Team:NYMU-Taipei/ymis2.html

From 2012.igem.org

(Difference between revisions)
(Created page with "<html xmlns="http://www.w3.org/1999/xhtml"> <head> <meta http-equiv="Content-Type" content="text/html; charset=utf-8" /> <title>NYMU iGEM</title> <link href="http://www.royals.co...")
Line 87: Line 87:
    
    
   <div class=out style='text-align:center'>
   <div class=out style='text-align:center'>
-
     <img border="0" src="images/s3.gif" align="center" alt="" width="573" height="301" /><br />
+
     <img border="0" src="http://igem.org/wiki/images/1/13/Ymis3.gif" align="center" alt="" width="573" height="301" /><br />
Desulfovibrio desulfuricans under microscopy and culture with Desulfovibrio medium  http://en.wikipedia.org/wiki/File:Dvulgaris_micrograph.JPG
Desulfovibrio desulfuricans under microscopy and culture with Desulfovibrio medium  http://en.wikipedia.org/wiki/File:Dvulgaris_micrograph.JPG
     </div>
     </div>
Line 93: Line 93:
     <br />
     <br />
       <div class=out style='text-align:center'>
       <div class=out style='text-align:center'>
-
     <img src="images/s4.gif" alt="" width="413" height="258" /><br />
+
     <img src="http://igem.org/wiki/images/9/94/Ymis4.jpg" alt="" width="413" height="258" /><br />
     <p align="center">We want to complete the  sulfur metabolism pathway of cyanobacteria <br />
     <p align="center">We want to complete the  sulfur metabolism pathway of cyanobacteria <br />
       <a href="http://www.genome.jp/kegg-bin/show_pathway?map00920">http://www.genome.jp/kegg-bin/show_pathway?map00920</a></p>
       <a href="http://www.genome.jp/kegg-bin/show_pathway?map00920">http://www.genome.jp/kegg-bin/show_pathway?map00920</a></p>
Line 107: Line 107:
     <p>Sulfite reductases have two types, that is,  membrane form(located on cell membrane) and free form(located inside cell  membrane). Among which, free form are the best choice since the folding and  structure are more stable. We use bioinformation tools-  ExPASy(<a href="http://expasy.org/">http://expasy.org/</a>) to  predict the transmembrane domain of each sulfite reductase. The result shows  that Dsr I, DsrI and Cys I enzymes don&rsquo;t have any transmembrane domain. That  is, they might be free form enzymes. As the result, we combine DsrI and DsrII  gene to form &ldquo;Dsr&rdquo;. We use &ldquo;Dsr&rdquo; and &ldquo;CysI&rdquo; gene, two sulfite reductase from  different bacteria, as our target gene in this part. <br />
     <p>Sulfite reductases have two types, that is,  membrane form(located on cell membrane) and free form(located inside cell  membrane). Among which, free form are the best choice since the folding and  structure are more stable. We use bioinformation tools-  ExPASy(<a href="http://expasy.org/">http://expasy.org/</a>) to  predict the transmembrane domain of each sulfite reductase. The result shows  that Dsr I, DsrI and Cys I enzymes don&rsquo;t have any transmembrane domain. That  is, they might be free form enzymes. As the result, we combine DsrI and DsrII  gene to form &ldquo;Dsr&rdquo;. We use &ldquo;Dsr&rdquo; and &ldquo;CysI&rdquo; gene, two sulfite reductase from  different bacteria, as our target gene in this part. <br />
     </p>
     </p>
-
     <div class="out" style='text-align:center'> <img border="0" src="images/s5.gif" align="center" alt="" width="573" height="301" /><br />
+
     <div class="out" style='text-align:center'> <img border="0" src="http://igem.org/wiki/images/e/ee/Ymis5.gif" align="center" alt="" width="573" height="301" /><br />
       Membrane electronic prediction shows that no  transmembrane domain exist</div>
       Membrane electronic prediction shows that no  transmembrane domain exist</div>
     <br />
     <br />

Revision as of 03:35, 27 September 2012

NYMU iGEM

Paper-Based Research

Paper Survey and Bioinformatic Searching

In order to realize whole sulfur metabolism pathway, we use several bioinformation web site such as KEGG(http://www.genome.jp/kegg) and NCBI(http://www.ncbi.nlm.nih.gov/pubmed) . We can find out several important enzyme to reach our goal- digest SOX and produce H2S for further metabolism pathway in our artificial creatures. According to a research done by Prof. Werner Badziong (Growth Yields and Growth Rates of. Desulfovibrio  vulgaris (Marburg) Growing on Hydrogen plus Sulfate and Hydrogen plus Thiosulfate as the Sole Energy Sources, Arch. Microbiol. 117, 209-214 [1978]), four enzyme are involved to produace H2S. They are ATP sulfurylase, APS reductase, sulfite reductase and pyrophosphatase. Completing 1.8.99.1, sulfite reductase, we clone it from a sulfur reducing bacteria(SRB), desulfovibrio desulfuricans, known as DsrI and DsrII. We also clone 1.8.99.1, sulfite reductase from pseudomonas aeruginosa PAOI, which is Cys I.


Desulfovibrio desulfuricans under microscopy and culture with Desulfovibrio medium http://en.wikipedia.org/wiki/File:Dvulgaris_micrograph.JPG



We want to complete the sulfur metabolism pathway of cyanobacteria
http://www.genome.jp/kegg-bin/show_pathway?map00920


Bioinformatic Analysis of Enzyme Trans-Membrane Domain

Sulfite reductases have two types, that is, membrane form(located on cell membrane) and free form(located inside cell membrane). Among which, free form are the best choice since the folding and structure are more stable. We use bioinformation tools- ExPASy(http://expasy.org/) to predict the transmembrane domain of each sulfite reductase. The result shows that Dsr I, DsrI and Cys I enzymes don’t have any transmembrane domain. That is, they might be free form enzymes. As the result, we combine DsrI and DsrII gene to form “Dsr”. We use “Dsr” and “CysI” gene, two sulfite reductase from different bacteria, as our target gene in this part.


Membrane electronic prediction shows that no transmembrane domain exist