Difference between revisions of "Part:BBa K3724013"

 
 
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<partinfo>BBa_K3724013 short</partinfo>
 
<partinfo>BBa_K3724013 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 is a component of the riboflavin gene cluster to be used in reduction of graphene oxide.  
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<i>rib d</i> encodes the riboflavin biosynthesis protein rib D which converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)-pyrimidinedione 5'-phosphate in the riboflavin biosynthesis pathway in <i> Shewanella oneidensis MR-1</i>. This gene 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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<i>rib d</i> encodes the riboflavin biosynthesis protein rib D which converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)-pyrimidinedione 5'-phosphate.
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This protein is essential for the production of riboflavin in the riboflavin biosynthesis pathway of <i> S. oneidensis MR-1 </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 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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<partinfo>BBa_K3724013 SequenceAndFeatures</partinfo>
 
<partinfo>BBa_K3724013 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>
  
 
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Latest revision as of 03:15, 22 October 2021


Riboflavin biosynthesis protein RibD

rib d encodes the riboflavin biosynthesis protein rib D which converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)-pyrimidinedione 5'-phosphate in the riboflavin biosynthesis pathway in Shewanella oneidensis MR-1. This gene 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]. rib d encodes the riboflavin biosynthesis protein rib D which converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)-pyrimidinedione 5'-phosphate. This protein is essential for the production of riboflavin in the riboflavin biosynthesis pathway of S. oneidensis MR-1 . 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 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 1169

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.