Team:UNITN-Trento/Parts

From 2013.igem.org

(Difference between revisions)

Latest revision as of 15:48, 4 October 2013

In this beautiful page you can find the fruits of our summer’s efforts, otherwise you can just go to the official page.

The number of bananas indicates:

: This is an intermediate part and it has not been characterized.
: the part does not work, due to a mistake of some kind, or we do not know if it works and more tests must be performed.
: the part was characterized but doesn't work always as expected.
: the part works as expected and has been characterized.

♫ ♪ “One banana, two bananas, three bananas, four. Four bananas make a bunch and so do many more.” ♪ ♫

[cit. The Banana Splits – The Tra La La Song]

Ethylene

	BBa_K1065000	EFE
	Ethylene Forming Enzyme gene (EFE) that forms ethylene starting from 2-oxoglutarate.

	BBa_K1065002	EFE with double-terminator
	EFE followed by the double terminator BBa_B0015.

	BBa_K1065001	EFE arabinose-regulated
	This is EFE followed by a double terminator (B0015) under the control of the araCpBAD inducible promoter.

Methyl salicylate

	BBa_K1065100	BSMT1
	This part encodes BSMT1, an enzyme that methylates salycilic acid to obtain methyl salycilate. It is the original part from the 'Eau de coli' MIT iGEM 2006 project, re-submitted (and resurrected) by us in pSB1C3.

	BBa_K1065103	PchBA
	PchA is the enzyme responsible for the formation of isochorismate from chorismate. The next step is performed by the PchB enzyme, which converts isochorismate in salicylic acid. This is another part from the 'Eau de coli' MIT iGEM 2006 project that we re-submitted (and resurrected) in pSB1C3.

	BBa_K1065104	SAM synthetase
	This part encodes the SAM (S-AdoMet) synthetase gene, which we friendly call "uncle SAM". SAM is a methyl donor required to produce MeSA and other methylated molecules.

	BBa_K1065101	BSMT1 arabinose-regulated
	A methyltransferase (BSMT1) regulated by the araCpBAD promoter.

	BBa_K1065105	SAM synthetase under pLac promoter
	This is SAM synthetase (uncle SAM) regulated by the constitutive Lac promoter.

	BBa_K1065102	PchBA under pLac and BSMT1 arabinose-regulated
	The wintergreen device: PchBA under a Lac promoter followed by BSMT1 under the araCpBAD promoter.

	BBa_K1065106	BSMT1, PchBA and SAM synthetase
	An improved version of the wintergreen device: BBa_K1065102 with SAM synthetase to boost production.

Blue light

	BBa_K1065302	Blue light circuit to produce amilGFP
	A device to characterize our improved part BBa_K1065305 controlled by pLac promoter.

	BBa_K1065305	BBa_K952003 improved
	No rbs, no party!!!!We improved BBa_K952003 by mutagenesis to add the missing RBS, now the part works.

	BBa_K1065309	Blue light ethylene producing device
	Complete blue-light sensing circuit without inverter, producing both amilGFP and EFE.

	BBa_K1065310	Complete blue-light sensing circuit with an inverter
	Yf1 and FixJ are regulated by the Anderson promoter (BBa_J23100). pLambda regulates the expression of the reporter gene amilCP. When exposed to blue-light, amilCP is synthesized, when the blue-light is not present, amilCP is not produced.

	BBa_K1065311	Complete blue-light sensing device with inverter, amilCP and EFE
	Our complete circuit composed by:J23100, Yf1 and FixJ, pFixK2, CI, pLambda, amilCP and EFE.

	BBa_K1065306	J23100+Yf1+FixJ
	Yf1 (photosensor) and FixJ (response regulator) under the Anderson promoter (BBa_J23100).

	BBa_K1065307	J23100+Yf1+FixJ (with terminators)
	The same as BBa_K1065306, just with the terminators at the end. This part was not submitted to the registry. If you are interested please contact us.

	BBa_K1065308	BBa_K1065307 with inverter
	This is an intermediate part to build a blue light inducible genetic circuit with the inverter. This part is in pSB1A2 and it was not submitted to the registry. If you are interested in this part please contact us.

	BBa_K1065303	Yf1+FixJ+pFixK2
	The starting point to build a blue-light sensing circuit: the photosensor (Yf1) and the response regulator (FixJ) with its promoter (pFixK2). This part was build merging BBa_K592016 and BBa_K592006.

	BBa_K1065300	Blue light circuit to produce amilGFP
	It does not work beacuse it lacks the RBS before the amilGFP gene.

Bacillus subtilis

	BBa_K1065201	pXyl+GFP
	A B. subtilis xylose inducible plasmid (from LMU Munich iGEM 2012) to produce GFPmut3b, regulated by a strong ribosome binding site (Bba_e0840).

	BBa_K1065203	Efe+Bba_B0015 in pSpac.
	EFE in pSpac vector, specific for B. subtilis.

	BBa_K1065204	pXyl+EFE
	EFE in pXyl vector, specific for B. subtilis.

[http://2013.igem.org/wiki/index.php?title=Team:UNITN-Trento/Parts&action=edit Edit this page] | Main Page

@@ Line 11: / Line 11: @@
          <div class="sheet">
              <p>
-                 In this page you can find <i>the fruits</i> of our summer’s efforts. The number of bananas quantifies how much we like each part:
+                 In this beautiful page you can find <i>the fruits</i> of our summer’s efforts, otherwise you can just go to the <a href="http://parts.igem.org/cgi/partsdb/pgroup.cgi?pgroup=iGEM2013&group=UNITN-Trento" target="_blank">official page</a>.
+            <p>
+                The number of bananas indicates:
              </p>
              <ul>
-                 <li><img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" /><img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" /><img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" />: This is an intermediate part and it has not been charachterized (METTERE LA BANANA VERDE!!).</li>
+                 <li><img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" />: This is an intermediate part and it has not been characterized.</li>
-                 <li><img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" />: the part does not work, due to a mistake of some kind, or we do not know if it works and more tests must be performed. </li>
+                 <li><img src="https://static.igem.org/mediawiki/2013/1/1e/Tn-2013-parts-Banana-green-parts.png" />: the part does not work, due to a mistake of some kind, or we do not know if it works and more tests must be performed. </li>
-                 <li><img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" /><img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" />: the part was charachterized but doesn't work always as espected.</li>
+                 <li><img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" /><img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" />: the part was characterized but doesn't work always as expected.</li>
                  <li><img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" /><img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" /><img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" />: the part works as expected and has been characterized.</li>
@@ Line 28: / Line 30: @@
              </p>
          </div>
-    </div>
-    <div class="menu">
-        <a href="#eth">Ethylene</a>
-        <a href="#mesa">Methyl salicylate</a>
-        <a href="#blue">Blue light</a>
-        <a href="#bacillus">B. subtilis</a>
      </div>
      <div class="content">
@@ Line 135: / Line 131: @@
                      <tr>
                          <td colspan="2" class="descr">
-                             PchA is the enzyme responsible for the formation of isochorismate from chorismate. The next step is performed by the PchB enzyme, which converts isochorismate in salicylic acid.
+                             PchA is the enzyme responsible for the formation of isochorismate from chorismate. The next step is performed by the PchB enzyme, which converts isochorismate in salicylic acid. This is another part from the '<i>Eau de coli</i>' MIT iGEM 2006 project that we re-submitted (<i>and resurrected</i>) in pSB1C3.
                          </td>
                      </tr>
@@ Line 207: / Line 203: @@
                      <tr>
                          <td colspan="2" class="descr">
-                             The wintergreen device: PchBA under a mutant Lac promoter (BBa_K1065107) followed by BSMT1 under the araCpBAD promoter.
+                             The wintergreen device: PchBA under a Lac promoter followed by BSMT1 under the araCpBAD promoter.
                          </td>
                      </tr>
@@ Line 242: / Line 238: @@
                      <tr>
                          <td rowspan="2" class="grade">
+                            <img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" />
                              <img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" />
                              <img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" />
                          </td>
-                         <td class="code"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1065306">BBa_K1065306</a></td>
+                         <td class="code"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1065302">BBa_K1065302</a></td>
-                         <td class="name">J23100+Yf1+FixJ</td>
+                         <td class="name">Blue light circuit to produce amilGFP</td>
                      </tr>
                      <tr>
                          <td colspan="2" class="descr">
-                             Yf1 (photosensor) and FixJ (response regulator) under the Anderson promoter (BBa_J23100).
+                             A device to characterize our improved part BBa_K1065305 controlled by pLac promoter.
                          </td>
                      </tr>
@@ Line 260: / Line 257: @@
                      <tr>
                          <td rowspan="2" class="grade">
+                            <img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" />
                              <img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" />
                              <img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" />
                          </td>
-                         <td class="code"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1065303">BBa_K1065303</a></td>
+                         <td class="code"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1065305">BBa_K1065305</a></td>
-                         <td class="name">Yf1+FixJ+pFixK2</td>
+                         <td class="name">BBa_K952003 improved</td>
                      </tr>
                      <tr>
                          <td colspan="2" class="descr">
-                             The starting point to build a blue-light sensing circuit: the photosensor (Yf1) and  the response regulator (FixJ) with its promoter (pFixK2). This part was build merging BBa_K592016 and BBa_K592006.
+                             No rbs, no party!!!!We improved BBa_K952003 by mutagenesis to add the missing RBS, now the part works.
                          </td>
                      </tr>
@@ Line 278: / Line 276: @@
                      <tr>
                          <td rowspan="2" class="grade">
+                            <img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" />
                              <img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" />
                          </td>
-                         <td class="code"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1065300">Bba_K1065300</a></td>
+                         <td class="code"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1065309">BBa_K1065309</a></td>
-                         <td class="name">BBa_K952003 with Yf1 and FixJ under pLac promoter.</td>
+                         <td class="name">Blue light ethylene producing device</td>
                      </tr>
                      <tr>
                          <td colspan="2" class="descr">
-                             pLac+Yf1-FixJ-pFixK2-amil GFP constructed adding the pLac promoter upstream of BBa_K952003, which lacks the RBS before amil GFP.
+                             Complete blue-light sensing circuit without inverter, producing both amilGFP and EFE.
                          </td>
                      </tr>
@@ Line 299: / Line 298: @@
                              <img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" />
                          </td>
-                         <td class="code"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1065302">BBa_K1065302</a></td>
+                         <td class="code"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1065310">BBa_K1065310</a></td>
-                         <td class="name">BBa_K1065300 improved</td>
+                         <td class="name">Complete blue-light sensing circuit with an inverter</td>
                      </tr>
                      <tr>
                          <td colspan="2" class="descr">
-                             The same as BBa_K1065300: we performed a mutagenesis to add the missing RBS, now it works!!! Just to remember: pLac+Yf1+FixJ+pFixK2+amilGFP.
+                             Yf1 and FixJ are regulated by the Anderson promoter (BBa_J23100). pLambda regulates the expression of the reporter gene amilCP. When exposed to blue-light, amilCP is synthesized, when the blue-light is not present, amilCP is not produced.
                          </td>
                      </tr>
@@ Line 316: / Line 315: @@
                              <img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" />
                              <img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" />
+                        </td>
+                        <td class="code"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1065311">BBa_K1065311</a></td>
+                        <td class="name">Complete blue-light sensing device with inverter, amilCP and EFE</td>
+                    </tr>
+                    <tr>
+                        <td colspan="2" class="descr">
+                            Our complete circuit composed by:J23100, Yf1 and FixJ, pFixK2, CI, pLambda, amilCP and EFE.
+                        </td>
+                    </tr>
+                </table>
+            </div>
+            <div class="part-box">
+                <table>
+                    <tr>
+                        <td rowspan="2" class="grade">
                              <img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" />
                          </td>
-                         <td class="code"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1065305">BBa_K1065305</a></td>
+                         <td class="code"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1065306">BBa_K1065306</a></td>
-                         <td class="name">BBa_K952003 improved</td>
+                         <td class="name">J23100+Yf1+FixJ</td>
                      </tr>
                      <tr>
                          <td colspan="2" class="descr">
-                             The same as BBa_K952003: we performed a mutagenesis to add the missing RBS, now this works!!! Just to remember: Yf1+FixJ+pFixK2+amilGFP.
+                             Yf1 (photosensor) and FixJ (response regulator) under the Anderson promoter (BBa_J23100).
                          </td>
                      </tr>
@@ Line 332: / Line 347: @@
                  <table>
                      <tr>
-                         <td rowspan="2" class="grade"><img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" />&nbsp; <img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" />&nbsp; <img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" />&nbsp;</td>
+                         <td rowspan="2" class="grade">
-                         <td class="code"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1065309">BBa_K1065309</a></td>
+                            <img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" />
-                         <td class="name">BBa_K1065302+BBa_K1065002</td>
+                        </td>
+                         <td class="code"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1065307">BBa_K1065307</a></td>
+                         <td class="name">J23100+Yf1+FixJ (with terminators)</td>
                      </tr>
                      <tr>
                          <td colspan="2" class="descr">
-                             Complete blue-light sensing circuit without inverter, producing both amilGFP and EFE.
+                             The same as BBa_K1065306, just with the terminators at the end. This part was not submitted to the registry. If you are interested please contact us.
                          </td>
                      </tr>
@@ Line 349: / Line 366: @@
                          <td rowspan="2" class="grade">
                              <img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" />
-                            <img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" />
+                        </td>
+                        <td class="code"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1065308">BBa_K1065308</a></td>
+                        <td class="name">BBa_K1065307 with inverter</td>
+                    </tr>
+                    <tr>
+                        <td colspan="2" class="descr">
+                            This is an intermediate part to build a blue light inducible genetic circuit with the inverter. This part is in pSB1A2 and it was not submitted to the registry. If you are interested in this part please contact us.
+                        </td>
+                    </tr>
+                </table>
+            </div>
+            <div class="part-box">
+                <table>
+                    <tr>
+                        <td rowspan="2" class="grade">
                              <img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" />
                          </td>
-                         <td class="code"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1065310">BBa_K1065310</a></td>
+                         <td class="code"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1065303">BBa_K1065303</a></td>
-                         <td class="name">Yf1+FixJ+pFixK2+Inverter+pLambda+amilCP</td>
+                         <td class="name">Yf1+FixJ+pFixK2</td>
                      </tr>
                      <tr>
                          <td colspan="2" class="descr">
-                             This is a complete blue-light sensing circuit, inverted with cI. Yf1 and FixJ are regulated by the Anderson promoter (BBa_J23100). pLambda regulates the expression of the reporter gene amilCP. When exposed to blue-light, amilCP is synthesized, when the blue-light is not present, amilCP is not produced.
+                             The starting point to build a blue-light sensing circuit: the photosensor (Yf1) and  the response regulator (FixJ) with its promoter (pFixK2). This part was build merging BBa_K592016 and BBa_K592006.
                          </td>
                      </tr>
@@ Line 366: / Line 398: @@
                  <table>
                      <tr>
-                         <td rowspan="2" class="grade"><img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" />&nbsp; <img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" />&nbsp; <img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" />&nbsp;</td>
+                         <td rowspan="2" class="grade">
-                         <td class="code"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1065311">BBa_K1065311</a></td>
+                            <img src="https://static.igem.org/mediawiki/2013/1/1e/Tn-2013-parts-Banana-green-parts.png" />
-                         <td class="name">Complete blue-light sensing device with inverter, amilCP and EFE</td>
+                        </td>
+                         <td class="code"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1065300">BBa_K1065300</a></td>
+                         <td class="name">Blue light circuit to produce amilGFP</td>
                      </tr>
                      <tr>
                          <td colspan="2" class="descr">
-                             Our complete circuit composed by:J23100, Yf1 and FixJ, pFixK2, CI, pLambda, amilCP and EFE.
+                             It does not work beacuse it lacks the RBS before the amilGFP gene.
                          </td>
                      </tr>
@@ Line 389: / Line 423: @@
                      <tr>
                          <td rowspan="2" class="grade">
-                             <img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" />
+                             <img src="https://static.igem.org/mediawiki/2013/1/1e/Tn-2013-parts-Banana-green-parts.png" />
                          </td>
                          <td class="code"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1065201">BBa_K1065201</a></td>
@@ Line 396: / Line 430: @@
                      <tr>
                          <td colspan="2" class="descr">
-                             A B. subtilis xylose inducible plasmid (from LMU Munich iGEM 2012) to produce GFPmut3b, regulated by a strong ribosome binding site (Bba_e0840).
+                             A <i>B. subtilis</i> xylose inducible plasmid (from LMU Munich iGEM 2012) to produce GFPmut3b, regulated by a strong ribosome binding site (Bba_e0840).
                          </td>
                      </tr>
@@ Line 406: / Line 440: @@
                      <tr>
                          <td rowspan="2" class="grade">
-                             <img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" />
+                             <img src="https://static.igem.org/mediawiki/2013/1/1e/Tn-2013-parts-Banana-green-parts.png" />
                          </td>
                          <td class="code"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1065203">BBa_K1065203</a></td>
@@ Line 413: / Line 447: @@
                      <tr>
                          <td colspan="2" class="descr">
-                             EFE in pSpac vector, specific for B. subtilis.
+                             EFE in pSpac vector, specific for <i>B. subtilis</i>.
                          </td>
                      </tr>
@@ Line 423: / Line 457: @@
                      <tr>
                          <td rowspan="2" class="grade">
-                             <img src="https://static.igem.org/mediawiki/2013/1/10/Tn-2013-parts-Banana-parts.png" />
+                             <img src="https://static.igem.org/mediawiki/2013/1/1e/Tn-2013-parts-Banana-green-parts.png" />
                          </td>
                          <td class="code"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1065204">BBa_K1065204</a></td>
@@ Line 430: / Line 464: @@
                      <tr>
                          <td colspan="2" class="descr">
-                             EFE in pXyl vector, specific for B. subtilis.
+                             EFE in pXyl vector, specific for <i>B. subtilis</i>.
                          </td>
                      </tr>
@@ Line 437: / Line 471: @@
          </div>
+    </div>
+</div>
+<div class="container">
+    <div class="sheet-2">
+        <a href="https://2013.igem.org/Team:UNITN-Trento/Modeling">
+            <img class="tn-arr-prev" src="https://static.igem.org/mediawiki/2013/b/be/Tn-2013-arr-Parts_prev.png" />
+        </a>
+        <a href="javascript:toTop('#tn-main-wrap-wrap');">
+            <img src="https://static.igem.org/mediawiki/2013/6/6e/Tn-2013-arr-AAA_TOP.png" />
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+        <a href="https://2013.igem.org/Team:UNITN-Trento/Project/Datapage">
+            <img class="tn-arr-next" src="https://static.igem.org/mediawiki/2013/f/fb/Tn-2013-arr-Parts_next.png" />
+        </a>
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