840:153g:Projects/project10

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<!-- sibboleth --><div id="lncal1" style="border:0px;"><div style="display:none;" id="id">lncal1</div><div style="display:none;" id="dtext">09/07/2010,09/16/2010,09/23/2010,09/30/2010,10/07/2010,10/14/2010,10/21/2010,10/28/2010,11/04/2010,11/11/2010,11/18/2010,12/02/2010</div><div style="display:none;" id="page">840:153g:Projects/project10</div><div style="display:none;" id="fmt">yyyy/MM/dd</div><div style="display:none;" id="css">OWWNB</div><div style="display:none;" id="month"></div><div style="display:none;" id="year"></div><div style="display:none;" id="readonly">Y</div></div>

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Team Members

  • Lorena Christensen
  • Gabe Martin
  • Michelle Fretheim

Project Name and Description

  • Remediation of Phenol Resin using White Rot LiP transferred into E. Coli
  • Proposal:
     Group formed with interest of breaking down plastic as final goal.

1. Subsequent searches of the internet using //www.ncbi.nlm.nih.gov and Google scholar led to discovery of organism Phanerochaete chrysosporium, which presents phenol degrading capabilities through lignin peroxidase.

2. Obtain specimen white rot from Dr. Bumpus's lab. Extract DNA from mycelium using protocol by John J. Weiland.

3. Accession number for the gene of interest is EF644562.

4. First stage amplify gene using PCR, will need to build forward and reverse primers for the gene as well as for five introns needing to be removed. Cut with restriction enzymes and run on gel electrophoresis to check for removal of introns.

5. Build biobrick using format E X Part of Interest S P

6. Selection of vector for use, will need to use specific one for admission to biobricks registry

7. Use restriction enzymes to cut vector and gene of interest, ligate into plasmid

8. Place into E. Coli specimen, breed, observe traits in offspring

9. To verify successful inheritance will need to suppress levels of N, C, S in media in order to release repression of desired lignin peroxidase, substitute phenol as nutrient source. If trait is inherited will see discoloration in plastic in approximately two weeks. Will need to watch for possible death of offspring from process of breaking down phenol.

Final Presentation

Media:presentation.ppt

Media:Blastsequence.doc

Media:Sequences.txt

Important Results and Milestones

  • keep track of your most important results and refer to the corresponding page in your notebook
  • upload important pictures (don't forget to label them! Powerpoint is very convenient). Remember: these will become quite handy later in your summary report or final presentation. If you do label and upload the pictures as soon as you got them, your summary report can be written much more effortlessly (do you usually procrastinate? This is chance to do some work before hand that frees you up for finals week).
Recent changes

26 September 2017

     14:16 

BME100 f2017:Group7 W1030 L3‎‎ (7 changes | history) . . (-318). . [Sarah R. Brady‎ (7×)]

     

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(cur | prev) . . (-270). . Sarah R. Brady (talk | contribs) (Design Flaws and Recommendations)

     

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(cur | prev) . . (-17). . Sarah R. Brady (talk | contribs) (Heart Rate Average)

     

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(cur | prev) . . (-1). . Sarah R. Brady (talk | contribs) (Temperature Average)

     

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(cur | prev) . . (-25). . Sarah R. Brady (talk | contribs) (Inferential Stats)

     

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(cur | prev) . . (+2). . Sarah R. Brady (talk | contribs) (Inferential Stats)

     

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(cur | prev) . . (+4). . Sarah R. Brady (talk | contribs) (Heart Rate Data Discussion)

     

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(cur | prev) . . (-11). . Sarah R. Brady (talk | contribs) (Inferential Stats)

 m   14:12  Talk:Butlin:Unix for Bioinformatics - advanced tutorial‎ (diff | hist) . . (-183). . Claudius E Kerth (talk | contribs)

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(Upload log). .

[Sayyed Ourmazd Mohseni‎; Irene Zhang‎ (2×); Pauline Wonnenberg‎ (3×); Sarah R. Brady‎ (4×)]

     

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. . Sarah R. Brady (talk | contribs) uploaded File:Heart rate with asterisk.jpg

     

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. . Pauline Wonnenberg (talk | contribs) uploaded a new version of File:Titration 2 Graph.png

     

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. . Pauline Wonnenberg (talk | contribs) uploaded File:Titration 2 Graph.png

     

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. . Sarah R. Brady (talk | contribs) uploaded File:Temp with asterisk.jpg

     

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. . Pauline Wonnenberg (talk | contribs) uploaded File:Titration 1 Graph.png

     

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. . Sarah R. Brady (talk | contribs) uploaded File:Temp bme 100.jpg(temp bme 100 group 7)

     

13:54

. . Sarah R. Brady (talk | contribs) uploaded a new version of File:Temp.jpg(temp bme 100 group 7)

     

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. . Sayyed Ourmazd Mohseni (talk | contribs) uploaded File:Heart Rate 22.png

     

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. . Irene Zhang (talk | contribs) uploaded File:Graph2Temperature.png

     

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. . Irene Zhang (talk | contribs) uploaded File:Graph1Temperature.png

     14:10 

Butlin:Unix for Bioinformatics - advanced tutorial‎‎ (3 changes | history) . . (+648). . [Claudius E Kerth‎ (3×)]

 m   

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(cur | prev) . . (-158). . Claudius E Kerth (talk | contribs) (/* TASK 12: I need to run programme X that requires 2 input files and cannot read compressed files. My input files are very large and disk space is always precious. How can I avoid first having to uncompress my input files and later recompress them whe...)

     

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(cur | prev) . . (+804). . Claudius E Kerth (talk | contribs) (Added blurb to endnote, with link to Arnie's speech)

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(cur | prev) . . (+2). . Claudius E Kerth (talk | contribs) (Notes)

     14:00  User:Pauline Wonnenberg/Notebook/CHEM 471 Fall 2017/2017/09/06‎ (diff | hist) . . (+5). . Pauline Wonnenberg (talk | contribs)

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Li Lab‎‎ (7 changes | history) . . (+3,624). . [Wei Li Bcm‎ (7×)]

     

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(cur | prev) . . (+1). . Wei Li Bcm (talk | contribs)

     

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(cur | prev) . . (-342). . Wei Li Bcm (talk | contribs)

     

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(cur | prev) . . (+4). . Wei Li Bcm (talk | contribs)

     

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(cur | prev) . . (+3,825). . Wei Li Bcm (talk | contribs)

     

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(cur | prev) . . (+279). . Wei Li Bcm (talk | contribs)

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Butlin:Unix for Bioinformatics - basic tutorial‎‎ (2 changes | history) . . (+961). . [Claudius E Kerth‎ (2×)]

     

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(cur | prev) . . (0). . Claudius E Kerth (talk | contribs) (put definition of Unix to the front)

     

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(cur | prev) . . (+961). . Claudius E Kerth (talk | contribs) (Added appeal not to copy-paste command lines)

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Taylor:Publications‎‎ (4 changes | history) . . (+631). . [Lynne S. Taylor‎ (4×)]

     

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(cur | prev) . . (+316). . Lynne S. Taylor (talk | contribs) (PUBLICATIONS)

     

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(cur | prev) . . (+260). . Lynne S. Taylor (talk | contribs) (PUBLICATIONS)

     13:35  BME100 f2017:Group15 W1030 L3‎ (diff | hist) . . (+3). . Kylie I. Mercer (talk | contribs) (OUR TEAM)

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BME100 f2017:Group9 W0800 L3‎‎ (5 changes | history) . . (+2,852). . [Irene Zhang‎ (5×)]

     

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(cur | prev) . . (+1,582). . Irene Zhang (talk | contribs) (Design Flaws and Recommendations)

     

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(cur | prev) . . (+610). . Irene Zhang (talk | contribs) (Inferential Stats)

     

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(cur | prev) . . (+39). . Irene Zhang (talk | contribs) (Descriptive Stats and Graph)

     

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(cur | prev) . . (+36). . Irene Zhang (talk | contribs) (Descriptive Stats and Graph)

     

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(cur | prev) . . (+585). . Irene Zhang (talk | contribs) (Descriptive Stats and Graph)

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BME100 f2017:Group5 W0800 L3‎‎ (3 changes | history) . . (+2,331). . [Anna Hoge‎ (3×)]

     

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(cur | prev) . . (+160). . Anna Hoge (talk | contribs) (Inferential Stats and Analysis)

     

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(cur | prev) . . (+2,099). . Anna Hoge (talk | contribs) (Experimental Design of Own Device)

     

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(cur | prev) . . (+72). . Anna Hoge (talk | contribs) (Descriptive Stats and Graph)

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BME100 f2017:Group7 W0800 L3‎‎ (6 changes | history) . . (+52). . [Sayyed Ourmazd Mohseni‎; Wesley Groves‎ (2×); Miguel R. Almanza Lopez‎ (3×)]

     

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(cur | prev) . . (-1). . Miguel R. Almanza Lopez (talk | contribs) (Design Flaws and Recommendations)

     

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(cur | prev) . . (+27). . Sayyed Ourmazd Mohseni (talk | contribs) (Descriptive Stats and Graph)

     

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(cur | prev) . . (+35). . Wesley Groves (talk | contribs) (OUR TEAM)

     

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(cur | prev) . . (-3). . Miguel R. Almanza Lopez (talk | contribs) (Design Flaws and Recommendations)

     

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(cur | prev) . . (+2). . Miguel R. Almanza Lopez (talk | contribs) (Design Flaws and Recommendations)

     

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(cur | prev) . . (-8). . Wesley Groves (talk | contribs) (Descriptive Stats and Graph)