genome sequence of the ethanologenic bacterium Zymomonas mobilis ZM4
We report the complete genome sequence of Zymomonas mobilis ZM4 (ATCC31821), an ethanologenic microorganism of interest for the production of fuel ethanol. The genome consists of 2,056,416 base pairs forming a circular chromosome with 1,998 open reading frames (ORFs) and three ribosomal RNA transcri...
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| Veröffentlicht in: | Nature biotechnology 2005, Vol.23 (1), p.63-68 |
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| creator | Seo, J.S Chong, H Park, H.S Yoon, K.O Jung, C Kim, J.J Hong, J.H Kim, H Kim, J.H Kil, J.I |
| description | We report the complete genome sequence of
Zymomonas mobilis
ZM4 (ATCC31821), an ethanologenic microorganism of interest for the production of fuel ethanol. The genome consists of 2,056,416 base pairs forming a circular chromosome with 1,998 open reading frames (ORFs) and three ribosomal RNA transcription units. The genome lacks recognizable genes for 6-phosphofructokinase, an essential enzyme in the Embden-Meyerhof-Parnas pathway, and for two enzymes in the tricarboxylic acid cycle, the 2-oxoglutarate dehydrogenase complex and malate dehydrogenase, so glucose can be metabolized only by the Entner-Doudoroff pathway. Whole genome microarrays were used for genomic comparisons with the
Z. mobilis
type strain ZM1 (ATCC10988) revealing that 54 ORFs predicted to encode for transport and secretory proteins, transcriptional regulators and oxidoreductase in the ZM4 strain were absent from ZM1. Most of these ORFs were also found to be actively transcribed in association with ethanol production by ZM4. |
| doi_str_mv | 10.1038/nbt1045 |
| format | Article |
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Zymomonas mobilis
ZM4 (ATCC31821), an ethanologenic microorganism of interest for the production of fuel ethanol. The genome consists of 2,056,416 base pairs forming a circular chromosome with 1,998 open reading frames (ORFs) and three ribosomal RNA transcription units. The genome lacks recognizable genes for 6-phosphofructokinase, an essential enzyme in the Embden-Meyerhof-Parnas pathway, and for two enzymes in the tricarboxylic acid cycle, the 2-oxoglutarate dehydrogenase complex and malate dehydrogenase, so glucose can be metabolized only by the Entner-Doudoroff pathway. Whole genome microarrays were used for genomic comparisons with the
Z. mobilis
type strain ZM1 (ATCC10988) revealing that 54 ORFs predicted to encode for transport and secretory proteins, transcriptional regulators and oxidoreductase in the ZM4 strain were absent from ZM1. Most of these ORFs were also found to be actively transcribed in association with ethanol production by ZM4.</description><identifier>ISSN: 1087-0156</identifier><identifier>EISSN: 1546-1696</identifier><identifier>DOI: 10.1038/nbt1045</identifier><identifier>PMID: 15592456</identifier><identifier>CODEN: NABIF9</identifier><language>eng</language><publisher>London: Nature Publishing Group UK</publisher><subject>Agriculture ; alcoholic fermentation ; Bioinformatics ; Biological and medical sciences ; Biological Transport ; Biology of microorganisms of confirmed or potential industrial interest ; Biomedical Engineering/Biotechnology ; Biomedicine ; Biosynthesis ; Biotechnology ; Cell cycle ; Chromosomes ; Dehydrogenase ; Dehydrogenases ; DNA - chemistry ; Ethanol ; Ethanol - chemistry ; Ethanol - metabolism ; ethanol production ; Fundamental and applied biological sciences. Psychology ; Genetics ; Genome ; Genome, Bacterial ; Genomes ; genomics ; Glucose ; Ketoglutarate Dehydrogenase Complex - metabolism ; Life Sciences ; Malate Dehydrogenase - metabolism ; Metabolism ; Metabolites ; Mission oriented research ; Models, Biological ; Molecular Sequence Data ; Multigene Family ; nucleotide sequences ; Oligonucleotide Array Sequence Analysis ; Open Reading Frames ; Oxidative Stress ; Plasmids - metabolism ; RNA - chemistry ; Sequence Analysis, DNA ; Signal transduction ; Transcription, Genetic ; Tricarboxylic Acids - metabolism ; Zymomonas - genetics ; Zymomonas mobilis</subject><ispartof>Nature biotechnology, 2005, Vol.23 (1), p.63-68</ispartof><rights>The Author(s) 2004</rights><rights>2005 INIST-CNRS</rights><rights>COPYRIGHT 2005 Nature Publishing Group</rights><rights>Copyright Nature Publishing Group Jan 2005</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c586t-642b1b124626aea1306b60198d0b1691e7bba559f33680c7508d224f07b8fb153</citedby><cites>FETCH-LOGICAL-c586t-642b1b124626aea1306b60198d0b1691e7bba559f33680c7508d224f07b8fb153</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/nbt1045$$EPDF$$P50$$Gspringer$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1038/nbt1045$$EHTML$$P50$$Gspringer$$Hfree_for_read</linktohtml><link.rule.ids>230,314,776,780,881,4010,27900,27901,27902,41464,42533,51294</link.rule.ids><backlink>$$Uhttp://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=16538142$$DView record in Pascal Francis$$Hfree_for_read</backlink><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/15592456$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Seo, J.S</creatorcontrib><creatorcontrib>Chong, H</creatorcontrib><creatorcontrib>Park, H.S</creatorcontrib><creatorcontrib>Yoon, K.O</creatorcontrib><creatorcontrib>Jung, C</creatorcontrib><creatorcontrib>Kim, J.J</creatorcontrib><creatorcontrib>Hong, J.H</creatorcontrib><creatorcontrib>Kim, H</creatorcontrib><creatorcontrib>Kim, J.H</creatorcontrib><creatorcontrib>Kil, J.I</creatorcontrib><title>genome sequence of the ethanologenic bacterium Zymomonas mobilis ZM4</title><title>Nature biotechnology</title><addtitle>Nat Biotechnol</addtitle><addtitle>Nat Biotechnol</addtitle><description>We report the complete genome sequence of
Zymomonas mobilis
ZM4 (ATCC31821), an ethanologenic microorganism of interest for the production of fuel ethanol. The genome consists of 2,056,416 base pairs forming a circular chromosome with 1,998 open reading frames (ORFs) and three ribosomal RNA transcription units. The genome lacks recognizable genes for 6-phosphofructokinase, an essential enzyme in the Embden-Meyerhof-Parnas pathway, and for two enzymes in the tricarboxylic acid cycle, the 2-oxoglutarate dehydrogenase complex and malate dehydrogenase, so glucose can be metabolized only by the Entner-Doudoroff pathway. Whole genome microarrays were used for genomic comparisons with the
Z. mobilis
type strain ZM1 (ATCC10988) revealing that 54 ORFs predicted to encode for transport and secretory proteins, transcriptional regulators and oxidoreductase in the ZM4 strain were absent from ZM1. Most of these ORFs were also found to be actively transcribed in association with ethanol production by ZM4.</description><subject>Agriculture</subject><subject>alcoholic fermentation</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 Engineering/Biotechnology</subject><subject>Biomedicine</subject><subject>Biosynthesis</subject><subject>Biotechnology</subject><subject>Cell cycle</subject><subject>Chromosomes</subject><subject>Dehydrogenase</subject><subject>Dehydrogenases</subject><subject>DNA - chemistry</subject><subject>Ethanol</subject><subject>Ethanol - chemistry</subject><subject>Ethanol - metabolism</subject><subject>ethanol production</subject><subject>Fundamental and applied biological sciences. Psychology</subject><subject>Genetics</subject><subject>Genome</subject><subject>Genome, Bacterial</subject><subject>Genomes</subject><subject>genomics</subject><subject>Glucose</subject><subject>Ketoglutarate Dehydrogenase Complex - metabolism</subject><subject>Life Sciences</subject><subject>Malate Dehydrogenase - metabolism</subject><subject>Metabolism</subject><subject>Metabolites</subject><subject>Mission oriented research</subject><subject>Models, Biological</subject><subject>Molecular Sequence Data</subject><subject>Multigene Family</subject><subject>nucleotide sequences</subject><subject>Oligonucleotide Array Sequence Analysis</subject><subject>Open Reading Frames</subject><subject>Oxidative Stress</subject><subject>Plasmids - metabolism</subject><subject>RNA - chemistry</subject><subject>Sequence Analysis, DNA</subject><subject>Signal transduction</subject><subject>Transcription, Genetic</subject><subject>Tricarboxylic Acids - metabolism</subject><subject>Zymomonas - genetics</subject><subject>Zymomonas mobilis</subject><issn>1087-0156</issn><issn>1546-1696</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2005</creationdate><recordtype>article</recordtype><sourceid>C6C</sourceid><sourceid>EIF</sourceid><sourceid>8G5</sourceid><sourceid>BENPR</sourceid><sourceid>GUQSH</sourceid><sourceid>M2O</sourceid><recordid>eNqNkk1v1DAQhiMEoqUg_gFElfg6bLETe5JckKryVamoEqUcerFs7yTrKrGLnVTtv2eqrFgWLrUPtjzPvB6_nix7ztkBZ2X93puRMyEfZLtcClhwaOAh7VldLRiXsJM9SemSMQYC4HG2w6VsCiFhN_vYoQ8D5gl_Tegt5qHNxxXmOK60D32gsLO50XbE6KYhv7gdwhC8TvkQjOtdyi--iafZo1b3CZ-t173s_POnH0dfFyenX46PDk8WVtYwLkAUhhteCChAo-YlAwOMN_WSGaqYY2WMpsrasoSa2UqyelkUomWVqVvDZbmXfZh1ryYz4NKiH6Pu1VV0g463KmintiPerVQXrhXUFWuakgRerwVioPemUQ0uWex77TFMSUFViorfA-RVVTYlNATu_wNehil6ckEVNARnxV3dBzPU6R6V822g6izNJQ7OBo-to_ND3jAJ5FRFCe-2EogZ8Wbs9JSSOj77fn_29Oc2-2ZmbQwpRWz_eMeZumsktW4kIl_8bfWGW3cOAa_WgE5W923U3rq04UCWNRcFcW9nLlHIdxg3Bv1_58sZbXVQuoskd35WMOoT1kAj6AN_A-jJ45Y</recordid><startdate>2005</startdate><enddate>2005</enddate><creator>Seo, J.S</creator><creator>Chong, H</creator><creator>Park, H.S</creator><creator>Yoon, K.O</creator><creator>Jung, C</creator><creator>Kim, J.J</creator><creator>Hong, J.H</creator><creator>Kim, H</creator><creator>Kim, J.H</creator><creator>Kil, J.I</creator><general>Nature Publishing Group UK</general><general>Nature</general><general>Nature Publishing Group</general><scope>FBQ</scope><scope>C6C</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>IOV</scope><scope>ISR</scope><scope>3V.</scope><scope>7QO</scope><scope>7QP</scope><scope>7QR</scope><scope>7T7</scope><scope>7TK</scope><scope>7TM</scope><scope>7X7</scope><scope>7XB</scope><scope>88A</scope><scope>88E</scope><scope>88I</scope><scope>8AO</scope><scope>8FD</scope><scope>8FE</scope><scope>8FG</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>8G5</scope><scope>ABJCF</scope><scope>ABUWG</scope><scope>AEUYN</scope><scope>AFKRA</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BGLVJ</scope><scope>BHPHI</scope><scope>C1K</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FR3</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>GUQSH</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>L6V</scope><scope>LK8</scope><scope>M0S</scope><scope>M1P</scope><scope>M2O</scope><scope>M2P</scope><scope>M7P</scope><scope>M7S</scope><scope>MBDVC</scope><scope>P64</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PTHSS</scope><scope>Q9U</scope><scope>RC3</scope><scope>7QL</scope><scope>7X8</scope><scope>5PM</scope></search><sort><creationdate>2005</creationdate><title>genome sequence of the ethanologenic bacterium Zymomonas mobilis ZM4</title><author>Seo, J.S ; Chong, H ; Park, H.S ; Yoon, K.O ; Jung, C ; Kim, J.J ; Hong, J.H ; Kim, H ; Kim, J.H ; Kil, J.I</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c586t-642b1b124626aea1306b60198d0b1691e7bba559f33680c7508d224f07b8fb153</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2005</creationdate><topic>Agriculture</topic><topic>alcoholic fermentation</topic><topic>Bioinformatics</topic><topic>Biological and medical sciences</topic><topic>Biological Transport</topic><topic>Biology of microorganisms of confirmed or potential industrial interest</topic><topic>Biomedical Engineering/Biotechnology</topic><topic>Biomedicine</topic><topic>Biosynthesis</topic><topic>Biotechnology</topic><topic>Cell cycle</topic><topic>Chromosomes</topic><topic>Dehydrogenase</topic><topic>Dehydrogenases</topic><topic>DNA - chemistry</topic><topic>Ethanol</topic><topic>Ethanol - chemistry</topic><topic>Ethanol - metabolism</topic><topic>ethanol production</topic><topic>Fundamental and applied biological sciences. Psychology</topic><topic>Genetics</topic><topic>Genome</topic><topic>Genome, Bacterial</topic><topic>Genomes</topic><topic>genomics</topic><topic>Glucose</topic><topic>Ketoglutarate Dehydrogenase Complex - metabolism</topic><topic>Life Sciences</topic><topic>Malate Dehydrogenase - metabolism</topic><topic>Metabolism</topic><topic>Metabolites</topic><topic>Mission oriented research</topic><topic>Models, Biological</topic><topic>Molecular Sequence Data</topic><topic>Multigene Family</topic><topic>nucleotide sequences</topic><topic>Oligonucleotide Array Sequence Analysis</topic><topic>Open Reading Frames</topic><topic>Oxidative Stress</topic><topic>Plasmids - metabolism</topic><topic>RNA - chemistry</topic><topic>Sequence Analysis, DNA</topic><topic>Signal transduction</topic><topic>Transcription, Genetic</topic><topic>Tricarboxylic Acids - metabolism</topic><topic>Zymomonas - genetics</topic><topic>Zymomonas 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Biotechnol</addtitle><date>2005</date><risdate>2005</risdate><volume>23</volume><issue>1</issue><spage>63</spage><epage>68</epage><pages>63-68</pages><issn>1087-0156</issn><eissn>1546-1696</eissn><coden>NABIF9</coden><abstract>We report the complete genome sequence of
Zymomonas mobilis
ZM4 (ATCC31821), an ethanologenic microorganism of interest for the production of fuel ethanol. The genome consists of 2,056,416 base pairs forming a circular chromosome with 1,998 open reading frames (ORFs) and three ribosomal RNA transcription units. The genome lacks recognizable genes for 6-phosphofructokinase, an essential enzyme in the Embden-Meyerhof-Parnas pathway, and for two enzymes in the tricarboxylic acid cycle, the 2-oxoglutarate dehydrogenase complex and malate dehydrogenase, so glucose can be metabolized only by the Entner-Doudoroff pathway. Whole genome microarrays were used for genomic comparisons with the
Z. mobilis
type strain ZM1 (ATCC10988) revealing that 54 ORFs predicted to encode for transport and secretory proteins, transcriptional regulators and oxidoreductase in the ZM4 strain were absent from ZM1. Most of these ORFs were also found to be actively transcribed in association with ethanol production by ZM4.</abstract><cop>London</cop><pub>Nature Publishing Group UK</pub><pmid>15592456</pmid><doi>10.1038/nbt1045</doi><tpages>6</tpages><oa>free_for_read</oa></addata></record> |
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| ispartof | Nature biotechnology, 2005, Vol.23 (1), p.63-68 |
| issn | 1087-0156 1546-1696 |
| language | eng |
| recordid | cdi_pubmedcentral_primary_oai_pubmedcentral_nih_gov_6870993 |
| source | MEDLINE; SpringerLink Journals (MCLS); Nature |
| subjects | Agriculture alcoholic fermentation Bioinformatics Biological and medical sciences Biological Transport Biology of microorganisms of confirmed or potential industrial interest Biomedical Engineering/Biotechnology Biomedicine Biosynthesis Biotechnology Cell cycle Chromosomes Dehydrogenase Dehydrogenases DNA - chemistry Ethanol Ethanol - chemistry Ethanol - metabolism ethanol production Fundamental and applied biological sciences. Psychology Genetics Genome Genome, Bacterial Genomes genomics Glucose Ketoglutarate Dehydrogenase Complex - metabolism Life Sciences Malate Dehydrogenase - metabolism Metabolism Metabolites Mission oriented research Models, Biological Molecular Sequence Data Multigene Family nucleotide sequences Oligonucleotide Array Sequence Analysis Open Reading Frames Oxidative Stress Plasmids - metabolism RNA - chemistry Sequence Analysis, DNA Signal transduction Transcription, Genetic Tricarboxylic Acids - metabolism Zymomonas - genetics Zymomonas mobilis |
| title | genome sequence of the ethanologenic bacterium Zymomonas mobilis ZM4 |
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