The genome sequence of the ethanologenic bacterium Zymomonas mobil is ZM4

Jeong Sun Seo; Hyonyong Chong; Hyun Seok Park; Kyoung Oh Yoon; Cholhee Jung; Jae Joon Kim; Jin Han Hong; Hyungtae Kim; Jeong Hyun Kim; Joon Il Kil; Cheol Ju Park; Hyun Myung Oh; Jung Soon Lee; Su Jung Jin; Hye Won Um; Hee Jong Lee; Soo Jin Oh; Jae Young Kim; Hyung Lyun Kang; Se Yong Lee; Kye Joon Lee; Hyen Sam Kang

doi:10.1038/nbt1045

The genome sequence of the ethanologenic bacterium Zymomonas mobil is ZM4

Jeong Sun Seo, Hyonyong Chong, Hyun Seok Park, Kyoung Oh Yoon, Cholhee Jung, Jae Joon Kim, Jin Han Hong, Hyungtae Kim, Jeong Hyun Kim, Joon Il Kil, Cheol Ju Park, Hyun Myung Oh, Jung Soon Lee, Su Jung Jin, Hye Won Um, Hee Jong Lee, Soo Jin Oh, Jae Young Kim, Hyung Lyun Kang, Se Yong LeeKye Joon Lee, Hyen Sam Kang

Computer Science & Engineering

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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. mobilistype 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.

Original language	English
Pages (from-to)	63-68
Number of pages	6
Journal	Nature Biotechnology
Volume	23
Issue number	1
DOIs	https://doi.org/10.1038/nbt1045
State	Published - 2005

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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., Park, C. J., Oh, H. M., Lee, J. S., Jin, S. J., Um, H. W., Lee, H. J., Oh, S. J., Kim, J. Y., Kang, H. L., ... Kang, H. S. (2005). The genome sequence of the ethanologenic bacterium Zymomonas mobil is ZM4. Nature Biotechnology, 23(1), 63-68. https://doi.org/10.1038/nbt1045

@article{81bae73ecb3c4b8b80bc6d3e3f2fa2ce,

title = "The genome sequence of the ethanologenic bacterium Zymomonas mobil is ZM4",

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. mobilistype 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.",

author = "Seo, {Jeong Sun} and Hyonyong Chong and Park, {Hyun Seok} and Yoon, {Kyoung Oh} and Cholhee Jung and Kim, {Jae Joon} and Hong, {Jin Han} and Hyungtae Kim and Kim, {Jeong Hyun} and Kil, {Joon Il} and Park, {Cheol Ju} and Oh, {Hyun Myung} and Lee, {Jung Soon} and Jin, {Su Jung} and Um, {Hye Won} and Lee, {Hee Jong} and Oh, {Soo Jin} and Kim, {Jae Young} and Kang, {Hyung Lyun} and Lee, {Se Yong} and Lee, {Kye Joon} and Kang, {Hyen Sam}",

note = "Funding Information: We are very grateful to Peter L. Rogers and Keith Chater for thoughtful advice and discussions throughout the experimentation and manuscript preparation. H.S.K. would especially like to thank President Y.S. Song, for lending the automatic DNA sequencer Licor. This work was supported by an IMT-2000 grant from the Korean Ministry of Information and Communication and the Korean Ministry of Commerce, Industry and Energy [00016103]. J.S.L., S.J.J., H.W.U., H.J.L., S.J.O. and J.Y.K. were supported by a BK21 Research Fellowship from the Korean Ministry of Education and Human Resources Development.",

year = "2005",

doi = "10.1038/nbt1045",

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AU - Seo, Jeong Sun

AU - Chong, Hyonyong

AU - Park, Hyun Seok

AU - Yoon, Kyoung Oh

AU - Jung, Cholhee

AU - Kim, Jae Joon

AU - Hong, Jin Han

AU - Kim, Hyungtae

AU - Kim, Jeong Hyun

AU - Kil, Joon Il

AU - Park, Cheol Ju

AU - Oh, Hyun Myung

AU - Lee, Jung Soon

AU - Jin, Su Jung

AU - Um, Hye Won

AU - Lee, Hee Jong

AU - Oh, Soo Jin

AU - Kim, Jae Young

AU - Kang, Hyung Lyun

AU - Lee, Se Yong

AU - Lee, Kye Joon

AU - Kang, Hyen Sam

N1 - Funding Information: We are very grateful to Peter L. Rogers and Keith Chater for thoughtful advice and discussions throughout the experimentation and manuscript preparation. H.S.K. would especially like to thank President Y.S. Song, for lending the automatic DNA sequencer Licor. This work was supported by an IMT-2000 grant from the Korean Ministry of Information and Communication and the Korean Ministry of Commerce, Industry and Energy [00016103]. J.S.L., S.J.J., H.W.U., H.J.L., S.J.O. and J.Y.K. were supported by a BK21 Research Fellowship from the Korean Ministry of Education and Human Resources Development.

PY - 2005

Y1 - 2005

N2 - 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. mobilistype 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.

AB - 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. mobilistype 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.

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DO - 10.1038/nbt1045

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VL - 23

SP - 63

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JO - Nature Biotechnology

JF - Nature Biotechnology

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ER -

The genome sequence of the ethanologenic bacterium Zymomonas mobil is ZM4

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