Team:Caltech/Notebook/Degradation

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<font size="+2"><a name="6_20_12">6/20/12</a></font>
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<font size="+2"><a name="June 22, 2012">June 22, 2012</a></font>
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<br> Created a spreadsheet detailing various possible bacterial strains and plasmids to be used for complex polymer degradation
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Hi!
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Write a paragraph here. Add an image like this:
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<div style="width:image width px; font-size:80%;"><img src="https://static.igem.org/mediawiki/2012/d/d4/Daisy.jpg" alt="alternate text" width="width" height="height" style="padding-bottom:0.5em;" /><br>This is my caption</div>
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La la la, here is more text.
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<a a style="float:right;" href="https://2012.igem.org/Team:Caltech/Notebook/Degradation#Calendar">Back to Degradation Notebook Calendar</a>
<a a style="float:right;" href="https://2012.igem.org/Team:Caltech/Notebook/Degradation#Calendar">Back to Degradation Notebook Calendar</a>
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<font size="+2"><a name="6_21_12">6/21/12</a></font>
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<font size="+2"><a name="June 25, 2012">June 25, 2012</a></font>
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<br> Sent out requests for bacterial strains and plasmids based on spreadsheet
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<a a style="float:right;" href="https://2012.igem.org/Team:Caltech/Notebook/Degradation#Calendar">Back to Degradation Notebook Calendar</a>
<a a style="float:right;" href="https://2012.igem.org/Team:Caltech/Notebook/Degradation#Calendar">Back to Degradation Notebook Calendar</a>
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<font size="+2"><a name="June 26, 2012">June 26, 2012</a></font>
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<font size="+2"><a name="6_22_12">6/22/12</a></font>
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<br> Emailed Dr. Jared Leadbetter asking if he has strains + protocol for lignocellulose plates
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Here is an example of an image without a caption:
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<br> Made carb. R plates
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<img src="https://static.igem.org/mediawiki/2012/d/d4/Daisy.jpg" alt="Figure title"/>
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<a a style="float:right;" href="https://2012.igem.org/Team:Caltech/Notebook/Degradation#Calendar">Back to Degradation Notebook Calendar</a>
<a a style="float:right;" href="https://2012.igem.org/Team:Caltech/Notebook/Degradation#Calendar">Back to Degradation Notebook Calendar</a>
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<font size="+2"><a name="June 27, 2012">June 27, 2012</a></font>
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<font size="+2"><a name="6_23_12">6/23/12</a></font>
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<br> Made minimal media agar plates, bottom layer of overlay plates
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<a a style="float:right;" href="https://2012.igem.org/Team:Caltech/Notebook/Degradation#Calendar">Back to Degradation Notebook Calendar</a>
<a a style="float:right;" href="https://2012.igem.org/Team:Caltech/Notebook/Degradation#Calendar">Back to Degradation Notebook Calendar</a>
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<font size="+2"><a name="June 28, 2012">June 28, 2012</a></font>
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<font size="+2"><a name="6_24_12">6/24/12</a></font>
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<br> Met with Professor Leadbetter to discuss difficulties with creating enrichment plates and finding bacterial samples
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<br> Will be following up on some of his suggestions
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<br> Notes from Meeting with Professor Jared Leadbetter from June 28th
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<a a style="float:right;" href="https://2012.igem.org/Team:Caltech/Notebook/Degradation#Calendar">Back to Degradation Notebook Calendar</a>
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<br>Overlay Plate Options
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<br>- Top layer with minimal media, although either minimal media or just water + agarose should work
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<br>- Embed bacteria into top layer mix
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<br>- Use filter paper made of chosen carbon sources
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<br>Bacterial Strains
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<br>- Ponds around campus
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<br>- Beach
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<br>- Teredinibacter turnerae gen: helps degrade wood in shipworms (http://ijs.sgmjournals.org/content/52/6/2261.abstract)
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<font size="+2"><a name="6_25_12">6/25/12</a></font>
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<br>May also choose a different host organism for transformation
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<br>- Instead of using E. coli can try using yeast (simplifies problem to only of degradation, and not also ethanol synthesis)
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<br>- Can also try bacteria found by Aztecs to make alcohol (Zymomonas mobilis)
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<a a style="float:right;" href="https://2012.igem.org/Team:Caltech/Notebook/Degradation#Calendar">Back to Degradation Notebook Calendar</a>
<a a style="float:right;" href="https://2012.igem.org/Team:Caltech/Notebook/Degradation#Calendar">Back to Degradation Notebook Calendar</a>
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<font size="+2"><a name="June 29, 2012">June 29, 2012</a></font>
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<font size="+2"><a name="6_26_12">6/26/12</a></font>
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<br> Emailed for samples of nitrocellulose, latex, and teflon membranes.
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<br> Researched Z. mobilis.
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<a a style="float:right;" href="https://2012.igem.org/Team:Caltech/Notebook/Degradation#Calendar">Back to Degradation Notebook Calendar</a>
<a a style="float:right;" href="https://2012.igem.org/Team:Caltech/Notebook/Degradation#Calendar">Back to Degradation Notebook Calendar</a>
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<font size="+2"><a name="July 2, 2012">July 2, 2012</a></font>
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<font size="+2"><a name="6_27_12">6/27/12</a></font>
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<br> Researched zymomonas mobilis, narrowed down focus to strain ZM4
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<br> Gathered more information on protocols specific to that strain.
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<a a style="float:right;" href="https://2012.igem.org/Team:Caltech/Notebook/Degradation#Calendar">Back to Degradation Notebook Calendar</a>
 
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<font size="+2"><a name="6_28_12">6/28/12</a></font>
 
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<a a style="float:right;" href="https://2012.igem.org/Team:Caltech/Notebook/Degradation#Calendar">Back to Degradation Notebook Calendar</a>
 
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<font size="+2"><a name="6_29_12">6/29/12</a></font>
 
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<a a style="float:right;" href="https://2012.igem.org/Team:Caltech/Notebook/Degradation#Calendar">Back to Degradation Notebook Calendar</a>
<a a style="float:right;" href="https://2012.igem.org/Team:Caltech/Notebook/Degradation#Calendar">Back to Degradation Notebook Calendar</a>
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<font size="+2"><a name="6_30_12">6/30/12</a></font>
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<font size="+2"><a name="July 3, 2012">July 3, 2012</a></font>
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<br> Looked up additional information about potential vectors to use to transform z. mobilis
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<br> Requested p42-0119 plasmid for z. mobilis from another lab
<br>
<br>
<a a style="float:right;" href="https://2012.igem.org/Team:Caltech/Notebook/Degradation#Calendar">Back to Degradation Notebook Calendar</a>
<a a style="float:right;" href="https://2012.igem.org/Team:Caltech/Notebook/Degradation#Calendar">Back to Degradation Notebook Calendar</a>
<br>
<br>
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<font size="+2"><a name="7_1_12">7/1/12</a></font>
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<font size="+2"><a name="July 5, 2012">July 5, 2012</a></font>
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<br> Made 20% glucose solution stock and RM plates for Z. mobilis
<br>
<br>
<a a style="float:right;" href="https://2012.igem.org/Team:Caltech/Notebook/Degradation#Calendar">Back to Degradation Notebook Calendar</a>
<a a style="float:right;" href="https://2012.igem.org/Team:Caltech/Notebook/Degradation#Calendar">Back to Degradation Notebook Calendar</a>
<br>
<br>
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<font size="+2"><a name="7_2_12">7/2/12</a></font>
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<font size="+2"><a name="July 9, 2012">July 9, 2012</a></font>
<br>
<br>
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<br> Ordered strains from the ATCC.
 +
<br> Discussed Biolog plates idea
<br>
<br>
<a a style="float:right;" href="https://2012.igem.org/Team:Caltech/Notebook/Degradation#Calendar">Back to Degradation Notebook Calendar</a>
<a a style="float:right;" href="https://2012.igem.org/Team:Caltech/Notebook/Degradation#Calendar">Back to Degradation Notebook Calendar</a>
<br>
<br>
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<font size="+2"><a name="7_3_12">7/3/12</a></font>
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<font size="+2"><a name="July 10, 2012">July 10, 2012</a></font>
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<br> Research z mobilis degradation sugar targets
<br>
<br>
<a a style="float:right;" href="https://2012.igem.org/Team:Caltech/Notebook/Degradation#Calendar">Back to Degradation Notebook Calendar</a>
<a a style="float:right;" href="https://2012.igem.org/Team:Caltech/Notebook/Degradation#Calendar">Back to Degradation Notebook Calendar</a>
<br>
<br>

Revision as of 18:35, 11 July 2012




Degradation Notebook Calendar

June 2012
Sun Mon Tue Wed Thu Fri Sat
1 2
3 4 5 6 7 8 9
10 11 12 13 14 15 16
17 18 19 20 21 22 23
24 25 26 27 28 29 30
July 2012
Sun Mon Tue Wed Thu Fri Sat
1 2 3 4 5 6 7
8 9 10 11 12 13 14
15 16 17 18 19 20 21
22 23 24 25 26 27 28
29 30 31
August 2012
Sun Mon Tue Wed Thu Fri Sat
1 2 3 4
5 6 7 8 9 10 11
12 13 14 15 16 17 18
19 20 21 22 23 24 25
26 27 28 29 30 31


Degradation Notebook


June 22, 2012

Created a spreadsheet detailing various possible bacterial strains and plasmids to be used for complex polymer degradation
Back to Degradation Notebook Calendar
June 25, 2012

Sent out requests for bacterial strains and plasmids based on spreadsheet
Back to Degradation Notebook Calendar
June 26, 2012

Emailed Dr. Jared Leadbetter asking if he has strains + protocol for lignocellulose plates
Made carb. R plates
Back to Degradation Notebook Calendar
June 27, 2012

Made minimal media agar plates, bottom layer of overlay plates
Back to Degradation Notebook Calendar
June 28, 2012

Met with Professor Leadbetter to discuss difficulties with creating enrichment plates and finding bacterial samples
Will be following up on some of his suggestions

Notes from Meeting with Professor Jared Leadbetter from June 28th
Overlay Plate Options
- Top layer with minimal media, although either minimal media or just water + agarose should work
- Embed bacteria into top layer mix
- Use filter paper made of chosen carbon sources
Bacterial Strains
- Ponds around campus
- Beach
- Teredinibacter turnerae gen: helps degrade wood in shipworms (http://ijs.sgmjournals.org/content/52/6/2261.abstract)
May also choose a different host organism for transformation
- Instead of using E. coli can try using yeast (simplifies problem to only of degradation, and not also ethanol synthesis)
- Can also try bacteria found by Aztecs to make alcohol (Zymomonas mobilis)
Back to Degradation Notebook Calendar
June 29, 2012

Emailed for samples of nitrocellulose, latex, and teflon membranes.
Researched Z. mobilis.
Back to Degradation Notebook Calendar
July 2, 2012

Researched zymomonas mobilis, narrowed down focus to strain ZM4
Gathered more information on protocols specific to that strain.
Back to Degradation Notebook Calendar
July 3, 2012

Looked up additional information about potential vectors to use to transform z. mobilis
Requested p42-0119 plasmid for z. mobilis from another lab
Back to Degradation Notebook Calendar
July 5, 2012

Made 20% glucose solution stock and RM plates for Z. mobilis
Back to Degradation Notebook Calendar
July 9, 2012

Ordered strains from the ATCC.
Discussed Biolog plates idea
Back to Degradation Notebook Calendar
July 10, 2012

Research z mobilis degradation sugar targets
Back to Degradation Notebook Calendar

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