Transition from a prokaryotic bacteria to yeast.

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Currently I'm looking into 3 aspects of the transition to yeast:

1. Subcloning into a yeast expression plasmid.

Lucas Argueso claims that this is quite easy.

2. Codon bias.

The issue in Codon bias is that different organisms can produce different RNA's much easier. If the RNA used in a codon is uncommon, it is likely to die off. Using the codon bias tools below, there is a strong indication that the Bio-brick UW developed last year uses a lot of RNA uncommon in yeast. It is likely that this strain will die out in yeast very quickly. However, the Codons can be altered to use more common RNA, which would make the odds of replication greater. An optimized sequence is given by the final two links, and I am now investigating methods of synthesizing such a sequence.

This is a tool for analyzing the codon bias of a given protein strand in a specific organism.

Another tool for analyzing the codon bias of a given protein strand in a specific organism.

This gives optimized nucleic acid sequence for a given amino acid sequence.

3. Secreting enzyme into beer.

Steven is currently taking the lead on this research. See his page for more information, but a useful background article is given below.

https://static.igem.org/mediawiki/2008/2/27/JHU_0708_paper_ForeignGeneExpression.pdf

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 . Subcloning into a yeast expression plasmid.
+Lucas Argueso claims that this is quite easy.
 . Codon bias.
-I'm still unsure of the process and necessity, but we may need to use different codons in Yeast than are used in E. Coli.  So, I've tried to find some info on the codons in both. [http://www.jbc.org/content/257/6/3026.full.pdf Yeast Codon bias]. [http://www.sci.sdsu.edu/~smaloy/MicrobialGenetics/topics/in-vitro-genetics/codon-usage.html E. Coli Codon bias]. [[http://mbe.library.arizona.edu/data/1985/0201/2ikem.pdf Direct Comparison of E.coli and Yeast].
+The issue in Codon bias is that different organisms can produce different RNA's much easier.  If the RNA used in a codon is uncommon, it is likely to die off.  Using the codon bias tools below, there is a strong indication that the Bio-brick UW developed last year uses a lot of RNA uncommon in yeast.  It is likely that this strain will die out in yeast very quickly.  However, the Codons can be altered to use more common RNA, which would make the odds of replication greater.  An optimized sequence is given by the final two links, and I am now investigating methods of synthesizing such a sequence.
 [http://www.genscript.com/cgi-bin/tools/rare_codon_analysis This is a tool for analyzing the codon bias of a given protein strand in a specific organism].
-[http://www.vivo.colostate.edu/molkit/translate/index.html Another tool for analyzing the codon bias of a given protein strand in a specific organism].
+[http://www.jcat.de/ Another tool for analyzing the codon bias of a given protein strand in a specific organism].
 [http://www.encorbio.com/protocols/Codon.htm This gives optimized nucleic acid sequence for a given amino acid sequence].
-[http://www.annualreviews.org/doi/pdf/10.1146/annurev.genet.42.110807.091442 Potentially helpful article].
 . Secreting enzyme into beer.
+Steven is currently taking the lead on this research.  See his page for more information, but a useful background article is given below.
 https://static.igem.org/mediawiki/2008/2/27/JHU_0708_paper_ForeignGeneExpression.pdf