional niche for ammonia-oxidizing bacteria in shallow freshwater lakes. In this study, we explored the potential activities and community compositions of ammonia-oxidizing bacteria of the epiphytic, benthic, and pelagic compartments of seven shallow freshwater lakes which differed in their trophic status, distribution of submerged macrophytes, and restoration history. PCR-denaturing gradient gel electrophoresis analyses demonstrated that the epiphytic compartment was inhabited by species belonging to cluster 3 of the Nitrosospira lineage and to the Nitrosomonas oligotropha lineage. Both the ammonia-oxidizing bacterial community compositions and the potential activities differed significantly between compartments. 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| source | American Society for Microbiology; MEDLINE; PubMed Central; Alma/SFX Local Collection |
| subjects | Ammonia Ammonia - metabolism Bacteria Bacteriology Biological and medical sciences DNA, Bacterial - analysis Electrophoresis, Polyacrylamide Gel Fresh water Fresh Water - microbiology Freshwater Fundamental and applied biological sciences. Psychology Geologic Sediments - microbiology Lakes Microbial Ecology Microbiology Molecular Sequence Data Nitrosomonas Nitrosomonas oligotropha Nitrosospira Oxidation Polymerase Chain Reaction Proteobacteria - classification Proteobacteria - genetics Proteobacteria - growth & development Water Microbiology |
| title | Epiphyton as a Niche for Ammonia-Oxidizing Bacteria: Detailed Comparison with Benthic and Pelagic Compartments in Shallow Freshwater Lakes |
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