Difference between revisions of "Part:BBa K3724014"

 
 
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<partinfo>BBa_K3724014 short</partinfo>
 
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Two extracellular electron transfer pathways have been identified in the reduction of graphene oxide (GO) by Shewanella oneidensis. These are indirect electron transfer, mediated by secreted electron shuttles, and direct extracellular electron transfer (DET) which involves direct contact with the extracellular material. It has been proposed that flavins may act as electron shuttles in the reduction of extracellular material by Shewanella oneidensis. This consists of the sequences in the riboflavin gene cluster.  
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This gene cluster consists of the genes <i>SO_3468</i>, <i>rib ba</i> and <i>ribe</i> which are genes that encode proteins involved in the riboflavin biosynthesis pathway in <i> Shewanella oneidensis MR-1</i>. This gene cluster makes up a component of the riboflavin synthesis gene cluster ([https://parts.igem.org/wiki/index.php?title=Part:BBa_K3724015 BBa_K3724015]).
  
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===Usage and Biology===
 
===Usage and Biology===
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<i>Shewanella oneidensis MR-1</i> are gram-negative bacteria at the center of studies of microbial reduction due to their ability to transfer electrons extracellularly to reduce materials such as graphene oxide (GO) [1]. Such characteristics have made <i>S. oneidensis MR-1</i> an organism of interest in microbial fuel cells for bioelectricity generation and potential applications in bioremediation [2].
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Two extracellular electron transfer pathways have been identified in the reduction of GO by <i>Shewanella oneidensis MR-1</i>. These are indirect electron transfer, mediated by secreted electron shuttles, and direct extracellular electron transfer (DET) which involves direct contact with the extracellular material [3].
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The <i>SO_3468+ribBA+ribE cluster</i> encodes the riboflavin synthase alpha subunit (SO_3468) which catalyzes the formation of riboflavin and 5-amino-6-(D-ribitylamino)uracil from two molecules of 6,7-dimethyl-8-ribityllumazine, the GTP cyclohydrolase-2 (ribA) which catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate , formate and pyrophosphate, 3,4-dihydroxy-2-butanone-4-phosphate synthase (ribB) which catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate  and riboflavin synthase beta subunit (RibE) which catalyzes the formation of 6,7-dimethyl-8-ribityllumazine by condensation of 5-amino-6-(D-ribitylamino)uracil with 3,4-dihydroxy-2- butanone 4-phosphate.
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These proteins are essential for the production of riboflavin in the riboflavin biosynthesis pathway of <i> S. oneidensis </i>. It has been proposed that flavins may act as electron shuttles in the reduction of extracellular material by <i>S. oneidensis MR-1</i> [4]. Therefore, this gene cluster was used in the construction of the riboflavin synthesis gene cluster ([https://parts.igem.org/wiki/index.php?title=Part:BBa_K3724015 BBa_K3724015]) to increase the production of riboflavin in <i>S. oneidensis MR-1</i> for increased rate of reduction of graphene oxide.
  
 
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<span class='h3bb'>Sequence and Features</span>
 
<span class='h3bb'>Sequence and Features</span>
 
<partinfo>BBa_K3724014 SequenceAndFeatures</partinfo>
 
<partinfo>BBa_K3724014 SequenceAndFeatures</partinfo>
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===References===
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[1] Wang, G.; Qian, F.; Saltikov, C. W.; Jiao, Y.; Li, Y. Microbial Reduction of Graphene Oxide by Shewanella. Nano Research 2011, 4, 563–570. <br>
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[2] Schwalb, C.; Chapman, S. K.; Reid, G. A. The Tetraheme Cytochrome Cyma Is Required for Anaerobic Respiration with Dimethyl Sulfoxide and Nitrite in Shewanella Oneidensis. Biochemistry 2003, 42, 9491–9497. <br>
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[3] Lin, T.; Ding, W.; Sun, L.; Wang, L.; Liu, C.-G.; Song, H. Engineered Shewanella Oneidensis-Reduced Graphene Oxide Biohybrid with Enhanced Biosynthesis and Transport of Flavins Enabled a Highest Bioelectricity Output in Microbial Fuel Cells. <br>
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[4] Kouzuma, A.; Kasai, T.; Hirose, A.; Watanabe, K. Catabolic and Regulatory Systems in Shewanella Oneidensis MR-1 Involved in Electricity Generation in Microbial Fuel Cells. Frontiers in Microbiology 2015, 6. <br>
  
  

Latest revision as of 03:09, 22 October 2021


SO_3468+ribBA+ribE cluster

This gene cluster consists of the genes SO_3468, rib ba and ribe which are genes that encode proteins involved in the riboflavin biosynthesis pathway in Shewanella oneidensis MR-1. This gene cluster makes up a component of the riboflavin synthesis gene cluster (BBa_K3724015).

Usage and Biology

Shewanella oneidensis MR-1 are gram-negative bacteria at the center of studies of microbial reduction due to their ability to transfer electrons extracellularly to reduce materials such as graphene oxide (GO) [1]. Such characteristics have made S. oneidensis MR-1 an organism of interest in microbial fuel cells for bioelectricity generation and potential applications in bioremediation [2]. Two extracellular electron transfer pathways have been identified in the reduction of GO by Shewanella oneidensis MR-1. These are indirect electron transfer, mediated by secreted electron shuttles, and direct extracellular electron transfer (DET) which involves direct contact with the extracellular material [3].

The SO_3468+ribBA+ribE cluster encodes the riboflavin synthase alpha subunit (SO_3468) which catalyzes the formation of riboflavin and 5-amino-6-(D-ribitylamino)uracil from two molecules of 6,7-dimethyl-8-ribityllumazine, the GTP cyclohydrolase-2 (ribA) which catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate , formate and pyrophosphate, 3,4-dihydroxy-2-butanone-4-phosphate synthase (ribB) which catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate and riboflavin synthase beta subunit (RibE) which catalyzes the formation of 6,7-dimethyl-8-ribityllumazine by condensation of 5-amino-6-(D-ribitylamino)uracil with 3,4-dihydroxy-2- butanone 4-phosphate. These proteins are essential for the production of riboflavin in the riboflavin biosynthesis pathway of S. oneidensis . It has been proposed that flavins may act as electron shuttles in the reduction of extracellular material by S. oneidensis MR-1 [4]. Therefore, this gene cluster was used in the construction of the riboflavin synthesis gene cluster (BBa_K3724015) to increase the production of riboflavin in S. oneidensis MR-1 for increased rate of reduction of graphene oxide.

Sequence and Features


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    COMPATIBLE WITH RFC[12]
  • 21
    COMPATIBLE WITH RFC[21]
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    COMPATIBLE WITH RFC[25]
  • 1000
    INCOMPATIBLE WITH RFC[1000]
    Illegal BsaI site found at 7
    Illegal BsaI.rc site found at 2373

References

[1] Wang, G.; Qian, F.; Saltikov, C. W.; Jiao, Y.; Li, Y. Microbial Reduction of Graphene Oxide by Shewanella. Nano Research 2011, 4, 563–570.
[2] Schwalb, C.; Chapman, S. K.; Reid, G. A. The Tetraheme Cytochrome Cyma Is Required for Anaerobic Respiration with Dimethyl Sulfoxide and Nitrite in Shewanella Oneidensis. Biochemistry 2003, 42, 9491–9497.
[3] Lin, T.; Ding, W.; Sun, L.; Wang, L.; Liu, C.-G.; Song, H. Engineered Shewanella Oneidensis-Reduced Graphene Oxide Biohybrid with Enhanced Biosynthesis and Transport of Flavins Enabled a Highest Bioelectricity Output in Microbial Fuel Cells.
[4] Kouzuma, A.; Kasai, T.; Hirose, A.; Watanabe, K. Catabolic and Regulatory Systems in Shewanella Oneidensis MR-1 Involved in Electricity Generation in Microbial Fuel Cells. Frontiers in Microbiology 2015, 6.