Complete genome sequence of the metabolically versatile photosynthetic bacterium Rhodopseudomonas palustris
Rhodopseudomonas palustris is among the most metabolically versatile bacteria known. It uses light, inorganic compounds, or organic compounds, for energy. It acquires carbon from many types of green plant–derived compounds or by carbon dioxide fixation, and it fixes nitrogen. Here we describe the ge...
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| Veröffentlicht in: | Nature biotechnology 2004-01, Vol.22 (1), p.55-61 |
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| creator | Larimer, Frank W Chain, Patrick Hauser, Loren Lamerdin, Jane Malfatti, Stephanie Do, Long Land, Miriam L Pelletier, Dale A Beatty, J Thomas Lang, Andrew S Tabita, F Robert Gibson, Janet L Hanson, Thomas E Bobst, Cedric Torres, Janelle L Torres y Peres, Caroline Harrison, Faith H Gibson, Jane Harwood, Caroline S |
| description | Rhodopseudomonas palustris
is among the most metabolically versatile bacteria known. It uses light, inorganic compounds, or organic compounds, for energy. It acquires carbon from many types of green plant–derived compounds or by carbon dioxide fixation, and it fixes nitrogen. Here we describe the genome sequence of
R. palustris
, which consists of a 5,459,213-base-pair (bp) circular chromosome with 4,836 predicted genes and a plasmid of 8,427 bp. The sequence reveals genes that confer a remarkably large number of options within a given type of metabolism, including three nitrogenases, five benzene ring cleavage pathways and four light harvesting 2 systems.
R. palustris
encodes 63 signal transduction histidine kinases and 79 response regulator receiver domains. Almost 15% of the genome is devoted to transport. This genome sequence is a starting point to use
R. palustris
as a model to explore how organisms integrate metabolic modules in response to environmental perturbations. |
| doi_str_mv | 10.1038/nbt923 |
| format | Article |
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is among the most metabolically versatile bacteria known. It uses light, inorganic compounds, or organic compounds, for energy. It acquires carbon from many types of green plant–derived compounds or by carbon dioxide fixation, and it fixes nitrogen. Here we describe the genome sequence of
R. palustris
, which consists of a 5,459,213-base-pair (bp) circular chromosome with 4,836 predicted genes and a plasmid of 8,427 bp. The sequence reveals genes that confer a remarkably large number of options within a given type of metabolism, including three nitrogenases, five benzene ring cleavage pathways and four light harvesting 2 systems.
R. palustris
encodes 63 signal transduction histidine kinases and 79 response regulator receiver domains. Almost 15% of the genome is devoted to transport. This genome sequence is a starting point to use
R. palustris
as a model to explore how organisms integrate metabolic modules in response to environmental perturbations.</description><identifier>ISSN: 1087-0156</identifier><identifier>EISSN: 1546-1696</identifier><identifier>DOI: 10.1038/nbt923</identifier><identifier>PMID: 14704707</identifier><identifier>CODEN: NABIF9</identifier><language>eng</language><publisher>New York: Nature Publishing Group US</publisher><subject>Agriculture ; BACTERIA ; BASIC BIOLOGICAL SCIENCES ; BENZENE ; Bioinformatics ; Biological and medical sciences ; Biological Transport ; Biology of microorganisms of confirmed or potential industrial interest ; Biomedical and Life Sciences ; Biomedical Engineering/Biotechnology ; Biomedicine ; Biosynthesis ; Biotechnology ; Biotechnology - methods ; CARBON ; Carbon dioxide ; CARBON DIOXIDE FIXATION ; CHROMOSOMES ; CLEAVAGE ; Cytochrome ; Energy ; Fundamental and applied biological sciences. Psychology ; GENERAL AND MISCELLANEOUS//MATHEMATICS, COMPUTING, AND INFORMATION SCIENCE ; GENES ; Genetics ; Genome, Bacterial ; Genomes ; HARVESTING ; HISTIDINE ; Hydrogen - metabolism ; INORGANIC COMPOUNDS ; Kinases ; Life Sciences ; Light ; METABOLISM ; Mission oriented research ; Models, Biological ; Models, Genetic ; Molecular Sequence Data ; NITROGEN ; NITROGENASE ; Nitrogenase - metabolism ; ORGANIC COMPOUNDS ; PHOSPHOTRANSFERASES ; Photosynthesis ; PLASMIDS ; RHODOPSEUDOMONAS ; Rhodopseudomonas - genetics ; Rhodopseudomonas - physiology ; Rhodopseudomonas palustris ; Signal Transduction ; TRANSPORT</subject><ispartof>Nature biotechnology, 2004-01, Vol.22 (1), p.55-61</ispartof><rights>The Author(s) 2003</rights><rights>2004 INIST-CNRS</rights><rights>COPYRIGHT 2004 Nature Publishing Group</rights><rights>Copyright Nature Publishing Group Jan 2004</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c597t-9aee9654eacfc3f1f8ffd6a7da42bb9b2a13e3e616b7d39993a575abd4afb4d53</citedby><cites>FETCH-LOGICAL-c597t-9aee9654eacfc3f1f8ffd6a7da42bb9b2a13e3e616b7d39993a575abd4afb4d53</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1038/nbt923$$EPDF$$P50$$Gspringer$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1038/nbt923$$EHTML$$P50$$Gspringer$$Hfree_for_read</linktohtml><link.rule.ids>230,314,776,780,881,27901,27902,41464,42533,51294</link.rule.ids><backlink>$$Uhttp://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=15653513$$DView record in Pascal Francis$$Hfree_for_read</backlink><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/14704707$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink><backlink>$$Uhttps://www.osti.gov/biblio/978725$$D View this record in Osti.gov$$Hfree_for_read</backlink></links><search><creatorcontrib>Larimer, Frank W</creatorcontrib><creatorcontrib>Chain, Patrick</creatorcontrib><creatorcontrib>Hauser, Loren</creatorcontrib><creatorcontrib>Lamerdin, Jane</creatorcontrib><creatorcontrib>Malfatti, Stephanie</creatorcontrib><creatorcontrib>Do, Long</creatorcontrib><creatorcontrib>Land, Miriam L</creatorcontrib><creatorcontrib>Pelletier, Dale A</creatorcontrib><creatorcontrib>Beatty, J Thomas</creatorcontrib><creatorcontrib>Lang, Andrew S</creatorcontrib><creatorcontrib>Tabita, F Robert</creatorcontrib><creatorcontrib>Gibson, Janet L</creatorcontrib><creatorcontrib>Hanson, Thomas E</creatorcontrib><creatorcontrib>Bobst, Cedric</creatorcontrib><creatorcontrib>Torres, Janelle L Torres y</creatorcontrib><creatorcontrib>Peres, Caroline</creatorcontrib><creatorcontrib>Harrison, Faith H</creatorcontrib><creatorcontrib>Gibson, Jane</creatorcontrib><creatorcontrib>Harwood, Caroline S</creatorcontrib><creatorcontrib>Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)</creatorcontrib><title>Complete genome sequence of the metabolically versatile photosynthetic bacterium Rhodopseudomonas palustris</title><title>Nature biotechnology</title><addtitle>Nat Biotechnol</addtitle><addtitle>Nat Biotechnol</addtitle><description>Rhodopseudomonas palustris
is among the most metabolically versatile bacteria known. It uses light, inorganic compounds, or organic compounds, for energy. It acquires carbon from many types of green plant–derived compounds or by carbon dioxide fixation, and it fixes nitrogen. Here we describe the genome sequence of
R. palustris
, which consists of a 5,459,213-base-pair (bp) circular chromosome with 4,836 predicted genes and a plasmid of 8,427 bp. The sequence reveals genes that confer a remarkably large number of options within a given type of metabolism, including three nitrogenases, five benzene ring cleavage pathways and four light harvesting 2 systems.
R. palustris
encodes 63 signal transduction histidine kinases and 79 response regulator receiver domains. Almost 15% of the genome is devoted to transport. This genome sequence is a starting point to use
R. palustris
as a model to explore how organisms integrate metabolic modules in response to environmental perturbations.</description><subject>Agriculture</subject><subject>BACTERIA</subject><subject>BASIC BIOLOGICAL SCIENCES</subject><subject>BENZENE</subject><subject>Bioinformatics</subject><subject>Biological and medical sciences</subject><subject>Biological Transport</subject><subject>Biology of microorganisms of confirmed or potential industrial interest</subject><subject>Biomedical and Life Sciences</subject><subject>Biomedical Engineering/Biotechnology</subject><subject>Biomedicine</subject><subject>Biosynthesis</subject><subject>Biotechnology</subject><subject>Biotechnology - methods</subject><subject>CARBON</subject><subject>Carbon dioxide</subject><subject>CARBON DIOXIDE FIXATION</subject><subject>CHROMOSOMES</subject><subject>CLEAVAGE</subject><subject>Cytochrome</subject><subject>Energy</subject><subject>Fundamental and applied biological sciences. 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(ORNL), Oak Ridge, TN (United States)</aucorp><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Complete genome sequence of the metabolically versatile photosynthetic bacterium Rhodopseudomonas palustris</atitle><jtitle>Nature biotechnology</jtitle><stitle>Nat Biotechnol</stitle><addtitle>Nat Biotechnol</addtitle><date>2004-01-01</date><risdate>2004</risdate><volume>22</volume><issue>1</issue><spage>55</spage><epage>61</epage><pages>55-61</pages><issn>1087-0156</issn><eissn>1546-1696</eissn><coden>NABIF9</coden><abstract>Rhodopseudomonas palustris
is among the most metabolically versatile bacteria known. It uses light, inorganic compounds, or organic compounds, for energy. It acquires carbon from many types of green plant–derived compounds or by carbon dioxide fixation, and it fixes nitrogen. Here we describe the genome sequence of
R. palustris
, which consists of a 5,459,213-base-pair (bp) circular chromosome with 4,836 predicted genes and a plasmid of 8,427 bp. The sequence reveals genes that confer a remarkably large number of options within a given type of metabolism, including three nitrogenases, five benzene ring cleavage pathways and four light harvesting 2 systems.
R. palustris
encodes 63 signal transduction histidine kinases and 79 response regulator receiver domains. Almost 15% of the genome is devoted to transport. This genome sequence is a starting point to use
R. palustris
as a model to explore how organisms integrate metabolic modules in response to environmental perturbations.</abstract><cop>New York</cop><pub>Nature Publishing Group US</pub><pmid>14704707</pmid><doi>10.1038/nbt923</doi><tpages>7</tpages><oa>free_for_read</oa></addata></record> |
| fulltext | fulltext |
| identifier | ISSN: 1087-0156 |
| ispartof | Nature biotechnology, 2004-01, Vol.22 (1), p.55-61 |
| issn | 1087-0156 1546-1696 |
| language | eng |
| recordid | cdi_osti_scitechconnect_978725 |
| source | MEDLINE; SpringerLink Journals; Nature Journals Online |
| subjects | Agriculture BACTERIA BASIC BIOLOGICAL SCIENCES BENZENE Bioinformatics Biological and medical sciences Biological Transport Biology of microorganisms of confirmed or potential industrial interest Biomedical and Life Sciences Biomedical Engineering/Biotechnology Biomedicine Biosynthesis Biotechnology Biotechnology - methods CARBON Carbon dioxide CARBON DIOXIDE FIXATION CHROMOSOMES CLEAVAGE Cytochrome Energy Fundamental and applied biological sciences. Psychology GENERAL AND MISCELLANEOUS//MATHEMATICS, COMPUTING, AND INFORMATION SCIENCE GENES Genetics Genome, Bacterial Genomes HARVESTING HISTIDINE Hydrogen - metabolism INORGANIC COMPOUNDS Kinases Life Sciences Light METABOLISM Mission oriented research Models, Biological Models, Genetic Molecular Sequence Data NITROGEN NITROGENASE Nitrogenase - metabolism ORGANIC COMPOUNDS PHOSPHOTRANSFERASES Photosynthesis PLASMIDS RHODOPSEUDOMONAS Rhodopseudomonas - genetics Rhodopseudomonas - physiology Rhodopseudomonas palustris Signal Transduction TRANSPORT |
| title | Complete genome sequence of the metabolically versatile photosynthetic bacterium Rhodopseudomonas palustris |
| url | https://sfx.bib-bvb.de/sfx_tum?ctx_ver=Z39.88-2004&ctx_enc=info:ofi/enc:UTF-8&ctx_tim=2025-01-31T15%3A08%3A07IST&url_ver=Z39.88-2004&url_ctx_fmt=infofi/fmt:kev:mtx:ctx&rfr_id=info:sid/primo.exlibrisgroup.com:primo3-Article-gale_osti_&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.genre=article&rft.atitle=Complete%20genome%20sequence%20of%20the%20metabolically%20versatile%20photosynthetic%20bacterium%20Rhodopseudomonas%20palustris&rft.jtitle=Nature%20biotechnology&rft.au=Larimer,%20Frank%20W&rft.aucorp=Oak%20Ridge%20National%20Lab.%20(ORNL),%20Oak%20Ridge,%20TN%20(United%20States)&rft.date=2004-01-01&rft.volume=22&rft.issue=1&rft.spage=55&rft.epage=61&rft.pages=55-61&rft.issn=1087-0156&rft.eissn=1546-1696&rft.coden=NABIF9&rft_id=info:doi/10.1038/nbt923&rft_dat=%3Cgale_osti_%3EA190476727%3C/gale_osti_%3E%3Curl%3E%3C/url%3E&disable_directlink=true&sfx.directlink=off&sfx.report_link=0&rft_id=info:oai/&rft_pqid=222308791&rft_id=info:pmid/14704707&rft_galeid=A190476727&rfr_iscdi=true |