Difference between revisions of "SURF 2015: Design space exploration of the violacein pathway in TX-TL"

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*Co-mentor: Shaobin Guo and Yong Wu
*Co-mentor: Shaobin Guo and Yong Wu


Violacein is a water-insoluble violet pigment that naturally exists in a few bacteria (Jiang, 2010 & Pantanella, 2007). Violacein has the potential applications in antibacterial, anti-trypanocidal, anti-ulcerogenic, and anticancer drugs (Balibar, 2006). The pathway to produce violacein from tryptophan consists of five enzymes vioA-E (Hoshino, 2011).  The pathway is NADPH dependent and consumes oxygen. The various enzymes involved in the pathway could also lead to the production of a few colorful byproducts, which might interfere with fluorescence signals when plate reader is used. The goal of the project is to characterize the violacein pathway using cell-free transcription and translational (TX-TL) system. Student will take advantage of the TX-TL system to explore ways to improve violacein production.  
Violacein is a water-insoluble violet pigment that naturally exists in a few bacteria (Jiang, 2010 & Pantanella, 2007). Violacein has the potential applications in antibacterial, anti-trypanocidal, anti-ulcerogenic, and anticancer drugs (Balibar, 2006). The pathway to produce violacein from tryptophan consists of five enzymes vioA-E (Hoshino, 2011).  The pathway is NADPH dependent and consumes oxygen. The various enzymes involved in the pathway could also lead to the production of a few colorful byproducts, which might interfere with fluorescence signals when plate reader is used. The goal of the project is to characterize the violacein pathway using cell-free transcription and translational (TX-TL) system (Sun, 2013). Student will take advantage of the TX-TL system to explore ways to improve violacein production.  


References:  
References:  
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Hoshino, T. (2011). "[http://link.springer.com/article/10.1007%2Fs00253-011-3468-z Violacein and related tryptophan metabolites produced by Chromobacterium violaceum: biosynthetic mechanism and pathway for construction of violacein core]." Applied Microbiology and Biotechnology 91(6):1463-1475.
Hoshino, T. (2011). "[http://link.springer.com/article/10.1007%2Fs00253-011-3468-z Violacein and related tryptophan metabolites produced by Chromobacterium violaceum: biosynthetic mechanism and pathway for construction of violacein core]." Applied Microbiology and Biotechnology 91(6):1463-1475.
Jiang, P.-x., et al. (2010). "Reconstruction of the violacein biosynthetic pathway from Duganella sp. B2 in different heterologous hosts." Applied Microbiology and Biotechnology 86(4): 1077-1088.
Jiang, P.-x., et al. (2010). "[http://link.springer.com/article/10.1007%2Fs00253-009-2375-z Reconstruction of the violacein biosynthetic pathway from Duganella sp. B2 in different heterologous hosts]." Applied Microbiology and Biotechnology 86(4): 1077-1088.
[http://link.springer.com/article/10.1007%2Fs00253-009-2375-z]


Pantanella, F., et al. (2007). "Violacein and biofilm production in Janthinobacterium lividum." Journal of Applied Microbiology 102(4): 992-999.
http://onlinelibrary.wiley.com/doi/10.1111/j.1365-2672.2006.03155.x/full


Pantanella, F., et al. (2007). "[http://onlinelibrary.wiley.com/doi/10.1111/j.1365-2672.2006.03155.x/full Violacein and biofilm production in Janthinobacterium lividum]." Journal of Applied Microbiology 102(4): 992-999.


Sun, Z. Z., et al. (2013). "Protocols for Implementing an Escherichia coli Based TX-TL Cell-Free Expression System for Synthetic Biology." (79): e50762.
Sun, Z. Z., et al. (2013). "[http://www.jove.com/video/50762/protocols-for-implementing-an-escherichia-coli-based-tx-tl-cell-free Protocols for Implementing an Escherichia coli Based TX-TL Cell-Free Expression System for Synthetic Biology]." (79): e50762.
http://www.jove.com/video/50762/protocols-for-implementing-an-escherichia-coli-based-tx-tl-cell-free


Sun, Z. Z., et al. (2013). "Linear DNA for Rapid Prototyping of Synthetic Biological Circuits in an Escherichia coli Based TX-TL Cell-Free System." ACS Synthetic Biology.
Sun, Z. Z., et al. (2013). "[http://pubs.acs.org/doi/abs/10.1021/sb400131a Linear DNA for Rapid Prototyping of Synthetic Biological Circuits in an Escherichia coli Based TX-TL Cell-Free System]." ACS Synthetic Biology.
http://pubs.acs.org/doi/abs/10.1021/sb400131a

Revision as of 20:17, 19 December 2014

  • Mentor: Richard Murray
  • Co-mentor: Shaobin Guo and Yong Wu

Violacein is a water-insoluble violet pigment that naturally exists in a few bacteria (Jiang, 2010 & Pantanella, 2007). Violacein has the potential applications in antibacterial, anti-trypanocidal, anti-ulcerogenic, and anticancer drugs (Balibar, 2006). The pathway to produce violacein from tryptophan consists of five enzymes vioA-E (Hoshino, 2011). The pathway is NADPH dependent and consumes oxygen. The various enzymes involved in the pathway could also lead to the production of a few colorful byproducts, which might interfere with fluorescence signals when plate reader is used. The goal of the project is to characterize the violacein pathway using cell-free transcription and translational (TX-TL) system (Sun, 2013). Student will take advantage of the TX-TL system to explore ways to improve violacein production.

References:

Balibar, C. J. and C. T. Walsh (2006). "In Vitro Biosynthesis of Violacein from l-Tryptophan by the Enzymes VioA−E from Chromobacterium violaceum." Biochemistry 45(51): 15444-15457. [1]

Hoshino, T. (2011). "Violacein and related tryptophan metabolites produced by Chromobacterium violaceum: biosynthetic mechanism and pathway for construction of violacein core." Applied Microbiology and Biotechnology 91(6):1463-1475.

Jiang, P.-x., et al. (2010). "Reconstruction of the violacein biosynthetic pathway from Duganella sp. B2 in different heterologous hosts." Applied Microbiology and Biotechnology 86(4): 1077-1088.


Pantanella, F., et al. (2007). "Violacein and biofilm production in Janthinobacterium lividum." Journal of Applied Microbiology 102(4): 992-999.

Sun, Z. Z., et al. (2013). "Protocols for Implementing an Escherichia coli Based TX-TL Cell-Free Expression System for Synthetic Biology." (79): e50762.

Sun, Z. Z., et al. (2013). "Linear DNA for Rapid Prototyping of Synthetic Biological Circuits in an Escherichia coli Based TX-TL Cell-Free System." ACS Synthetic Biology.