Latest revision as of 20:06, 17 October 2014

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All the parts the Uppsala iGEM Team 2014 provide for the iGEM Part Registry:

BioBrick code	Type	Construct	Description	Designers
BBa_K1381000	Regulatory	yenbox_WT	The Yen systems recognition region fused with a wildtype promoter	Sensing Group
BBa_K1381001	Regulatory	yenbox_J23113	The Yen systems recognition region fused with the promoter J23113	Sensing Group
BBa_K1381002	Regulatory	yenbox_J23101	The Yen systems recognition region fused with the promoter J23101	Sensing Group
BBa_K1381004	Coding	B0034-YenR	YenR, the activator in the Yen system	Sensing Group
BBa_K1381005	Regulatory	J23110-B0034-YenR	The activator YenR coupled to the promoter J23110	Sensing Group
BBa_K1381006	Regulatory	J23102-B0034-YenR	The activator YenR coupled to the promoter J23102	Sensing Group
BBa_K1381007	Regulatory	J23101-B0034-YenR	The activator YenR coupled to the promoter J23101	Sensing Group
BBa_K1381008	Measurement	yenbox_WT-B0032-GFP	A characterisation construct for the yenbox with the wildtype promoter	Sensing Group
BBa_K1381009	Measurement	yenbox_J23113-B0032-GFP	A characterisation construct for the yenbox with the promoter J23113	Sensing Group
BBa_K1381010	Measurement	yenbox_J23101-B0032-GFP	A characterisation construct for the yenbox with the promoter J23101	Sensing Group
BBa_K1381011	Generator	J23113-B0034-CheZ	The chemotaxis controlling gene CheZ with the promoter J23113	Targeting Group
BBa_K1381012	Generator	J23114-B0034-CheZ	The chemotaxis controlling gene CheZ with the promoter J23114	Targeting Group
BBa_K1381013	Generator	J23100-B0034-CheZ	The chemotaxis controlling gene CheZ with the promoter J23100	Targeting Group
BBa_K1381014	Regulatory	J23101-spot42_USP45_10bp	Silencing sRNA with affinity to USP45	Killing Group
BBa_K1381015	Regulatory	J23101-spot42_USP45_15bp	Silencing sRNA with affinity to USP45	Killing Group
BBa_K1381016	Regulatory	J23101-spot42_USP45_20bp	Silencing sRNA with affinity to USP45	Killing Group
BBa_K1381017	Coding	CFY-X6 his	The gene coding for the bacteriocin colicin Fy	Killing Group
BBa_K1381018	Tag	B0034-USP45	The secretion tag USP45 with the RBS B0034	Killing Group
BBa_K1381019	Device	B0034-pelB-CFY-X6 his	The bacteriocin colicin Fy coupled to the the secretion tag pelB	Killing Group
BBa_K1381020	Generator	J23106-B0034-pelB-CFY-X6 his	Colicin Fy coupled to the the secretion tag pelB with the promoter J23106	Killing Group
BBa_K1381021	Generator	J23116-B0034-pelB-CFY-X6 his	Colicin Fy coupled to the the secretion tag pelB with the promoter J23116	Killing Group
BBa_K1381022	Device	B0034-USP45-CFY-X6 his	The bacteriocin colicin Fy coupled to the the secretion tag USP45	Killing Group
BBa_K1381023	Generator	J23106-B0034-CFY-X6 his	Colicin Fy coupled with the promoter J23106	Killing Group
BBa_K1381024	Tag	B0034-pgsA-(EAAAR)x4	The anchor tag pgsA with the RBS B0034 and a linker	Adhesion Group
BBa_K1381025	Reporter	B0034-BFP (RFC25)	A mutagenised version of B0034-BFP, compatible with RFC25	Adhesion Group

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+<p><b>All the parts the Uppsala iGEM Team 2014 provide for the iGEM Part Registry:</b></p>
-document.getElementById("tab1").innerHTML = '<h1 class="project_header">Background</h1><p class="project_text">When creating a biological machine that efficiently can kill off specific pathogens without disturbing other cells in its environment, an adhesion system could play a vital role. Getting our probiotic to attach to its target, like Yersinia enterocolitica in our case, could give important advantages in target specificity and delivering medicine in a way that ensures it reaches Y. enterocolitica in a concentration as high as possible. The idea is to manipulate Lactobacillus expression of membrane proteins to create a somewhat stable bonding to any of Yersina’s surface structures, preventing the pathogen from even entering the gut wall. This could be done with a DNA construct coding for a membrane protein that either resembles the bonding that Yersinia makes to our cells or one that itself binds to Yersinia. <br><br> We studied the ways of infection of Yersinia Enterocolitica and could determine that the main strategies of entering through the gut wall is by using it’s diverse membrane proteins YadA, Invasin and Ail. YadA and Invasin work together to bind to our cell membranes. While YadA binds to collagen on our cells, Invasin structurally resembles fibronectin , that is present in the extracellular matrix, which is recognized by the fibronectin binding membrane protein Integrin alpha-5-beta-1 in our cell mambranes. [1] Yersinia uses our own cell-to-cell binding mechanism to find a target cell and fooling it to get inside by binding to the Integrin and to the collagen outside and in between cells. [2] <br> At first glance we thought of manipulating our probiotics to also use the same bioorganic systems. That could be done by expressing collagen like proteins by fusing them with an anchor protein that could transport the whole construct to the outer membrane and keep the collagen part attached to the probiotic surface. YadA binds strongly to some parts of collagen which could be expressed individually. [3] <br><br> But by experimenting with collagen, and especially putting it on the surface of a bacterial outer membrane that is meant to enter the human body, is an extremely risky procedure. “As anti-bodies would be produced to target the collagen and anchor protein complex this could lead to an auto immune reaction as they would also react on the collagen naturally present in our body” says Lars Hellman, a professor in immunology in Uppsala University. More about Problems with Yersinia adhesion and developing auto immune disease can be read in this text:TEXT link. <br><br> Instead we took inspiration from the killing system we are using which secrets a bacteriocin, CFY, which specifically binds to and ruptures the outer cell membrane of Yersinia.[4] The main focus of the adhesion system drastically changed from expressing human like proteins to expressing the bacteriocine fused with the anchor protein. This process is less studied, as the bacteriocin was first discovered and characterized as early as 2012.[5] If the bacteriocin would survive degradation in stomach like environments and later on find Y. enterocolitica, the bacteriocine, while attaching to the membrane, would somewhat fix the probiotic to its target. Even thou this connection would be much weaker than a system with collagen it is safe and still an advantage to the pathogen killer.</p><ul class="reference"><li>[1]http://edoc.rki.de/oa/articles/reeQGIo7WUhm/PDF/247mpj5mInEcs.pdf</li><li>[2]http://edoc.rki.de/oa/articles/reeQGIo7WUhm/PDF/247mpj5mInEcs.pdf </li></ul></p>';
+<table id=partsT style="width:100%">
+<tr><th>Fav.</th><th>BioBrick code</th><th>Type</th><th>Construct</th><th>Description</th><th>Designers</th></tr>
+<tr><td><img src="https://static.igem.org/mediawiki/2014/e/ef/GoodGuy.png" Style="width: 20px"></img></td><td><a href="http://parts.igem.org/Part:BBa_K1381000">BBa_K1381000</a></td><td>Regulatory</td><td>yenbox_WT</td><td>The Yen systems recognition region fused with a wildtype promoter</td><td>Sensing Group</td></tr>
+<tr><td></td><td><a href="http://parts.igem.org/Part:BBa_K1381001">BBa_K1381001</a></td><td>Regulatory</td><td>yenbox_J23113</td><td>The Yen systems recognition region fused with the promoter J23113</td><td>Sensing Group</td></tr>
+<tr><td></td><td><a href="http://parts.igem.org/Part:BBa_K1381002">BBa_K1381002</a></td><td>Regulatory</td><td>yenbox_J23101</td><td>The Yen systems recognition region fused with the promoter J23101</td><td>Sensing Group</td></tr>
+<tr><td><img src="https://static.igem.org/mediawiki/2014/e/ef/GoodGuy.png" Style="width: 20px"></img></td><td><a href="http://parts.igem.org/Part:BBa_K1381004">BBa_K1381004</a></td><td>Coding</td><td>B0034-YenR</td><td>YenR, the activator in the Yen system</td><td>Sensing Group</td></tr>
+<tr><td></td><td><a href="http://parts.igem.org/Part:BBa_K1381005">BBa_K1381005</a></td><td>Regulatory</td><td>J23110-B0034-YenR</td><td>The activator YenR coupled to the promoter J23110</td><td>Sensing Group</td></tr>
+<tr><td></td><td><a href="http://parts.igem.org/Part:BBa_K1381006">BBa_K1381006</a></td><td>Regulatory</td><td>J23102-B0034-YenR</td><td>The activator YenR coupled to the promoter J23102</td><td>Sensing Group</td></tr>
+<tr><td></td><td><a href="http://parts.igem.org/Part:BBa_K1381007">BBa_K1381007</a></td><td>Regulatory</td><td>J23101-B0034-YenR</td><td>The activator YenR coupled to the promoter J23101</td><td>Sensing Group</td></tr>
+<tr><td></td><td><a href="http://parts.igem.org/Part:BBa_K1381008">BBa_K1381008</a></td><td>Measurement</td><td>yenbox_WT-B0032-GFP</td><td>A characterisation construct for the yenbox with the wildtype promoter</td><td>Sensing Group</td></tr>
+<tr><td></td><td><a href="http://parts.igem.org/Part:BBa_K1381009">BBa_K1381009</a></td><td>Measurement</td><td>yenbox_J23113-B0032-GFP</td><td>A characterisation construct for the yenbox with the promoter J23113</td><td>Sensing Group</td></tr>
+<tr><td></td><td><a href="http://parts.igem.org/Part:BBa_K1381010">BBa_K1381010</a></td><td>Measurement</td><td>yenbox_J23101-B0032-GFP</td><td>A characterisation construct for the yenbox with the promoter J23101</td><td>Sensing Group</td></tr>
+<tr><td></td><td><a href="http://parts.igem.org/Part:BBa_K1381011">BBa_K1381011</a></td><td>Generator</td><td>J23113-B0034-CheZ</td><td>The chemotaxis controlling gene CheZ with the promoter J23113</td><td>Targeting Group</td></tr>
+<tr><td></td><td><a href="http://parts.igem.org/Part:BBa_K1381012">BBa_K1381012</a></td><td>Generator</td><td>J23114-B0034-CheZ</td><td>The chemotaxis controlling gene CheZ with the promoter J23114</td><td>Targeting Group</td></tr>
+<tr><td></td><td><a href="http://parts.igem.org/Part:BBa_K1381013">BBa_K1381013</a></td><td>Generator</td><td>J23100-B0034-CheZ</td><td>The chemotaxis controlling gene CheZ with the promoter J23100</td><td>Targeting Group</td></tr>
+<tr><td></td><td><a href="http://parts.igem.org/Part:BBa_K1381014">BBa_K1381014</a></td><td>Regulatory</td><td>J23101-spot42_USP45_10bp</td><td>Silencing sRNA with affinity to USP45</td><td>Killing Group</td></tr>
+<tr><td></td><td><a href="http://parts.igem.org/Part:BBa_K1381015">BBa_K1381015</a></td><td>Regulatory</td><td>J23101-spot42_USP45_15bp</td><td>Silencing sRNA with affinity to USP45</td><td>Killing Group</td></tr>
+<tr><td></td><td><a href="http://parts.igem.org/Part:BBa_K1381016">BBa_K1381016</a></td><td>Regulatory</td><td>J23101-spot42_USP45_20bp</td><td>Silencing sRNA with affinity to USP45</td><td>Killing Group</td></tr>
+<tr><td><img src="https://static.igem.org/mediawiki/2014/e/ef/GoodGuy.png" Style="width: 20px"></img></td><td><a href="http://parts.igem.org/Part:BBa_K1381017">BBa_K1381017</a></td><td>Coding</td><td>CFY-X6 his</td><td>The gene coding for the bacteriocin colicin Fy</td><td>Killing Group</td></tr>
+<tr><td></td><td><a href="http://parts.igem.org/Part:BBa_K1381018">BBa_K1381018</a></td><td>Tag</td><td>B0034-USP45</td><td>The secretion tag USP45 with the RBS B0034</td><td>Killing Group</td></tr>
+<tr><td></td><td><a href="http://parts.igem.org/Part:BBa_K1381019">BBa_K1381019</a></td><td>Device</td><td>B0034-pelB-CFY-X6 his</td><td>The bacteriocin colicin Fy coupled to the the secretion tag pelB</td><td>Killing Group</td></tr>
+<tr><td></td><td><a href="http://parts.igem.org/Part:BBa_K1381020">BBa_K1381020</a></td><td>Generator</td><td>J23106-B0034-pelB-CFY-X6 his</td><td>Colicin Fy coupled to the the secretion tag pelB with the promoter J23106</td><td>Killing Group</td></tr>
+<tr><td></td><td><a href="http://parts.igem.org/Part:BBa_K1381021">BBa_K1381021</a></td><td>Generator</td><td>J23116-B0034-pelB-CFY-X6 his</td><td>Colicin Fy coupled to the the secretion tag pelB with the promoter J23116</td><td>Killing Group</td></tr>
+<tr><td></td><td><a href="http://parts.igem.org/Part:BBa_K1381022">BBa_K1381022</a></td><td>Device</td><td>B0034-USP45-CFY-X6 his</td><td>The bacteriocin colicin Fy coupled to the the secretion tag USP45</td><td>Killing Group</td></tr>
+<tr><td></td><td><a href="http://parts.igem.org/Part:BBa_K1381023">BBa_K1381023</a></td><td>Generator</td><td>J23106-B0034-CFY-X6 his</td><td>Colicin Fy coupled with the promoter J23106</td><td>Killing Group</td></tr>
+<tr><td></td><td><a href="http://parts.igem.org/Part:BBa_K1381024">BBa_K1381024</a></td><td>Tag</td><td>B0034-pgsA-(EAAAR)x4</td><td>The anchor tag pgsA with the RBS B0034 and a linker</td><td>Adhesion Group</td></tr>
+<tr><td></td><td><a href="http://parts.igem.org/Part:BBa_K1381025">BBa_K1381025</a></td><td>Reporter</td><td>B0034-BFP (RFC25)</td><td>A mutagenised version of B0034-BFP, compatible with RFC25</td><td>Adhesion Group</td></tr>
+</table>
-document.getElementById("tab2").innerHTML = '<h1 class="project_header">Methods</h1><p class="project_text"> ---> SKRIV TEXT HÄR!  <---</p><ul class="reference"><li>Reference 1</li><li>Reference 2</li></ul>';
-document.getElementById("tab3").innerHTML = '<p>Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non id est laborum.Lorem ipsum doloproident, sunt in culpa qui officia deserunt mollit anim id est laborum.Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pasit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nut ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamcdolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pasit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquir sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat.</p>';
-document.getElementById("tab4").innerHTML = '<p>Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non id est laborum.Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco labproident, sunt in culpa qui officia deserunt mollit anim id est laborum.Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pasit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nut ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamcdolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pasit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquioris nisi ut aliquip ex ea commodo consequat.</p>';
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From 2014.igem.org

Latest revision as of 20:06, 17 October 2014

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