Draft Genome Sequence of an Ammonia-Oxidizing Archaeon, “Candidatus Nitrosopumilus koreensis” AR1, from Marine Sediment
Ammonia-oxidizing archaea (AOA) are ubiquitous in various marine environments and play important roles in the global nitrogen and carbon cycles. We here present a high-quality draft genome sequence of an ammonia-oxidizing archaeon, “Candidatus Nitrosopumilus koreensis” AR1, which was found to domina...
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| Veröffentlicht in: | Journal of Bacteriology 2012-12, Vol.194 (24), p.6940-6941 |
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| container_title | Journal of Bacteriology |
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| creator | Park, Soo-Je Kim, Jong-Geol Jung, Man-Young Kim, So-Jeong Cha, In-Tae Kwon, KaeKyoung Lee, Jung-Hyun Rhee, Sung-Keun |
| description | Ammonia-oxidizing archaea (AOA) are ubiquitous in various marine environments and play important roles in the global nitrogen and carbon cycles. We here present a high-quality draft genome sequence of an ammonia-oxidizing archaeon, “Candidatus Nitrosopumilus koreensis” AR1, which was found to dominate an ammonia-oxidizing enrichment culture in marine sediment off Svalbard, the Arctic Circle. Despite a significant number of nonoverlapping genes (ca. 30%), similarities of this strain to “Candidatus Nitrosopumilus maritimus” were revealed by core genes for archaeal ammonia oxidation and carbon fixation, G+C content, and extensive synteny conservation. |
| doi_str_mv | 10.1128/JB.01857-12 |
| format | Article |
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We here present a high-quality draft genome sequence of an ammonia-oxidizing archaeon, “Candidatus Nitrosopumilus koreensis” AR1, which was found to dominate an ammonia-oxidizing enrichment culture in marine sediment off Svalbard, the Arctic Circle. Despite a significant number of nonoverlapping genes (ca. 30%), similarities of this strain to “Candidatus Nitrosopumilus maritimus” were revealed by core genes for archaeal ammonia oxidation and carbon fixation, G+C content, and extensive synteny conservation.</description><identifier>ISSN: 0021-9193</identifier><identifier>EISSN: 1098-5530</identifier><identifier>EISSN: 1067-8832</identifier><identifier>DOI: 10.1128/JB.01857-12</identifier><identifier>PMID: 23209206</identifier><identifier>CODEN: JOBAAY</identifier><language>eng</language><publisher>Washington, DC: American Society for Microbiology</publisher><subject>Ammonia ; Ammonia - metabolism ; Animal, plant and microbial ecology ; Archaea - classification ; Archaea - genetics ; Archaea - isolation & purification ; Archaea - metabolism ; Bacterial Typing Techniques ; Bacteriology ; Base Composition ; Biological and medical sciences ; carbon ; Carbon Cycle - genetics ; DNA, Archaeal ; enrichment culture ; Fundamental and applied biological sciences. Psychology ; genes ; Genome Announcements ; Genome, Archaeal ; Genomics ; Geologic Sediments - microbiology ; Gram-negative bacteria ; marine environment ; marine sediments ; Microbial ecology ; Microbiology ; Miscellaneous ; Molecular Sequence Data ; nitrogen ; nucleotide sequences ; Oxidation ; Oxidation-Reduction ; Sediments ; Sequence Analysis, DNA ; Various environments (extraatmospheric space, air, water)</subject><ispartof>Journal of Bacteriology, 2012-12, Vol.194 (24), p.6940-6941</ispartof><rights>2014 INIST-CNRS</rights><rights>Copyright American Society for Microbiology Dec 2012</rights><rights>Copyright © 2012, American Society for Microbiology. All Rights Reserved. 2012 American Society for Microbiology</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c532t-e18b285d7c067ca985fda3a87f25d636267c319fa9a4d3f62267bc6f567491e43</citedby><cites>FETCH-LOGICAL-c532t-e18b285d7c067ca985fda3a87f25d636267c319fa9a4d3f62267bc6f567491e43</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/PMC3510587/pdf/$$EPDF$$P50$$Gpubmedcentral$$H</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC3510587/$$EHTML$$P50$$Gpubmedcentral$$H</linktohtml><link.rule.ids>230,314,727,780,784,885,27924,27925,53791,53793</link.rule.ids><backlink>$$Uhttp://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=26711758$$DView record in Pascal Francis$$Hfree_for_read</backlink><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/23209206$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Park, Soo-Je</creatorcontrib><creatorcontrib>Kim, Jong-Geol</creatorcontrib><creatorcontrib>Jung, Man-Young</creatorcontrib><creatorcontrib>Kim, So-Jeong</creatorcontrib><creatorcontrib>Cha, In-Tae</creatorcontrib><creatorcontrib>Kwon, KaeKyoung</creatorcontrib><creatorcontrib>Lee, Jung-Hyun</creatorcontrib><creatorcontrib>Rhee, Sung-Keun</creatorcontrib><title>Draft Genome Sequence of an Ammonia-Oxidizing Archaeon, “Candidatus Nitrosopumilus koreensis” AR1, from Marine Sediment</title><title>Journal of Bacteriology</title><addtitle>J Bacteriol</addtitle><description>Ammonia-oxidizing archaea (AOA) are ubiquitous in various marine environments and play important roles in the global nitrogen and carbon cycles. We here present a high-quality draft genome sequence of an ammonia-oxidizing archaeon, “Candidatus Nitrosopumilus koreensis” AR1, which was found to dominate an ammonia-oxidizing enrichment culture in marine sediment off Svalbard, the Arctic Circle. Despite a significant number of nonoverlapping genes (ca. 30%), similarities of this strain to “Candidatus Nitrosopumilus maritimus” were revealed by core genes for archaeal ammonia oxidation and carbon fixation, G+C content, and extensive synteny conservation.</description><subject>Ammonia</subject><subject>Ammonia - metabolism</subject><subject>Animal, plant and microbial ecology</subject><subject>Archaea - classification</subject><subject>Archaea - genetics</subject><subject>Archaea - isolation & purification</subject><subject>Archaea - metabolism</subject><subject>Bacterial Typing Techniques</subject><subject>Bacteriology</subject><subject>Base Composition</subject><subject>Biological and medical sciences</subject><subject>carbon</subject><subject>Carbon Cycle - genetics</subject><subject>DNA, Archaeal</subject><subject>enrichment culture</subject><subject>Fundamental and applied biological sciences. Psychology</subject><subject>genes</subject><subject>Genome Announcements</subject><subject>Genome, Archaeal</subject><subject>Genomics</subject><subject>Geologic Sediments - microbiology</subject><subject>Gram-negative bacteria</subject><subject>marine environment</subject><subject>marine sediments</subject><subject>Microbial ecology</subject><subject>Microbiology</subject><subject>Miscellaneous</subject><subject>Molecular Sequence Data</subject><subject>nitrogen</subject><subject>nucleotide sequences</subject><subject>Oxidation</subject><subject>Oxidation-Reduction</subject><subject>Sediments</subject><subject>Sequence Analysis, DNA</subject><subject>Various environments (extraatmospheric space, air, water)</subject><issn>0021-9193</issn><issn>1098-5530</issn><issn>1067-8832</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2012</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNpdkttu1DAQhiMEokvhinuwqJCQaIoPcRLfVNou0FIVKlF6bc069q63ib3YCcebPgi8XJ-kXnYpB99YHn_-558ZZ9lDgvcIofWL44M9TGpe5YTeykYEizrnnOHb2QhjSnJBBNvK7sW4wJgUBad3sy3KKBYUl6Ps-8sApkeH2vlOozP9cdBOaeQNAofGXeedhfz0i23sN-tmaBzUHLR3u-jq8scEXGMb6IeI3tk--OiXQ2fbdLzwQWsXbby6_InG78kuMsF36C0E61ZZGttp19_P7hhoo36w2bez89evPkyO8pPTwzeT8UmuOKN9rkk9pTVvKoXLSoGouWmAQV0ZypuSlTRFGREGBBQNMyVNgakqDS-rQhBdsO1sf627HKadblRKHaCVy2A7CF-lByv_vXF2Lmf-k2ScYF5XSeDZRiD41KDYy85GpdsWnPZDlISmxXhZ8ITu_Icu_BBcKm9FsZoJXpBEPV9TKnUtBm1uzBAsV0OVxwfy11DTq0Q_-tv_Dft7igl4ugEgKmhNAKds_MOVFSEVrxP3ZM3N7Wz-2QYtIXZyMZVEFJIWshQFTtDjNWTAS5iFJHR-RjHhq--T3HN2DW39v8A</recordid><startdate>20121201</startdate><enddate>20121201</enddate><creator>Park, Soo-Je</creator><creator>Kim, Jong-Geol</creator><creator>Jung, Man-Young</creator><creator>Kim, So-Jeong</creator><creator>Cha, In-Tae</creator><creator>Kwon, KaeKyoung</creator><creator>Lee, Jung-Hyun</creator><creator>Rhee, Sung-Keun</creator><general>American Society for Microbiology</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>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>7X8</scope><scope>5PM</scope></search><sort><creationdate>20121201</creationdate><title>Draft Genome Sequence of an Ammonia-Oxidizing Archaeon, “Candidatus Nitrosopumilus koreensis” AR1, from Marine Sediment</title><author>Park, Soo-Je ; Kim, Jong-Geol ; Jung, Man-Young ; Kim, So-Jeong ; Cha, In-Tae ; Kwon, KaeKyoung ; Lee, Jung-Hyun ; Rhee, Sung-Keun</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c532t-e18b285d7c067ca985fda3a87f25d636267c319fa9a4d3f62267bc6f567491e43</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2012</creationdate><topic>Ammonia</topic><topic>Ammonia - metabolism</topic><topic>Animal, plant and microbial ecology</topic><topic>Archaea - classification</topic><topic>Archaea - genetics</topic><topic>Archaea - isolation & purification</topic><topic>Archaea - metabolism</topic><topic>Bacterial Typing Techniques</topic><topic>Bacteriology</topic><topic>Base Composition</topic><topic>Biological and medical sciences</topic><topic>carbon</topic><topic>Carbon Cycle - genetics</topic><topic>DNA, Archaeal</topic><topic>enrichment culture</topic><topic>Fundamental and applied biological sciences. Psychology</topic><topic>genes</topic><topic>Genome Announcements</topic><topic>Genome, Archaeal</topic><topic>Genomics</topic><topic>Geologic Sediments - microbiology</topic><topic>Gram-negative bacteria</topic><topic>marine environment</topic><topic>marine sediments</topic><topic>Microbial ecology</topic><topic>Microbiology</topic><topic>Miscellaneous</topic><topic>Molecular Sequence Data</topic><topic>nitrogen</topic><topic>nucleotide sequences</topic><topic>Oxidation</topic><topic>Oxidation-Reduction</topic><topic>Sediments</topic><topic>Sequence Analysis, DNA</topic><topic>Various environments (extraatmospheric space, air, water)</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Park, Soo-Je</creatorcontrib><creatorcontrib>Kim, Jong-Geol</creatorcontrib><creatorcontrib>Jung, Man-Young</creatorcontrib><creatorcontrib>Kim, So-Jeong</creatorcontrib><creatorcontrib>Cha, In-Tae</creatorcontrib><creatorcontrib>Kwon, KaeKyoung</creatorcontrib><creatorcontrib>Lee, Jung-Hyun</creatorcontrib><creatorcontrib>Rhee, Sung-Keun</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>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>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>Journal of Bacteriology</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Park, Soo-Je</au><au>Kim, Jong-Geol</au><au>Jung, Man-Young</au><au>Kim, So-Jeong</au><au>Cha, In-Tae</au><au>Kwon, KaeKyoung</au><au>Lee, Jung-Hyun</au><au>Rhee, Sung-Keun</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Draft Genome Sequence of an Ammonia-Oxidizing Archaeon, “Candidatus Nitrosopumilus koreensis” AR1, from Marine Sediment</atitle><jtitle>Journal of Bacteriology</jtitle><addtitle>J Bacteriol</addtitle><date>2012-12-01</date><risdate>2012</risdate><volume>194</volume><issue>24</issue><spage>6940</spage><epage>6941</epage><pages>6940-6941</pages><issn>0021-9193</issn><eissn>1098-5530</eissn><eissn>1067-8832</eissn><coden>JOBAAY</coden><abstract>Ammonia-oxidizing archaea (AOA) are ubiquitous in various marine environments and play important roles in the global nitrogen and carbon cycles. We here present a high-quality draft genome sequence of an ammonia-oxidizing archaeon, “Candidatus Nitrosopumilus koreensis” AR1, which was found to dominate an ammonia-oxidizing enrichment culture in marine sediment off Svalbard, the Arctic Circle. Despite a significant number of nonoverlapping genes (ca. 30%), similarities of this strain to “Candidatus Nitrosopumilus maritimus” were revealed by core genes for archaeal ammonia oxidation and carbon fixation, G+C content, and extensive synteny conservation.</abstract><cop>Washington, DC</cop><pub>American Society for Microbiology</pub><pmid>23209206</pmid><doi>10.1128/JB.01857-12</doi><tpages>2</tpages><oa>free_for_read</oa></addata></record> |
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| ispartof | Journal of Bacteriology, 2012-12, Vol.194 (24), p.6940-6941 |
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| subjects | Ammonia Ammonia - metabolism Animal, plant and microbial ecology Archaea - classification Archaea - genetics Archaea - isolation & purification Archaea - metabolism Bacterial Typing Techniques Bacteriology Base Composition Biological and medical sciences carbon Carbon Cycle - genetics DNA, Archaeal enrichment culture Fundamental and applied biological sciences. Psychology genes Genome Announcements Genome, Archaeal Genomics Geologic Sediments - microbiology Gram-negative bacteria marine environment marine sediments Microbial ecology Microbiology Miscellaneous Molecular Sequence Data nitrogen nucleotide sequences Oxidation Oxidation-Reduction Sediments Sequence Analysis, DNA Various environments (extraatmospheric space, air, water) |
| title | Draft Genome Sequence of an Ammonia-Oxidizing Archaeon, “Candidatus Nitrosopumilus koreensis” AR1, from Marine Sediment |
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