Team:NYMU-Taipei/ymiparts.html

From 2012.igem.org

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<div class="title">Extras</div>
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<div class="title">Parts</div>
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   <p><span class="subtitle">Achievements</span></p>
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   <p><span class="subtitle">Data for Our Favourite New Parts</span></p>
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   <p><img src="http://igem.org/wiki/images/c/c8/Ymicheck.gif" alt=""width="35" /> We have already <a href="http://igem.org/Team_List?year=2012"><b>registered</b></a> a team, work hard in summer, </p>
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   <ol start="1" type="1">
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  <p style="margin-left:40px;">and ready to join Jamboree!!.</p>
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    <li><a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K896000"><strong>Main Page</strong></a>&nbsp;-&nbsp;<strong>SQR(sulfide       quinone reductase), BBa_K896000</strong>: Sulfide-dependent anoxygenic      photosynthesis, driven by photosystem I (PS/I) alone, among cyanobacteria      was first described for Oscillatoria limnetica from Solar Lake. Later      photosynthetic sulfide oxidation in O. limnetica led to the discovery of      sulfide-quinone reductase (SQR; E.C.1.8.5.), a novel enzyme that transfers      electrons from sulfide into the quinone pool.<br />
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  <br />
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      <br />
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  <p><img src="http://igem.org/wiki/images/c/c8/Ymicheck.gif" alt=""width="35" /> We have already completed and submit our judging form.</p>
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    </li>
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  <br />
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    <li><a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K896001"><strong>Main Page</strong></a>&nbsp;-&nbsp;<strong>CysI       (surfite reductase), BBa_K896001</strong>: We have successfully expressed and photoconverted      this protein in&nbsp;<em>E. coli</em>&nbsp;cells. It reduces (HSO3)-       to H2S using the embedded electron transfer system in E.coli<br />
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  <p><img src="http://igem.org/wiki/images/c/c8/Ymicheck.gif" alt=""width="35" /> We have not only finished our project description on <a href="http://2012.igem.org/Team:NYMU-Taipei"><b>iGEM wiki</b></a>, </p>
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      <br />
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  <p style="margin-left:40px;">but also completed 80% of our big plan!!</p>
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     </li>
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  <br />
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    <li><a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K896002"><strong>Main Page</strong></a>&nbsp;-&nbsp;<strong>DsrI-DsrII(surfite      reductase), BBa_K896002</strong>: There are two sulfite reductase operon, DsrI      and DsrII, inside Desulfovibrio desulfuricans. They might be membrane form      Dsr operon and free form Dsr operon. The Dsr gene&rsquo;s construction in      E.coli, cyanobacteria and used bacteria to remove SO2 in our environment      has been accomplished by us.<br />
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  <p><img src="http://igem.org/wiki/images/c/c8/Ymicheck.gif" alt=""width="35" /> We have well prepared for presentation in iGEM Jamboree and be sure, </p>
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      <br />
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  <p style="margin-left:40px;">it’s gonna be a fantastic one!!</p>
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    </li>
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  <br />
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   </ol>
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  <p><img src="http://igem.org/wiki/images/c/c8/Ymicheck.gif" alt=""width="35" /> In our project, we have already established several standard <a href="http://2012.igem.org/Ymiparts.html"><b>BioBrick Parts </b></a></p>
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  <p style="margin-left:40px;">in the Registry of Standard Biological Parts.</p>
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  <br />
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  <p><img src="http://igem.org/wiki/images/c/c8/Ymicheck.gif" alt=""width="35" /> In our project, we’ve already performed experiments to demonstrate </p>
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  <p style="margin-left:40px;">that our new BioBrick Part work!! For example, <a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K896000"><b>SQR(sulfide quinone reductase, </b></a></p>
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  <p style="margin-left:40px;"><a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K896000"><b>BBa_K896000) </b></a>, <a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K896001"><b>CysI(surfur reductase, BBa_K896001) </b></a>, and <a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K896002"><b>Dsr (surfur reductase, </b></a></p>
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  <p style="margin-left:40px;"><a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K896002"><b>BBa_K896002) </b></a>!!</p>
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<br />
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  <p><img src="http://igem.org/wiki/images/c/c8/Ymicheck.gif" alt=""width="35" /> We have characterised several of our <a href="http://2012.igem.org/Ymiparts.html"><b>BioBricks</b></a>. </p>
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  <p style="margin-left:40px;">Our favourites are <a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K896000" ><b>SQR(sulfide quinone reductase, BBa_K896000) </b></a>,</p>
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  <p style="margin-left:40px;"><a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K896001"><b>CysI(surfur reductase, BBa_K896001) </b></a>, and <a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K896002"><b>Dsr (surfur reductase, BBa_K896002) </b></a></p>
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  <p style="margin-left:40px;">We’ve already characterized the operation of your new part/device, such as decrease </p>
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  <p style="margin-left:40px;">SOX, NOX in the environment, create a new bioremediation with our artificial cyanobacteria.</p>
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  <p style="margin-left:40px;">Fortunately, they are the same as our expected!!<br />
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     <br />
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  </p>
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  <p><img src="http://igem.org/wiki/images/c/c8/Ymicheck.gif" alt=""width="35" /> We’ve already modified several existing BioBrick Part, and used experiment </p>
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  <p style="margin-left:40px;">to prove the function<a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K299812"><b>Inv+LLO+RFP (reporter for invasin &amp; listeriolysin) BBa_K299812</b></a>. </p>
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  <p style="margin-left:40px;">We successfully fused the old one with  our project and further elevated our idea to</p>
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  <p style="margin-left:40px;"> a higher level, to create venusian!!</p>
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  <br />
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  <p><img src="http://igem.org/wiki/images/c/c8/Ymicheck.gif" alt=""width="35" /> We have already cooperated with <a href="http://2012.igem.org/Ymico.html"><b>NTU-Taida </b></a>!! not only to further</p>
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  <p style="margin-left:40px;"> accelerated our progression, also debugged with each other for win-win situation!!</p>
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  <br />
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  <p><img src="http://igem.org/wiki/images/c/c8/Ymicheck.gif" alt=""width="35" /> We are absolutely glad to help other iGEMers!! We’ve already shared our </p>
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  <p style="margin-left:40px;">experiences with NTU-Taida. Also, we’ve held a <a href="http://2012.igem.org/Ymihpa.html"><b>meet-up </b></a> with invited NTU-Taida and </p>
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  <p style="margin-left:40px;">NCTU_Formosa iGEMers.</p>
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  <br />
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  <p><img src="http://igem.org/wiki/images/c/c8/Ymicheck.gif" alt=""width="35" /> Human practice is the most colorful part inside our project!! </p>
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   <p style="margin-left:40px;">We have already outlined and detailed a extremely new human practice-</p>
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  <p style="margin-left:40px;"><a href="http://2012.igem.org/Ymihph.html"><b>outer space human practice project </b></a> , which is the newest one among all other  teams!! </p>
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  <p style="margin-left:40px;">Also, we create new approaches for learning synthetic biology. </p>
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</div>
</div>
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  <div align="left">
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  <p><span class="subtitle">Parts We Have Improved</span></p>
 +
</div>
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 +
  <div align="left">
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    <ol start="1" type="1">
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      <li><a href="http://2012.igem.org/Ymip3.html"><strong>Experience</strong></a>&nbsp;-&nbsp;<strong>Part:</strong> <strong>BBa_K896012:</strong> When engineered with      invasin(inv) from Yersinia pestis and listeriolysin O(llo) from Listeria      monocytogenes, new S. elongatus was able to invade into cultured mammalian      cells and was capable of symbiosis with eukaryotic cells. The symbiosis      possibility of induced pluripotent stem cells from mice and J774 mouse      macrophage cell line were evaluated. We had also accomplished the      symbiosis experiment. <br />
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        <br />
 +
      </li>
 +
    </ol>
 +
  </div>
 +
 
 +
 
 +
    <div align="left">
 +
  <p><span class="subtitle"> We've Also Created and Characterised the Following Parts</span></p>
 +
</div>
 +
 
 +
  <div align="left">
 +
    <ol start="1" type="1">
 +
      <li><a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K896003"><strong>Main Page</strong></a>&nbsp;-&nbsp;<strong>Sulfide      quinone reductase(SQR) on neutral site 2 vector, BBa_K896003</strong>: SQR could transfer electrons from sulfide into the      quinone pool and trigger the sulfide-dependent photosynthesis, which is      only based on photosystem I and shuttle the photosystem II down.&nbsp;The neutral site 2 vector(4538 bp) consists of      trc promoter(1718-1963 bp), multiple cloning site(1965-2014 bp), and      Streptomycin resistence gene(2555-3343 bp).<br />
 +
        <br />
 +
      </li>
 +
      <li><a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K896004"><strong>Main Page</strong></a>&nbsp;–&nbsp;<strong>NosZ+NorCB,      BBa_K896004</strong>: NorCB is composed of two sub-unit – nitric oxide      reductase subunit C and B. In fact, these two subunits are adjacent genes.      And thus we cloned them together to produce a functional reductase. And      NosZ is the structure gene of nitrous reductase. Furthermore, it performs      the last procedure of bio-denitrification in our model. Obviously, the      reason we cloned NorCB and NosZ on the same plasmid is to connect the      continuous denitrifying procedures together.( <strong>We clone NosZ and NorCB and ligate them together.      However, since there are PstI enzyme cutting site inside the NorCB, so we      clone a new pSB1C3 backbone which contain EcoRI.XbaI.SpeI.SbfI enzyme      cutting site.</strong>)<br />
 +
        <br />
 +
      </li>
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      <li><a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K896005"><strong>Main Page</strong></a>&nbsp;-&nbsp;<strong>NorCB,      BBa_K896005</strong>: NorCB(Nitric oxide reductase subunit C and B)can transfer nitric      oxide into nitrous oxide. We receive this part from the genomic DNA of      Pseudomonas aeruginosa PAO1.<br />
 +
        <br />
 +
      </li>
 +
      <li><a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K896006"><strong>Main Page</strong></a>&nbsp;-&nbsp;<strong>NirN-NirS      (Nitrite-&gt;Nitric oxide reductase), BBa_K896006</strong>: Nitrite reductase      is composed of several different subunits. Together, it can reduce nitrite      to nitric oxide. We clone all these subunits together on the same plasmid      in order to grant cyanobacteria a functional protein<br />
 +
        <br />
 +
      </li>
 +
      <li><a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K896007"><strong>Main Page</strong></a>&nbsp;-&nbsp;<strong>Nap(      Nitrate-&gt;Nitrite reductase), BBa_K896007</strong>: Nap is periplasmic      nitrate reductase, which is known for the ability to reduce nitrate into      nitrite. In microorganisms, similar reductases are often observed. Even E.      coli has its own nitrate reductase and can use nitrate as final electron      acceptor.<br />
 +
        <br />
 +
      </li>
 +
      <li><a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K896008"><strong>Main Page</strong></a>&nbsp;-&nbsp;<strong>pYodA      (Cd2+ sensing promoter), BBa_K896008: </strong>ZinTp      (pYodA) is a promoter which expresses the downstream gene in the presence      of cadmium ion. The activity of this promoter is specific affect by      cadmium ion and won&rsquo;t be induced by other ions like zinc, copper, cobalt,      and nickel. <br />
 +
        <br />
 +
      </li>
 +
      <li><a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K896009"><strong>Main Page</strong></a>&nbsp;-&nbsp;<strong>pYodA+GFP(      Cd2+ biosensor ), BBa_K896009: </strong>Combine      with GFP to prove the expression of pYodA(BBa_K896008).<br />
 +
        <br />
 +
      </li>
 +
      <li><a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K896010"><strong>Main Page</strong></a>&nbsp;-&nbsp;<strong>smtA (      Cd2+ absorbing protein), BBa_K896010: </strong>Metallothionein      (MT) is a family of cysteine-rich, low molecular weight (MW ranging from      500 to 14000 Da) proteins. MTs have the capacity to bind both      physiological (such as zinc, copper, selenium) and xenobiotic (such as      cadmium, mercury, silver, arsenic) heavy metals through the thiol group of      its cysteine residues . <br />
 +
        <br />
 +
      </li>
 +
      <li><a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K896011"><strong>Main Page</strong></a>&nbsp;-&nbsp;<strong>MntA      (Cd2+ resistent molecule), BBa_K896011</strong></li>
 +
    </ol>
 +
    <br />
 +
  </div>
  </div>
  </div>
       </div>
       </div>

Revision as of 03:29, 19 October 2012

NYMU iGEM

Parts

Data for Our Favourite New Parts

  1. Main Page - SQR(sulfide quinone reductase), BBa_K896000: Sulfide-dependent anoxygenic photosynthesis, driven by photosystem I (PS/I) alone, among cyanobacteria was first described for Oscillatoria limnetica from Solar Lake. Later photosynthetic sulfide oxidation in O. limnetica led to the discovery of sulfide-quinone reductase (SQR; E.C.1.8.5.), a novel enzyme that transfers electrons from sulfide into the quinone pool.

  2. Main Page - CysI (surfite reductase), BBa_K896001: We have successfully expressed and photoconverted this protein in E. coli cells. It reduces (HSO3)- to H2S using the embedded electron transfer system in E.coli

  3. Main Page - DsrI-DsrII(surfite reductase), BBa_K896002: There are two sulfite reductase operon, DsrI and DsrII, inside Desulfovibrio desulfuricans. They might be membrane form Dsr operon and free form Dsr operon. The Dsr gene’s construction in E.coli, cyanobacteria and used bacteria to remove SO2 in our environment has been accomplished by us.

Parts We Have Improved

  1. Experience - Part: BBa_K896012: When engineered with invasin(inv) from Yersinia pestis and listeriolysin O(llo) from Listeria monocytogenes, new S. elongatus was able to invade into cultured mammalian cells and was capable of symbiosis with eukaryotic cells. The symbiosis possibility of induced pluripotent stem cells from mice and J774 mouse macrophage cell line were evaluated. We had also accomplished the symbiosis experiment.

We've Also Created and Characterised the Following Parts

  1. Main Page - Sulfide quinone reductase(SQR) on neutral site 2 vector, BBa_K896003: SQR could transfer electrons from sulfide into the quinone pool and trigger the sulfide-dependent photosynthesis, which is only based on photosystem I and shuttle the photosystem II down. The neutral site 2 vector(4538 bp) consists of trc promoter(1718-1963 bp), multiple cloning site(1965-2014 bp), and Streptomycin resistence gene(2555-3343 bp).

  2. Main Page – NosZ+NorCB, BBa_K896004: NorCB is composed of two sub-unit – nitric oxide reductase subunit C and B. In fact, these two subunits are adjacent genes. And thus we cloned them together to produce a functional reductase. And NosZ is the structure gene of nitrous reductase. Furthermore, it performs the last procedure of bio-denitrification in our model. Obviously, the reason we cloned NorCB and NosZ on the same plasmid is to connect the continuous denitrifying procedures together.( We clone NosZ and NorCB and ligate them together. However, since there are PstI enzyme cutting site inside the NorCB, so we clone a new pSB1C3 backbone which contain EcoRI.XbaI.SpeI.SbfI enzyme cutting site.)

  3. Main Page - NorCB, BBa_K896005: NorCB(Nitric oxide reductase subunit C and B)can transfer nitric oxide into nitrous oxide. We receive this part from the genomic DNA of Pseudomonas aeruginosa PAO1.

  4. Main Page - NirN-NirS (Nitrite->Nitric oxide reductase), BBa_K896006: Nitrite reductase is composed of several different subunits. Together, it can reduce nitrite to nitric oxide. We clone all these subunits together on the same plasmid in order to grant cyanobacteria a functional protein

  5. Main Page - Nap( Nitrate->Nitrite reductase), BBa_K896007: Nap is periplasmic nitrate reductase, which is known for the ability to reduce nitrate into nitrite. In microorganisms, similar reductases are often observed. Even E. coli has its own nitrate reductase and can use nitrate as final electron acceptor.

  6. Main Page - pYodA (Cd2+ sensing promoter), BBa_K896008: ZinTp (pYodA) is a promoter which expresses the downstream gene in the presence of cadmium ion. The activity of this promoter is specific affect by cadmium ion and won’t be induced by other ions like zinc, copper, cobalt, and nickel.

  7. Main Page - pYodA+GFP( Cd2+ biosensor ), BBa_K896009: Combine with GFP to prove the expression of pYodA(BBa_K896008).

  8. Main Page - smtA ( Cd2+ absorbing protein), BBa_K896010: Metallothionein (MT) is a family of cysteine-rich, low molecular weight (MW ranging from 500 to 14000 Da) proteins. MTs have the capacity to bind both physiological (such as zinc, copper, selenium) and xenobiotic (such as cadmium, mercury, silver, arsenic) heavy metals through the thiol group of its cysteine residues .

  9. Main Page - MntA (Cd2+ resistent molecule), BBa_K896011