Team:Mississippi State/Project

From 2008.igem.org

(Difference between revisions)
(Overall project)
(The Experiments)
 
(41 intermediate revisions not shown)
Line 1: Line 1:
[[Image:Msusbbubble.JPG|300 px|center]]
[[Image:Msusbbubble.JPG|300 px|center]]
-
 
+
<!--[[Image:Teams.jpg|thumb|103px|center|Back to [[https://igem.org/Team_Wikis Teams]]]]-->
-
 
+
-
 
+
<!--Tabs-->
<!--Tabs-->
-
 
{| style="background-color:#f5fffa; padding: 10px 0 0 0;" width="100%" cellspacing="0" cellpadding="0" valign="top" border="0" |
{| style="background-color:#f5fffa; padding: 10px 0 0 0;" width="100%" cellspacing="0" cellpadding="0" valign="top" border="0" |
| style="padding:0 .3em; background-color:#cedff2; font-size:90%; border:solid 1px #a3b0bf; border-bottom:1px solid #a3b0bf; text-align:center" width="23.5%" |  
| style="padding:0 .3em; background-color:#cedff2; font-size:90%; border:solid 1px #a3b0bf; border-bottom:1px solid #a3b0bf; text-align:center" width="23.5%" |  
-
[[Team:Mississippi State|What's Going on Today?]]
+
[[Team:Mississippi State|MSUSB iGEM 08]]
| style="border-bottom:1px solid #a3b0bf" width="2%" | &nbsp;
| style="border-bottom:1px solid #a3b0bf" width="2%" | &nbsp;
| style="padding:0 .3em; background-color:#cedff2; font-size:90%; border:solid 1px #A3B1BF; border-bottom:1px solid #a3b0bf; text-align:center" width="23.5%" | [[Team:Mississippi State/Team|Team]]
| style="padding:0 .3em; background-color:#cedff2; font-size:90%; border:solid 1px #A3B1BF; border-bottom:1px solid #a3b0bf; text-align:center" width="23.5%" | [[Team:Mississippi State/Team|Team]]
Line 13: Line 10:
| style="padding:0 .3em; background-color:white; background-color:#f5faff; border:solid 1px #a3b0bf; border-bottom:1px solid #a3b0bf; border-bottom: 0; text-align:center; font-weight:bold;" width="23.5%" | '''Project'''
| style="padding:0 .3em; background-color:white; background-color:#f5faff; border:solid 1px #a3b0bf; border-bottom:1px solid #a3b0bf; border-bottom: 0; text-align:center; font-weight:bold;" width="23.5%" | '''Project'''
| style="border-bottom:1px solid #a3b0bf" width="2%" | &nbsp;
| style="border-bottom:1px solid #a3b0bf" width="2%" | &nbsp;
-
| style="padding:0.3em; font-size:90%; background-color:#cedff2; border:solid 1px #a3b0bf; border-bottom:1px solid #a3b0bf; text-align:center" width="23.5%" | [[Team:Mississippi State/Papers|Papers]]
+
| style="padding:0.3em; font-size:90%; background-color:#cedff2; border:solid 1px #a3b0bf; border-bottom:1px solid #a3b0bf; text-align:center" width="23.5%" | [[Team:Mississippi State/Papers|Papers and Notebook]]
|}
|}
Line 20: Line 17:
<!--End Tabs-->
<!--End Tabs-->
-
 
+
[[Image:MStateblob.JPG|200 px|right]]
-
[[Image:Plants2plants.JPG|center]]
+
= '''Overall project''' =
-
{|align="justify"
+
-
|You can write a background of your team here.  Give us a background of your team, the members, etc.  Or tell us more about something of your choosing.
+
-
|
+
-
|-
+
-
|
+
-
''Tell us more about your project.  Give us background.  Use this is the abstract of your project.  Be descriptive but concise (1-2 paragraphs)''
+
-
|[[Image:Bandit2.JPG|right|250 px]]
+
-
|-
+
-
|
+
-
|align="center"|[[Team:Mississippi_State | Team Example 2]]
+
-
|}
+
-
 
+
-
[[Image:Learnmore.JPG|250 px|Team:Mississippi State/Project]][[Image:Seewhatwedid.JPG|250 px|Team:Mississippi State/Notebook]][[Image:Meetourteam.JPG|250 px|Team:Mississippi State/Team]]
+
-
 
+
-
<!--- The Mission, Experiments --->
+
-
 
+
-
{| style="color:#1b2c8a;background-color:#0c6;" cellpadding="3" cellspacing="1" border="1" bordercolor="#fff" width="62%" align="center"
+
-
!align="center"|[[Team:Mississippi_State|Home]]
+
-
!align="center"|[[Team:Mississippi_State/Team|The Team]]
+
-
!align="center"|[[Team:Mississippi_State/Project|The Project]]
+
-
!align="center"|[[Team:Mississippi_State/Parts|Parts Submitted to the Registry]]
+
-
!align="center"|[[Team:Mississippi_State/Modeling|Modeling]]
+
-
!align="center"|[[Team:Mississippi_State/Notebook|Notebook]]
+
-
|}
+
-
(''Or you can choose different headings.  But you must have a team page, a project page, and a notebook page.'')
+
-
 
+
-
 
+
-
 
+
-
== '''Overall project''' ==
+
-
 
+
-
*[[Team:Mississippi_State/So Far|So Far]]
+
-
*[[Team:Mississippi_State/What We've Done And Why|What We've Done And Why]]
+
-
*[https://2008.igem.org/Judging Requirements]
+
-
*[http://dspace.mit.edu/bitstream/1721.1/21168/1/biobricks.pdf BioBrick Design]
+
-
*[http://mit.edu/endy/www/scraps/comic/AiSB.vol1.pdf An Intro to SynBio]
+
-
Your abstract
+
== Project Details==
== Project Details==
 +
*[[Team:Mississippi State/project description|In Depth Description of our Project]]
 +
We began work in May obtaining cDNA samples of Phanerochaete Chrysosporium.  We initially worked with the Mississippi State University Forest Products Lab, but we could never get any PCR results.  We contacted the University of Wisconsin Forest Products Lab (Jill Gaskell) and obtained samples of cDNA from PC (BKM strain and RP strain).  We got no results from this either.  At this point, we consulted Jill and she advised that we make our primers more specific for the noncoding regions of the gene.  This worked and we obtained our gene (LipA).
 +
=== The Experiments ===
 +
We were able to obtain a purified Lignin Peroxidase from PC by doing sequential PCRs of the non coding region and then the coding region.  There was difficulty in cloning the gene into the plasmids we used, pGEM and pPIC6alpha.  However, once we were able to clone the gene into pGEM, it was easily cloned into pPIC6alpha as well.  However, this work required the whole summer and we had to work around classes.  We have been able to BioBrick our part and get it into Pichia for testing.  At this point we are in the middle of testing the gene and the enzyme activity.
-
=== Part 2 ===
 
 +
[[Image:CalebBioBricks.JPG|400 px]][[Image:SamBioBricks.JPG|400 px]]
 +
== Results ==
 +
We have isolated a Lignin Peroxidase gene from Phanerochaete Chrysosporium.  The gene is highly analogous to many other Lignin Peroxidase genes, especially Lignin Peroxidase A.  It was sequenced and uploaded to GenBank for comparisons and showed an extremely high degree of homology with other Lignin Peroxidases.  The gene has been put into standard BioBrick format, but it has not been characterized due to time constraints.  This, as well as development of a functional system will be part of our future work.
-
=== The Experiments ===
+
='''Our Part'''=
-
 
+
We made a coding part for Lignin Peroxidase.  It is currently in testing and will hopefully be done by the Jamboree.  This part can be used for a biomass degradation system.  There has also been talk that this type of enzyme has promise in breaking down synthetic polymers like plastics.  This would be incredibly cool and we think people should try and tackle this problem.
-
 
+
-
 
+
-
=== Part 3 ===
+
-
 
+
-
== Results ==
+

Latest revision as of 20:06, 28 October 2008

Msusbbubble.JPG

MSUSB iGEM 08

  Team   Project   Papers and Notebook



MStateblob.JPG

Contents

Overall project

Project Details

We began work in May obtaining cDNA samples of Phanerochaete Chrysosporium. We initially worked with the Mississippi State University Forest Products Lab, but we could never get any PCR results. We contacted the University of Wisconsin Forest Products Lab (Jill Gaskell) and obtained samples of cDNA from PC (BKM strain and RP strain). We got no results from this either. At this point, we consulted Jill and she advised that we make our primers more specific for the noncoding regions of the gene. This worked and we obtained our gene (LipA).


The Experiments

We were able to obtain a purified Lignin Peroxidase from PC by doing sequential PCRs of the non coding region and then the coding region. There was difficulty in cloning the gene into the plasmids we used, pGEM and pPIC6alpha. However, once we were able to clone the gene into pGEM, it was easily cloned into pPIC6alpha as well. However, this work required the whole summer and we had to work around classes. We have been able to BioBrick our part and get it into Pichia for testing. At this point we are in the middle of testing the gene and the enzyme activity.


CalebBioBricks.JPGSamBioBricks.JPG

Results

We have isolated a Lignin Peroxidase gene from Phanerochaete Chrysosporium. The gene is highly analogous to many other Lignin Peroxidase genes, especially Lignin Peroxidase A. It was sequenced and uploaded to GenBank for comparisons and showed an extremely high degree of homology with other Lignin Peroxidases. The gene has been put into standard BioBrick format, but it has not been characterized due to time constraints. This, as well as development of a functional system will be part of our future work.

Our Part

We made a coding part for Lignin Peroxidase. It is currently in testing and will hopefully be done by the Jamboree. This part can be used for a biomass degradation system. There has also been talk that this type of enzyme has promise in breaking down synthetic polymers like plastics. This would be incredibly cool and we think people should try and tackle this problem.