Team:LCG-UNAM-Mexico/Parts

From 2009.igem.org

(Difference between revisions)
 
(13 intermediate revisions not shown)
Line 5: Line 5:
|width="900px" style="padding: 0 20px 0 0;"|
|width="900px" style="padding: 0 20px 0 0;"|
='''Parts submitted to the registry'''=
='''Parts submitted to the registry'''=
 +
<html>
 +
<header>
 +
<script language="JavaScript">
 +
 +
function mouseOver_cod(){
 +
document.getElementById("cod").src ="https://static.igem.org/mediawiki/2009/a/ac/Coding_b.png";
 +
}
 +
function mouseOut_cod(){
 +
document.getElementById("cod").src ="https://static.igem.org/mediawiki/2009/a/ac/Coding_a.png";
 +
}
 +
 +
 +
function mouseOver_prom(){
 +
document.getElementById("prom").src ="https://static.igem.org/mediawiki/2009/0/0b/Promoters_b.png";
 +
}
 +
function mouseOut_prom(){
 +
document.getElementById("prom").src ="https://static.igem.org/mediawiki/2009/7/73/Promoters_a.png";
 +
}
 +
 +
function mouseOver_prim(){
 +
document.getElementById("prim").src ="https://static.igem.org/mediawiki/2009/7/78/Primers_b.png";
 +
}
 +
function mouseOut_prim(){
 +
document.getElementById("prim").src ="https://static.igem.org/mediawiki/2009/4/48/Primers_a.png";
 +
}
 +
 +
 +
 +
</script>
 +
</header>
 +
<!--coding,promoters, primers-->
 +
<body>
 +
<a href="http://partsregistry.org/cgi/partsdb/pgroup.cgi?pgroup=iGEM2009&group=LCG-UNAM-Mexico&Done=1" >LCG-UNAM-Mexico parts</a>
 +
<br><br>
 +
<table border="0" align="center" width="600" cellpadding="50"><tr><a href="https://2009.igem.org/Team:LCG-UNAM-Mexico/Parts#Coding_parts" ><img border="0" width="600" src="https://static.igem.org/mediawiki/2009/a/ac/Coding_a.png" id="cod" onmouseover="mouseOver_cod()" onmouseout="mouseOut_cod()" align="center"></a></tr>
 +
<br><br>
 +
<tr><a href="https://2009.igem.org/Team:LCG-UNAM-Mexico/Parts#Promoters_and_regulatory_parts" ><img border="0" width="600" src="https://static.igem.org/mediawiki/2009/7/73/Promoters_a.png" id="prom" onmouseover="mouseOver_prom()" onmouseout="mouseOut_prom()" align="center"></a></tr>
 +
<br><br>
 +
<tr><a href="https://2009.igem.org/Team:LCG-UNAM-Mexico/Parts#Primers" ><img border="0" width="600" src="https://static.igem.org/mediawiki/2009/4/48/Primers_a.png" id="prim" onmouseover="mouseOver_prim()" onmouseout="mouseOut_prim()" align="center"></a>
 +
</tr>
 +
 +
</body>
 +
</html>
 +
<br>
 +
<br>
=='''Coding parts'''==
=='''Coding parts'''==
<html>
<html>
Line 24: Line 69:
|Jesus Abraham Avelar Rivas, Willebaldo Garcia Muñoz
|Jesus Abraham Avelar Rivas, Willebaldo Garcia Muñoz
|}
|}
 +
<br>
 +
<br>
<br>
<html>
<html>
Line 44: Line 91:
|Luis Fernando Montaño Gutierrez
|Luis Fernando Montaño Gutierrez
|}
|}
 +
<br>
 +
<br>
<br>
<html>
<html>
<body>
<body>
-
<table border="0" align="center" width="900"><tr><th><img border="0" scr="http://partsregistry.org/images/partbypart/icon_coding.png"></th><th><a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K242001">BBa_K242001</a></th></tr></table>
+
<table border="0" align="center" width="900"><tr><th><img border="0" scr="http://partsregistry.org/images/partbypart/icon_coding.png"></th><th><a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K242006">BBa_K242006</a></th></tr></table>
</body>
</body>
</html>
</html>
Line 53: Line 102:
|-
|-
|Part name:
|Part name:
-
|Phage P2 cox transcriptional activator
+
|P4 and P2 transactivators (cox & ogr)
|-
|-
|Description:
|Description:
-
|Cox (Control of excision) is a coliphage P2 key regulator in charge of activating P4 Pll promoter, which leads transcription of the P4 replication operon. Another function for cox, hence its name, is to repress the activation of the inmunity repressor, which participates in P2 late gene induction, necessary for complete assembly of P4 viral particles.
+
|
|-
|-
|Length:
|Length:
-
|294 bp
+
|677bp
|-
|-
|Designed by:
|Designed by:
-
|Luis Fernando Montaño Gutierrez
+
|Jose Maria Uriel Urquiza Garcia
|}
|}
 +
<br>
 +
 +
<br>
<br>
<html>
<html>
<body>
<body>
-
<table border="0" align="center" width="900"><tr><th><img border="0" scr="http://partsregistry.org/images/partbypart/icon_coding.png"></th><th><a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K242002">BBa_K242002</a></th></tr></table>
+
<table border="0" align="center" width="900"><tr><th><img border="0" scr="http://partsregistry.org/images/partbypart/icon_coding.png"></th><th><a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K242052">BBa_K242052</a></th></tr></table>
</body>
</body>
</html>
</html>
Line 73: Line 125:
|-
|-
|Part name:
|Part name:
-
|Late P2 transcription activator Ogr
+
|RFP+Kanamycin+Ter
|-
|-
|Description:
|Description:
-
|The Ogr protein is a key transcriptional regulator in the P2 P4 phage system. On one hand, it is a P2 replication-dependent inducer of the formation of capsid and tail proteins. On the other hand, it activates P4 sid operon which activates delta gene, capable of interacting with the same activation region as ogr. Therefore, late gene transcription is enhanced and hijacked by P4. This part is important to willingly activate production of phage P4 and therefore mediate the abundant multiplication of a P4 biobrick transduction vector.  
+
|One marker for negative selection and one funny reporter of expression RFP.
|-
|-
|Length:
|Length:
-
|238 bp
+
|2181 bp
|-
|-
|Designed by:
|Designed by:
-
|Luis Fernando Montaño Gutierrez
+
|Enrique Paz
|}
|}
 +
<br>
 +
<br>
<br>
<html>
<html>
<body>
<body>
-
<table border="0" align="center" width="900"><tr><th><img border="0" scr="http://partsregistry.org/images/partbypart/icon_coding.png"></th><th><a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K242029">BBa_K242029</a></th></tr></table>
+
<table border="0" align="center" width="900"><tr><th><img border="0" scr="http://partsregistry.org/images/partbypart/icon_coding.png"></th><th><a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K242101">BBa_K242101</a></th></tr></table>
</body>
</body>
</html>
</html>
Line 93: Line 147:
|-
|-
|Part name:
|Part name:
-
|Colicin E9 DNase domain
+
|GFP induced by T7/T3 RNA polymerases
|-
|-
|Description:
|Description:
-
|Colicin E9 is able to degrade DNA. This DNase domain extracted by us is enough to get this function. It is inhibited in the presence of its immunity protein 9.
+
|The detection of the RNA polymerases from both T3 or T7 bacteriophages will make the cells containing this biobrick to express GFP.  
|-
|-
 +
|Length:
 +
|841 bp
 +
|-
 +
|Designed by:
 +
|Laura Gomez/Uriel Urquiza
 +
|}
 +
<br>
 +
 +
 +
<html>
 +
<table border="0" align="center" width="900"><tr><th><img border="0" scr="https://static.igem.org/mediawiki/2009/b/bf/Icon_coding.png"></th><th><a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K242200">BBa_K242200</a></th></tr></table>
 +
</html>
 +
{|valign="top" border="0" width="900px" cellpadding="10"
 +
|-
 +
|Part name:
 +
|Colicin E3 rRNAse domain
 +
|-
 +
|Description:
 +
|Colicin E3 is a bacteriocin targeting 16S rRNA in the 30S subunit at a single and specific site near to the 3' terminus. We extracted the ribonuclease domain which is enough for degrading RNA. Inhibited when Im3 is present.
 +
|-
 +
|Length:
 +
|343 bp
 +
|-
 +
|Designed by:
 +
|Jesus Abraham Avelar Rivas, Willebaldo Garcia Muñoz
 +
|}
 +
<br>
 +
 +
<html>
 +
<table border="0" align="center" width="900"><tr><th><img border="0" scr="https://static.igem.org/mediawiki/2009/b/bf/Icon_coding.png"></th><th><a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K242201">BBa_K242201</a></th></tr></table>
 +
</html>
 +
{|valign="top" border="0" width="900px" cellpadding="10"
 +
|-
 +
|Part name:
 +
|Colicin E9 DNAse domain
 +
|-
 +
|Description:
 +
|Colicin E9 is able to degrade DNA. This DNase domain extracted by us is enough to get this function. It is inhibited in the presence of its immunity protein 9.
|Length:
|Length:
|431 bp
|431 bp
Line 104: Line 196:
|Jesus Abraham Avelar Rivas
|Jesus Abraham Avelar Rivas
|}
|}
 +
<br>
 +
 +
<html>
 +
<table border="0" align="center" width="900"><tr><th><img border="0" scr="https://static.igem.org/mediawiki/2009/b/bf/Icon_coding.png"></th><th><a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K242250">BBa_K242250</a></th></tr></table>
 +
</html>
 +
{|valign="top" border="0" width="900px" cellpadding="10"
 +
|-
 +
|Part name:
 +
|antisense RNA targeting replication machineries of T3 and T7 bacteriophages
 +
|-
 +
|Description:
 +
|It contains two antisense RNAs targeting 5' region of genes involved in DNA replication in bacteriophages T3 and T7. The first part is targeting T3 DNA polymerase, the second is to traductionaly regulate the production of the protein Gp2.5 which is a ssDNA binding protein essential for replication.
 +
|Length:
 +
|153 bp
 +
|-
 +
|Designed by:
 +
|
 +
|}
 +
<br>
=='''Promoters and regulatory parts'''==
=='''Promoters and regulatory parts'''==
 +
<br>
 +
<html>
 +
<body>
 +
<table border="0" align="center" width="900"><tr><th><img border="0" scr="http://partsregistry.org/images/partbypart/icon_coding.png"></th><th><a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K242003">BBa_K242003</a></th></tr></table>
 +
</body>
 +
</html>
 +
{|valign="top" border="0" width="900px" cellpadding="10"
 +
|-
 +
|Part name:
 +
|POgr. Promoter induced by Ogr.
 +
|-
 +
|Description:
 +
|Promoter with Binding site for the Ogr gene product. Ogr binding to Po Promotes the transcription of the downstream gene.
 +
|-
 +
|Length:
 +
| 71 bp
 +
|-
 +
|Designed by:
 +
|Jesus Abraham Avelar Rivas
 +
|}
 +
<br>
 +
<br>
 +
<html>
 +
<body>
 +
<table border="0" align="center" width="900"><tr><th><img border="0" scr="http://partsregistry.org/images/partbypart/icon_coding.png"></th><th><a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K242004">BBa_K242004</a></th></tr></table>
 +
</body>
 +
</html>
 +
{|valign="top" border="0" width="900px" cellpadding="10"
 +
|-
 +
|Part name:
 +
|Operator binding site for Cox
 +
|-
 +
|Description:
 +
|This is the operator that enhances the transcription of those transcripts with the promoter PLL downstream when the Cox protein is in its binding site.It should be placed 55bp upstream of the transcription iniciation.
 +
|-
 +
|Length:
 +
|91 bp
 +
|-
 +
|Designed by:
 +
|Jesus Abraham Avelar Rivas
 +
|}
 +
<br>
 +
 +
<br>
 +
<html>
 +
<body>
 +
<table border="0" align="center" width="900"><tr><th><img border="0" scr="http://partsregistry.org/images/partbypart/icon_coding.png"></th><th><a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K242100">BBa_K242100</a></th></tr></table>
 +
</body>
 +
</html>
 +
{|valign="top" border="0" width="900px" cellpadding="10"
 +
|-
 +
|Part name:
 +
|T3 and T7 RNA polymerase promoter. (multipromoter sequence)
 +
|-
 +
|Description:
 +
|T7 early promoters are strongly recognized by the phage’s polymerases and are weakly recognized by the Escherichia’s coli polymerase. 
 +
|-
 +
|Length:
 +
|76 bp
 +
|-
 +
|Designed by:
 +
|Jesus Abraham Avelar Rivas
 +
|}
 +
<br>
=='''Primers'''==
=='''Primers'''==
 +
 +
=='''Composite'''==
 +
<br>
 +
<html>
 +
<body>
 +
<table border="0" align="center" width="900"><tr><th><img border="0" scr="http://partsregistry.org/images/partbypart/icon_coding.png"></th><th><a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K242150">BBa_K242150</a></th></tr></table>
 +
</body>
 +
</html>
 +
{|valign="top" border="0" width="900px" cellpadding="10"
 +
|-
 +
|Part name:
 +
|(no promoter - AHL) + (ptet - luxR) + (quorum sensing inducible RFP)
 +
|-
 +
|Description:
 +
|The idea for this part is the chance to ligate any promoter before the AHL making enzyme to activate the quorum sensing device. Then we have constitutive transcription of LuxR and RFP activated by AHL-LuxR as a reporter.
 +
|-
 +
|Length:
 +
|2738 bp
 +
|-
 +
|Designed by:
 +
|Enrique Paz
 +
|}
 +
<br>
 +
 +
<br>
 +
<html>
 +
<body>
 +
<table border="0" align="center" width="900"><tr><th><img border="0" scr="http://partsregistry.org/images/partbypart/icon_coding.png"></th><th><a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K242151">BBa_K242151</a></th></tr></table>
 +
</body>
 +
</html>
 +
{|valign="top" border="0" width="900px" cellpadding="10"
 +
|-
 +
|Part name:
 +
|lacI promoter + lux I + TER + ptet-luxR-TER + lux pR - RFP
 +
|-
 +
|Description:
 +
|Quorum sensing device under lacI promoter. The sistem will induce RFP transcription under IPTG.
 +
|-
 +
|Length:
 +
|2946 bp
 +
|-
 +
|Designed by:
 +
|Enrique Paz
 +
|}
 +
<br>
 +
 +
=='''Others'''==
 +
 +
<br>
 +
<html>
 +
<body>
 +
<table border="0" align="center" width="900"><tr><th><img border="0" scr="http://partsregistry.org/images/partbypart/icon_coding.png"></th><th><a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K242050">BBa_K242050</a></th></tr></table>
 +
</body>
 +
</html>
 +
{|valign="top" border="0" width="900px" cellpadding="10"
 +
|-
 +
|Part name:
 +
|cos-containing P4 DNA fragment
 +
|-
 +
|Description:
 +
|This DNA fragment contains the cos region of bacteriophage P4. This region consist in the cohesive ends and the region flanking these ends that is involved in DNA packaging inside the capsid.
 +
 +
Having a plasmid inside E. Coli with this cos site while a coinfection of the cell with P2 and P4 will result in packaging of those plasmids inside a capsid and production of P2 and P4 phages.
 +
|-
 +
|Length:
 +
|320 bp
 +
|-
 +
|Designed by:
 +
|Enrique Paz
 +
|}
 +
<br>
 +
 +
<br>
 +
<html>
 +
<body>
 +
<table border="0" align="center" width="900"><tr><th><img border="0" scr="http://partsregistry.org/images/partbypart/icon_coding.png"></th><th><a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K242051">BBa_K242051</a></th></tr></table>
 +
</body>
 +
</html>
 +
{|valign="top" border="0" width="900px" cellpadding="10"
 +
|-
 +
|Part name:
 +
|Essential region of P4 bacteriophage genome
 +
|-
 +
|Description:
 +
|Bacteriophage P4 genome without the non-essential region nor the integrase gene. The use of this part is similar to a plasmid. You can clone standard parts in this viral vector. You can use this vector with a system for P4 production to encapsidate your constructions and transduce them.
 +
|-
 +
|Length:
 +
|7653 bp
 +
|-
 +
|Designed by:
 +
|Enrique Paz
 +
|}
 +
<br>
 +
|}
|}
<!--Do not remove the first and last lines in this page!-->{{Template:LCG_bottom_Netscape}}
<!--Do not remove the first and last lines in this page!-->{{Template:LCG_bottom_Netscape}}

Latest revision as of 03:59, 22 October 2009

Parts submitted to the registry

LCG-UNAM-Mexico parts







Coding parts

BBa_K242000

Part name: Colicin E3 rRNAse domain
Description: Colicin E3 is a bacteriocin targeting 16S rRNA in the 30S subunit at a single and specific site near to the 3' terminus. We extracted the ribonuclease domain which is enough for degrading RNA. Inhibited when Im3 is present.
Length: 343 bp
Designed by: Jesus Abraham Avelar Rivas, Willebaldo Garcia Muñoz



BBa_K242001

Part name: Phage P2 cox transcriptional activator
Description: Cox (Control of excision) is a coliphage P2 key regulator in charge of activating P4 Pll promoter, which leads transcription of the P4 replication operon. Another function for cox, hence its name, is to repress the activation of the inmunity repressor, which participates in P2 late gene induction, necessary for complete assembly of P4 viral particles.
Length: 294 bp
Designed by: Luis Fernando Montaño Gutierrez



BBa_K242006

Part name: P4 and P2 transactivators (cox & ogr)
Description:
Length: 677bp
Designed by: Jose Maria Uriel Urquiza Garcia




BBa_K242052

Part name: RFP+Kanamycin+Ter
Description: One marker for negative selection and one funny reporter of expression RFP.
Length: 2181 bp
Designed by: Enrique Paz



BBa_K242101

Part name: GFP induced by T7/T3 RNA polymerases
Description: The detection of the RNA polymerases from both T3 or T7 bacteriophages will make the cells containing this biobrick to express GFP.
Length: 841 bp
Designed by: Laura Gomez/Uriel Urquiza



BBa_K242200

Part name: Colicin E3 rRNAse domain
Description: Colicin E3 is a bacteriocin targeting 16S rRNA in the 30S subunit at a single and specific site near to the 3' terminus. We extracted the ribonuclease domain which is enough for degrading RNA. Inhibited when Im3 is present.
Length: 343 bp
Designed by: Jesus Abraham Avelar Rivas, Willebaldo Garcia Muñoz


BBa_K242201

Part name: Colicin E9 DNAse domain
Description: Colicin E9 is able to degrade DNA. This DNase domain extracted by us is enough to get this function. It is inhibited in the presence of its immunity protein 9. Length: 431 bp
Designed by: Jesus Abraham Avelar Rivas


BBa_K242250

Part name: antisense RNA targeting replication machineries of T3 and T7 bacteriophages
Description: It contains two antisense RNAs targeting 5' region of genes involved in DNA replication in bacteriophages T3 and T7. The first part is targeting T3 DNA polymerase, the second is to traductionaly regulate the production of the protein Gp2.5 which is a ssDNA binding protein essential for replication. Length: 153 bp
Designed by:


Promoters and regulatory parts


BBa_K242003

Part name: POgr. Promoter induced by Ogr.
Description: Promoter with Binding site for the Ogr gene product. Ogr binding to Po Promotes the transcription of the downstream gene.
Length: 71 bp
Designed by: Jesus Abraham Avelar Rivas



BBa_K242004

Part name: Operator binding site for Cox
Description: This is the operator that enhances the transcription of those transcripts with the promoter PLL downstream when the Cox protein is in its binding site.It should be placed 55bp upstream of the transcription iniciation.
Length: 91 bp
Designed by: Jesus Abraham Avelar Rivas



BBa_K242100

Part name: T3 and T7 RNA polymerase promoter. (multipromoter sequence)
Description: T7 early promoters are strongly recognized by the phage’s polymerases and are weakly recognized by the Escherichia’s coli polymerase.
Length: 76 bp
Designed by: Jesus Abraham Avelar Rivas



Primers

Composite


BBa_K242150

Part name: (no promoter - AHL) + (ptet - luxR) + (quorum sensing inducible RFP)
Description: The idea for this part is the chance to ligate any promoter before the AHL making enzyme to activate the quorum sensing device. Then we have constitutive transcription of LuxR and RFP activated by AHL-LuxR as a reporter.
Length: 2738 bp
Designed by: Enrique Paz



BBa_K242151

Part name: lacI promoter + lux I + TER + ptet-luxR-TER + lux pR - RFP
Description: Quorum sensing device under lacI promoter. The sistem will induce RFP transcription under IPTG.
Length: 2946 bp
Designed by: Enrique Paz


Others


BBa_K242050

Part name: cos-containing P4 DNA fragment
Description: This DNA fragment contains the cos region of bacteriophage P4. This region consist in the cohesive ends and the region flanking these ends that is involved in DNA packaging inside the capsid.

Having a plasmid inside E. Coli with this cos site while a coinfection of the cell with P2 and P4 will result in packaging of those plasmids inside a capsid and production of P2 and P4 phages.

Length: 320 bp
Designed by: Enrique Paz



BBa_K242051

Part name: Essential region of P4 bacteriophage genome
Description: Bacteriophage P4 genome without the non-essential region nor the integrase gene. The use of this part is similar to a plasmid. You can clone standard parts in this viral vector. You can use this vector with a system for P4 production to encapsidate your constructions and transduce them.
Length: 7653 bp
Designed by: Enrique Paz



Locations of visitors to this page


Retrieved from "http://2009.igem.org/Team:LCG-UNAM-Mexico/Parts"