http://2012hs.igem.org/wiki/index.php?title=Special:Contributions/Agrottinghaus&feed=atom&limit=50&target=Agrottinghaus&year=&month=2012hs.igem.org - User contributions [en]2024-03-28T10:14:45ZFrom 2012hs.igem.orgMediaWiki 1.16.0http://2012hs.igem.org/Team:BVCAPS_Research_KS/NotebookTeam:BVCAPS Research KS/Notebook2012-05-16T14:45:15Z<p>Agrottinghaus: /* Notebook */</p>
<hr />
<div>::[[File:toolbar_team.png|140px|link=Team:BVCAPS_Research_KS/Team|Team]] [[File:toolbar_project.png|140px|link=Team:BVCAPS_Research_KS/Project|Project]] [[File:toolbar_notebook.png|140px|link=Team:BVCAPS_Research_KS/Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Team:BVCAPS_Research_KS/Results|Results]] [[File:toolbar_Safety.png|140px|link=Team:BVCAPS_Research_KS/Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Team:BVCAPS_Research_KS/Sponsors|Sponsors]]<br />
<br />
==Protocols==<br />
<br />
====Transformation====<br />
We used New England Biolab's High Efficiency Trasformation protocol.<br />
<br />
1. Thaw a tube of NEB 5-alpha Competent E. coli cells on ice until the last ice crystals disappear. Mix gently and carefully pipette 50 µl of cells into a transformation tube on ice.<br />
<br />
2. Add 1-5 µl containing 1 pg-100 ng of plasmid DNA to the cell mixture. Carefully flick the tube 4-5 times to mix cells and DNA. Do not vortex.<br />
<br />
3. Place the mixture on ice for 30 minutes. Do not mix.<br />
<br />
4. Heat shock at exactly 42°C for exactly 30 seconds. Do not mix.<br />
<br />
5. Place on ice for 5 minutes. Do not mix.<br />
<br />
6. Pipette 950 µl of room temperature SOC into the mixture.<br />
<br />
7. Place at 37°C for 60 minutes. Shake vigorously (250 rpm) or rotate.<br />
<br />
8. Warm selection plates to 37°C.<br />
<br />
9. Mix the cells thoroughly by flicking the tube and inverting, then perform several 10-fold serial dilutions in SOC.<br />
<br />
10. Spread 50-100 µl of each dilution onto a selection plate and incubate overnight at 37°C. Alternatively, incubate at 30°C for 24-36 hours or 25°C for 48 hours.<br />
<br />
====Plasmid Purification====<br />
We used the Aurum Plasmid Mini Kit, with the spin method, for plasmid isolation and purification.<br />
<br />
1. Transfer up to 12 OD•ml of plasmid-containing bacterial host to a 1.5–2.0 ml<br />
capped microcentrifuge tube (not provided). Pellet the cells by centrifugation<br />
for 1 min. Remove all supernatant by decanting or pipetting.<br />
<br />
2. Add 250 μl of resuspension solution and vortex or pipet up and down until<br />
the cell pellet is completely resuspended.<br />
<br />
3. Add 250 μl of lysis solution and mix by inverting the capped tube briskly<br />
6–8 times. DO NOT VORTEX OR SHAKE. The solution should become<br />
viscous and slightly clear. Note: The neutralization solution should be added within 5 min after lysis.<br />
<br />
4. Add 350 μl of neutralization solution and mix by inverting the capped tube<br />
briskly 6–8 times. DO NOT VORTEX OR SHAKE. A visible precipitate should<br />
form.<br />
<br />
5. Centrifuge the neutralized lysate for 5 min. A compact white debris pellet will<br />
form along the side or at the bottom of the tube. The supernatant or cleared<br />
lysate contains the plasmid DNA.<br />
<br />
6. While centrifuging the lysate, insert a plasmid mini column into a 2 ml<br />
capless wash tube (provided).<br />
<br />
7. By decanting or pipetting, transfer the cleared lysate from step 5 to the<br />
plasmid mini column. Centrifuge for 1 min.<br />
<br />
8. The wash solution is supplied as a 5x concentrate. Add 4 volumes (100 ml)<br />
of 95–100% ethanol or reagent-grade (denatured) ethanol before initial use.<br />
<br />
9. Remove the plasmid mini column from the wash tube. Discard the filtrate<br />
from the tube, and replace the column into the same wash tube. Add 750 μl<br />
of wash solution and centrifuge for 1 min.<br />
<br />
10. Discard the wash solution from the tube, and replace the column into the<br />
same wash tube. Centrifuge for 1 additional minute to remove residual wash<br />
solution.<br />
<br />
11. Transfer the plasmid mini column to a 1.5–2.0 ml capped microcentrifuge<br />
tube (not provided). Add 50 μl of elution solution onto the membrane stack<br />
at the base of the column and allow 1 min for the solution to saturate the<br />
membranes. Centrifuge for 1 min to elute the plasmid.<br />
<br />
12. Discard the mini column and store the eluted DNA at 4ºC.<br />
<br />
==Notebook==<br />
<br />
<br />
3/20/2012<br />
<br />
Today we attempted to build a circuit and added our project description.<br />
We also tried to select parts to be used in our biological system, we selected a promoter that functions as a colloid named BBa_R0082<br />
<br />
3/21/2012 <br />
<br />
We worked on selecting the parts we need and selected two mint producing parts we could attempt to use BBa_J45004 and BBa_J45099. The banana producing part is BBa_J45199, an enzyme generator that creates an enzyme to catalyze the process that causes isoamyl alcohol to break down into isoamyl acetate, which smells like bananas.<br />
<br />
3/23/2012<br />
<br />
Today we hit a magnificent breakthrough in wiki page editing. We can now call ourselves masters. We also planned the system we will create for our project.<br />
<br />
3/26/2012 and 3/27/2012<br />
<br />
Worked on creating a visual of our system. We are working on Tinker Cell to create the whole thing and have a diagram of what we are creating. We know that we will need the light sensor (Cph8) part name BBa_I15010 and the molecule activating our smells will be the OmpRp part name BBa_R0082<br />
<br />
3/28/2012 - 4/3/2012<br />
<br />
Tim did a whole bunch of research and modeling. Austin and Brandon double tasked with "Operation Superman" which was a ginormous success.<br />
<br />
4/4/2012<br />
<br />
Each of the plasmids needed were inserted into compatible bacteria and grown on plates. The bacteria with the light sensor gene failed to grow.<br />
<br />
4/5/2012<br />
<br />
Today we moved isolated colonies of each part to broth for growth. We also poured a bunch of plates! <br />
<br />
4/6/2012<br />
<br />
We worked on isolating the plasmids of each part.<br />
<br />
4/9/2012<br />
<br />
Today we set down with our instructor to describe the next steps in our project. We also worked on finding published papers of our parts to get a better understanding about them. We also learned that OmpRp is phosphorylated OmpR and is activated when there is no light. OmpR regulates our system so at night it will be activating the banana smell but we need a activator that will activate the mint during light.<br />
<br />
4/10/2012<br />
<br />
We set down and worked on modeling our system and came to a realization of what parts we need to add like OmpC and OmpF promoter. <br />
<br />
4/11/2012<br />
<br />
The systems we are creating were finalized on the Tinkercell program and uploaded to the wiki. We also collaborated with our mentors at Arizona State University. Tim began modeling on Jmol.<br />
<br />
4/16/2012<br />
<br />
We attempted another transformation on the light sensor, but were unsuccessful.<br />
<br />
4/25/2012<br />
<br />
New competent cells were delivered so we reattempted the transformation of the light sensor. The bacteria failed to grow on the kanamycin plates, but successfully grew on regular LB plates. Our longshot attempt to grow the bacteria on ampicillin plates also failed.<br />
<br />
4/26/2012<br />
<br />
We problem solved why our kanamycin plates continued to prohibit bacterial growth and set up the experiment to determine what aspect of the transformation created the failures.<br />
<br />
4/27/2012<br />
<br />
We attempted the transformation of a part unrelated to the project. The plasmid provides both ampicillin and kanamycin resistance so we will attempt to grow the bacteria on one plate with ampicillin and another with kanamycin. If it grows on both then the issue with our light sensor is in the part. If it only grows on the ampicillin then we have an issue with our kanamycin.<br />
<br />
5/2/12<br />
<br />
We tried to transformation our light sensor again and it failed so we tried to contact another mentor to get advice on why just that part is failing. We also transformed another promoter that we will use. <br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/Team:BVCAPS_Research_KS/ProjectTeam:BVCAPS Research KS/Project2012-05-16T14:41:01Z<p>Agrottinghaus: </p>
<hr />
<div>::[[File:toolbar_team.png|140px|link=Team:BVCAPS_Research_KS/Team|Team]] [[File:toolbar_project.png|140px|link=Team:BVCAPS_Research_KS/Project|Project]] [[File:toolbar_notebook.png|140px|link=Team:BVCAPS_Research_KS/Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Team:BVCAPS_Research_KS/Results|Results]] [[File:toolbar_Safety.png|140px|link=Team:BVCAPS_Research_KS/Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Team:BVCAPS_Research_KS/Sponsors|Sponsors]]<br />
<br />
<br />
==Overview==<br />
<br />
Our project, in essence, designs the perfect alarm clock. The presence of a strong wintergreen smell is used to help the user wake up, heightening their senses. At night, when no light is present, a banana odor produced will assist in calming down the user, helping them go to bed. This all occurs in the absence of electricity through pure biological systems.<br />
<br />
This system is the combination of the MIT and University of Texas teams' projects from years past. We are making a combined genetic circuit with the smell of the bacteria (banana or mint) depending on the time of day (presence of light). The light receptor protein, obtained from photosynthetic algae, turns the banana smell on in the absence of light, and the mint smell on in the presence of light. In the agar of the plates we use for the final system we would need to include the substrates isoamyl alcohol and salicyclic acid. <br />
<br />
Visual of our system in presence of light <br />
<br />
[[File:good pic.jpg]]<br />
<br />
<br />
Visual of our system in the dark<br />
<br />
[[File:Example.jpg]]<br />
<br />
==Parts==<br />
Banana odor enzyme generator (BBa_J45199)- contains RBS, coding region, 2 terminators, location well 10B plate 1, resistant to amp/kan. It was isolated from yeast used in alcohol fermentation which would give it its unique taste. This part codes for a protein that breaks down isoamyl alcohol into isoamyl acetate giving off a banana smell. <br />
<br />
Mint odor generator (BBa_J45004)- contains coding region, location is well 23B plate 3 and Amp resistant. This gene was isolated from petunia and snapdragon plants. It breaks down salicyclic acid into methyl sali to give it a mint smell. <br />
<br />
Light sensor protein or Cph8 (BBa_I15010)- contains coding region, location is well 20D plate 3 and is Kanamycin resistant. This part was taken from a UT Tech previous iGEM project. If a photon hits the light sensor Cph1 it will then inhibit EnvZ. <br />
<br />
OmpR regulator protein (BBa_R0082)- transcription factor, used in UT tech previous iGEM project, is located in well 16K plate 1 , it is resistant to Amp. When phosphorylated at night by EnvZ it binds to OmpC promoter and represses the OmpF promoter. <br />
<br />
OmpC- promoter natural occurs in E. Coli, is used as promoter for banana gene sequence so it is activated in high amounts of OmpRp at nighttime. <br />
<br />
OmpF- promoter natural occurs in E. Coli, is used as promoter for mint gene sequence so it is activated in the day when low amounts of OmpRp are present.<br />
<br />
==Human Practices==<br />
<br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/Team:BVCAPS_Research_KS/TeamTeam:BVCAPS Research KS/Team2012-05-14T13:57:03Z<p>Agrottinghaus: </p>
<hr />
<div>::[[File:toolbar_team.png|140px|link=Team:BVCAPS_Research_KS/Team|Team]] [[File:toolbar_project.png|140px|link=Team:BVCAPS_Research_KS/Project|Project]] [[File:toolbar_notebook.png|140px|link=Team:BVCAPS_Research_KS/Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Team:BVCAPS_Research_KS/Results|Results]] [[File:toolbar_Safety.png|140px|link=Team:BVCAPS_Research_KS/Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Team:BVCAPS_Research_KS/Sponsors|Sponsors]]<br />
<br />
<br />
BVCAPS Research KS is a team of wonderful high school kids unified in solving science problems through genetic engineering. The members attend a variety of schools in the Blue Valley School District, but became unified at the excellent Blue Valley CAPS professional studies center, geared towards getting the students real world experience. Once together in the Bioscience Research class, they recognized their vast potential, and aimed it at the iGEM competition.<br />
<br />
====Members====<br />
<br />
* [[Austin Rottinghaus]] a.k.a. Steady Hands<br />
<br />
* [[Brandon Whitcomb]] a.k.a. Beast from Butler<br />
<br />
* [[Tim Schaefer]] a.k.a Schaef-cat Hopkins<br />
<br />
* [[Graham Wehmeyer]] a.k.a. Green Cali Mojo<br />
<br />
====Facts====<br />
<br />
Mascot: Dragon slaying, banana shooting, mint breathing, ecoli monster<br />
<br />
Drink: Chocolate Milk<br />
<br />
Game: Pokemon<br />
<br />
Super Game: Skyrim, Mass Effect(s), Diablo 3<br />
<br />
Hobby: Dropping 3s and dunking at the berg with 9 foot hoops<br />
<br />
Hero: Katniss<br />
<br />
Food: Chinese<br />
<br />
Book (for those who are literate): Hunger Games<br />
<br />
Movie: Hunger Games and The Avengers <br />
<br />
Hair Style: Mike Bruesewitz's red afro, 2010-2011<br />
<br />
Animal: Liger<br />
<br />
Piece of Artwork: This website<br />
<br />
Fantasy Animal: Skeletal, quadrahorn dragon<br />
<br />
Pokemon: Diglett, Lugia, Grimer<br />
<br />
Future: Fab 5.1<br />
<br />
Dislikes: SEC, Bacteria who do not uptake plasmids, Zebrafish<br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/Team:BVCAPS_Research_KSTeam:BVCAPS Research KS2012-05-14T13:33:29Z<p>Agrottinghaus: </p>
<hr />
<div>[[File:Heading7.png]]<br />
<br />
::[[File:toolbar_team.png|140px|link=Team:BVCAPS_Research_KS/Team|Team]] [[File:toolbar_project.png|140px|link=Team:BVCAPS_Research_KS/Project|Project]] [[File:toolbar_notebook.png|140px|link=Team:BVCAPS_Research_KS/Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Team:BVCAPS_Research_KS/Results|Results]] [[File:toolbar_Safety.png|140px|link=Team:BVCAPS_Research_KS/Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Team:BVCAPS_Research_KS/Sponsors|Sponsors]]<br />
<br />
[[File:dragon logo.jpg]]<br />
<forum_subtle /></div>Agrottinghaushttp://2012hs.igem.org/Team:BVCAPS_Research_KS/SponsorsTeam:BVCAPS Research KS/Sponsors2012-05-14T13:32:36Z<p>Agrottinghaus: </p>
<hr />
<div>::[[File:toolbar_team.png|140px|link=Team:BVCAPS_Research_KS/Team|Team]] [[File:toolbar_project.png|140px|link=Team:BVCAPS_Research_KS/Project|Project]] [[File:toolbar_notebook.png|140px|link=Team:BVCAPS_Research_KS/Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Team:BVCAPS_Research_KS/Results|Results]] [[File:toolbar_Safety.png|140px|link=Team:BVCAPS_Research_KS/Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Team:BVCAPS_Research_KS/Sponsors|Sponsors]]<br />
<br />
<br />
[[File:Subway3.png]][[File:axelacare2.png]][[File:sassy cow.png]]<br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/Team:BVCAPS_Research_KS/SafetyTeam:BVCAPS Research KS/Safety2012-05-14T13:32:03Z<p>Agrottinghaus: </p>
<hr />
<div>::[[File:toolbar_team.png|140px|link=Team:BVCAPS_Research_KS/Team|Team]] [[File:toolbar_project.png|140px|link=Team:BVCAPS_Research_KS/Project|Project]] [[File:toolbar_notebook.png|140px|link=Team:BVCAPS_Research_KS/Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Team:BVCAPS_Research_KS/Results|Results]] [[File:toolbar_Safety.png|140px|link=Team:BVCAPS_Research_KS/Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Team:BVCAPS_Research_KS/Sponsors|Sponsors]]<br />
<br />
<br />
We have taken classes before where we learned about lab safety. We were told of any additional instructions and warnings that we must be aware of as we work on the project.<br />
<br />
[[File:tim brain bee.jpeg]]<br />
<br />
At all times when chemicals were being used:<br />
*Lab coats were on<br />
*Safety goggles were on<br />
*Gloves were worn<br />
*flames were rarely left unattended<br />
*At the end of every day (if bacteria was used) the tables were disinfected and clean off/pick up any chemicals that were left out.<br />
*No Animals, including Kaitlyn's fish and Mr. Kessler's snakes were harmed in our experiments (they have died during the experiment, but not because of us).<br />
*If Tim did work then we double checked everything he did because of his past failures. <br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/Team:BVCAPS_Research_KS/ResultsTeam:BVCAPS Research KS/Results2012-05-14T13:31:37Z<p>Agrottinghaus: </p>
<hr />
<div>::[[File:toolbar_team.png|140px|link=Team:BVCAPS_Research_KS/Team|Team]] [[File:toolbar_project.png|140px|link=Team:BVCAPS_Research_KS/Project|Project]] [[File:toolbar_notebook.png|140px|link=Team:BVCAPS_Research_KS/Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Team:BVCAPS_Research_KS/Results|Results]] [[File:toolbar_Safety.png|140px|link=Team:BVCAPS_Research_KS/Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Team:BVCAPS_Research_KS/Sponsors|Sponsors]]<br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/Team:BVCAPS_Research_KS/NotebookTeam:BVCAPS Research KS/Notebook2012-05-14T13:31:24Z<p>Agrottinghaus: </p>
<hr />
<div>::[[File:toolbar_team.png|140px|link=Team:BVCAPS_Research_KS/Team|Team]] [[File:toolbar_project.png|140px|link=Team:BVCAPS_Research_KS/Project|Project]] [[File:toolbar_notebook.png|140px|link=Team:BVCAPS_Research_KS/Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Team:BVCAPS_Research_KS/Results|Results]] [[File:toolbar_Safety.png|140px|link=Team:BVCAPS_Research_KS/Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Team:BVCAPS_Research_KS/Sponsors|Sponsors]]<br />
<br />
==Protocols==<br />
<br />
====Transformation====<br />
We used New England Biolab's High Efficiency Trasformation protocol.<br />
<br />
1. Thaw a tube of NEB 5-alpha Competent E. coli cells on ice until the last ice crystals disappear. Mix gently and carefully pipette 50 µl of cells into a transformation tube on ice.<br />
<br />
2. Add 1-5 µl containing 1 pg-100 ng of plasmid DNA to the cell mixture. Carefully flick the tube 4-5 times to mix cells and DNA. Do not vortex.<br />
<br />
3. Place the mixture on ice for 30 minutes. Do not mix.<br />
<br />
4. Heat shock at exactly 42°C for exactly 30 seconds. Do not mix.<br />
<br />
5. Place on ice for 5 minutes. Do not mix.<br />
<br />
6. Pipette 950 µl of room temperature SOC into the mixture.<br />
<br />
7. Place at 37°C for 60 minutes. Shake vigorously (250 rpm) or rotate.<br />
<br />
8. Warm selection plates to 37°C.<br />
<br />
9. Mix the cells thoroughly by flicking the tube and inverting, then perform several 10-fold serial dilutions in SOC.<br />
<br />
10. Spread 50-100 µl of each dilution onto a selection plate and incubate overnight at 37°C. Alternatively, incubate at 30°C for 24-36 hours or 25°C for 48 hours.<br />
<br />
====Plasmid Purification====<br />
We used the Aurum Plasmid Mini Kit, with the spin method, for plasmid isolation and purification.<br />
<br />
1. Transfer up to 12 OD•ml of plasmid-containing bacterial host to a 1.5–2.0 ml<br />
capped microcentrifuge tube (not provided). Pellet the cells by centrifugation<br />
for 1 min. Remove all supernatant by decanting or pipetting.<br />
<br />
2. Add 250 μl of resuspension solution and vortex or pipet up and down until<br />
the cell pellet is completely resuspended.<br />
<br />
3. Add 250 μl of lysis solution and mix by inverting the capped tube briskly<br />
6–8 times. DO NOT VORTEX OR SHAKE. The solution should become<br />
viscous and slightly clear. Note: The neutralization solution should be added within 5 min after lysis.<br />
<br />
4. Add 350 μl of neutralization solution and mix by inverting the capped tube<br />
briskly 6–8 times. DO NOT VORTEX OR SHAKE. A visible precipitate should<br />
form.<br />
<br />
5. Centrifuge the neutralized lysate for 5 min. A compact white debris pellet will<br />
form along the side or at the bottom of the tube. The supernatant or cleared<br />
lysate contains the plasmid DNA.<br />
<br />
6. While centrifuging the lysate, insert a plasmid mini column into a 2 ml<br />
capless wash tube (provided).<br />
<br />
7. By decanting or pipetting, transfer the cleared lysate from step 5 to the<br />
plasmid mini column. Centrifuge for 1 min.<br />
<br />
8. The wash solution is supplied as a 5x concentrate. Add 4 volumes (100 ml)<br />
of 95–100% ethanol or reagent-grade (denatured) ethanol before initial use.<br />
<br />
9. Remove the plasmid mini column from the wash tube. Discard the filtrate<br />
from the tube, and replace the column into the same wash tube. Add 750 μl<br />
of wash solution and centrifuge for 1 min.<br />
<br />
10. Discard the wash solution from the tube, and replace the column into the<br />
same wash tube. Centrifuge for 1 additional minute to remove residual wash<br />
solution.<br />
<br />
11. Transfer the plasmid mini column to a 1.5–2.0 ml capped microcentrifuge<br />
tube (not provided). Add 50 μl of elution solution onto the membrane stack<br />
at the base of the column and allow 1 min for the solution to saturate the<br />
membranes. Centrifuge for 1 min to elute the plasmid.<br />
<br />
12. Discard the mini column and store the eluted DNA at 4ºC.<br />
<br />
==Notebook==<br />
<br />
<br />
3/20/2012<br />
<br />
Today we attempted to build a circuit and added our project description.<br />
We also tried to select parts to be used in our biological system, we selected a promoter that functions as coliroid and is named BBa_R0082<br />
<br />
3/21/2012 <br />
<br />
We worked on selecting the parts we need and selected two mint producing parts we could attempt to use BBa_J45004 and BBa_J45099. The banana producing part is BBa_J45199, an enyzme generator that creates an enzyme to catalyze the process that causes isoamyl alcohol to break down into isoamyl acetate, which smells like bananas.<br />
<br />
3/23/2012<br />
<br />
Today we hit a magnificent breakthrough in wiki page editing. We can now call ourselves masters. We also planned the system we will create for our project.<br />
<br />
3/26/2012 and 3/27/2012<br />
<br />
Worked on creating a visual of our system. We are working on Tinker Cell to create the whole thing and have a diagram of what we are creating. We know that we will need the light sensor (Cph8) part name BBa_I15010 and the molecule activating our smells will be the OmpRp part name BBa_R0082<br />
<br />
3/28/2012 - 4/3/2012<br />
<br />
Tim did a whole bunch of research and modeling. Austin and Brandon double tasked with "Operation Superman" which was a ginormous success.<br />
<br />
4/4/2012<br />
<br />
Each of the plasmids needed were inserted into compatible bacteria and grown on plates. The bacteria with the light sensor gene failed to grow.<br />
<br />
4/5/2012<br />
<br />
Today we moved isolated colonies of each part to broth for growth. We also poured a bunch of plates! <br />
<br />
4/6/2012<br />
<br />
We worked on isolating the plasmids of each part.<br />
<br />
4/9/2012<br />
<br />
Today we set down with our instructor to describe the next steps in our project. We also worked on finding published papers of our parts to get a better understanding about them. We also learned that OmpRp is phosphated OmpR and is activated when there is no light. OmpR regulates our system so at night it will be activating the banana smell but we need a activator that will activate the mint during light.<br />
<br />
4/10/2012<br />
<br />
We set down and worked on modeling our system and came to a realization of what parts we need to add like OmpC and OmpF promoter. <br />
<br />
4/11/2012<br />
<br />
The systems we are creating were finalized on the Tinkercell program and uploaded to the wiki. We also collaborated with our mentors at Arizona State University. Tim began modeling on Jmol.<br />
<br />
4/16/2012<br />
<br />
We attempted another transformation on the light sensor, but were unsuccessful.<br />
<br />
4/25/2012<br />
<br />
New competent cells were delivered so we reattempted the transformation of the light sensor. The bacteria failed to grow on the kanamycin plates, but successfully grew on regular LB plates. Our longshot attempt to grow the bacteria on ampicillin plates also failed.<br />
<br />
4/26/2012<br />
<br />
We problem solved why our kanamycin plates continued to prohibit bacterial growth and set up the experiment to determine what aspect of the transformation created the failures.<br />
<br />
4/27/2012<br />
<br />
We attempted the transformation of a part unrelated to the project. The plasmid provides both ampicillin and kanamycin resistance so we will attempt to grow the bacteria on one plate with ampicillin and another with kanamycin. If it grows on both then the issue with our light sensor is in the part. If it only grows on the ampicillin then we have an issue with our kanamycin.<br />
<br />
5/2/12<br />
<br />
We tried to transformation our light sensor again and it failed so we tried to contact another mentor to get advise on why just that part is failing. We also transformed another promoter that we will use. <br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/Team:BVCAPS_Research_KS/ProjectTeam:BVCAPS Research KS/Project2012-05-14T13:31:10Z<p>Agrottinghaus: </p>
<hr />
<div>::[[File:toolbar_team.png|140px|link=Team:BVCAPS_Research_KS/Team|Team]] [[File:toolbar_project.png|140px|link=Team:BVCAPS_Research_KS/Project|Project]] [[File:toolbar_notebook.png|140px|link=Team:BVCAPS_Research_KS/Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Team:BVCAPS_Research_KS/Results|Results]] [[File:toolbar_Safety.png|140px|link=Team:BVCAPS_Research_KS/Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Team:BVCAPS_Research_KS/Sponsors|Sponsors]]<br />
<br />
<br />
==Overview==<br />
<br />
Our project, in essence, designs the perfect alarm clock. The presence of a strong wintergreen smell is used to help the user wake up, heightening their senses. At night, when no light is present, a banana odor produced will assist in calming down the user, helping them go to bed. This all occurs in the absence of electricity through pure biological systems.<br />
<br />
This system is the combination of the MIT and University of Texas teams' projects from years past. We are making a combined genetic circuit with the smell of the bacteria (banana or mint) depending on the time of day (presence of light). The light receptor protein, obtained from photosynthetic algae, turns the banana smell on in the absence of light, and the mint smell on in the presence of light.<br />
<br />
Visual of our system in presence of light <br />
<br />
[[File:good pic.jpg]]<br />
<br />
<br />
Visual of our system in the dark<br />
<br />
[[File:Example.jpg]]<br />
<br />
==Human Practices==<br />
<br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/Team:BVCAPS_Research_KS/ProjectTeam:BVCAPS Research KS/Project2012-05-14T13:30:58Z<p>Agrottinghaus: </p>
<hr />
<div>::[[File:toolbar_team.png|140px|link=Team:BVCAPS_Research_KS/Team|Team]] [[File:toolbar_project.png|140px|link=Team:BVCAPS_Research_KS/Project|Project]] [[File:toolbar_notebook.png|140px|link=Team:BVCAPS_Research_KS/Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Team:BVCAPS_Research_KS/Results|Results]][[File:toolbar_Safety.png|140px|link=Team:BVCAPS_Research_KS/Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Team:BVCAPS_Research_KS/Sponsors|Sponsors]]<br />
<br />
<br />
==Overview==<br />
<br />
Our project, in essence, designs the perfect alarm clock. The presence of a strong wintergreen smell is used to help the user wake up, heightening their senses. At night, when no light is present, a banana odor produced will assist in calming down the user, helping them go to bed. This all occurs in the absence of electricity through pure biological systems.<br />
<br />
This system is the combination of the MIT and University of Texas teams' projects from years past. We are making a combined genetic circuit with the smell of the bacteria (banana or mint) depending on the time of day (presence of light). The light receptor protein, obtained from photosynthetic algae, turns the banana smell on in the absence of light, and the mint smell on in the presence of light.<br />
<br />
Visual of our system in presence of light <br />
<br />
[[File:good pic.jpg]]<br />
<br />
<br />
Visual of our system in the dark<br />
<br />
[[File:Example.jpg]]<br />
<br />
==Human Practices==<br />
<br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/Team:BVCAPS_Research_KS/TeamTeam:BVCAPS Research KS/Team2012-05-14T13:30:27Z<p>Agrottinghaus: </p>
<hr />
<div>::[[File:toolbar_team.png|140px|link=Team:BVCAPS_Research_KS/Team|Team]] [[File:toolbar_project.png|140px|link=Team:BVCAPS_Research_KS/Project|Project]] [[File:toolbar_notebook.png|140px|link=Team:BVCAPS_Research_KS/Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Team:BVCAPS_Research_KS/Results|Results]] [[File:toolbar_Safety.png|140px|link=Team:BVCAPS_Research_KS/Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Team:BVCAPS_Research_KS/Sponsors|Sponsors]]<br />
<br />
<br />
BVCAPS Research KS is a team of wonderful high school kids unified in solving science problems through genetic engineering. The members attend a variety of schools in the Blue Valley School District, but became unified at the excellent Blue Valley CAPS professional studies center, geared towards getting the students real world experience. Once together in the Bioscience Research class, they recognized their vast potential, and aimed it at the iGEM competition.<br />
<br />
====Members====<br />
<br />
* [[Austin Rottinghaus]] a.k.a. Steady Hands<br />
<br />
* [[Brandon Whitcomb]] a.k.a. Beast from Butler<br />
<br />
* [[Tim Schaefer]] a.k.a Schaef-cat Hopkins<br />
<br />
* [[Graham Wehmeyer]] a.k.a. Green Cali Mojo<br />
<br />
====Facts====<br />
<br />
Mascot: Dragon slaying, banana shooting, mint breathing ecoli monster<br />
<br />
Drink: Chocolate Milk<br />
<br />
Game: Pokemon<br />
<br />
Super Game: Skyrim, Mass Effect(s)<br />
<br />
Hobby: Dropping 3s and dunking at the berg with 9 foot hoops<br />
<br />
Hero: Katniss<br />
<br />
Food: Chinese<br />
<br />
Book (for those who are literate): Hunger Games<br />
<br />
Movie: Hunger Games and The Avengers <br />
<br />
Hair Style: Mike Bruesewitz's red afro, 2010-2011<br />
<br />
Animal: Liger<br />
<br />
Piece of Artwork: This website<br />
<br />
Fantasy Animal: Skeletal, quadrahorn dragon<br />
<br />
Pokemon: Diglett, Lugia, Grimer<br />
<br />
Future: Fab 5.1<br />
<br />
Dislikes: SEC, Bacteria who do not uptake plasmids, Zebrafish<br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/Team:BVCAPS_Research_KS/ResultsTeam:BVCAPS Research KS/Results2012-05-14T13:29:54Z<p>Agrottinghaus: </p>
<hr />
<div>::[[File:toolbar_team.png|140px|link=Team:BVCAPS_Research_KS/Team|Team]] [[File:toolbar_project.png|140px|link=Team:BVCAPS_Research_KS/Project|Project]] [[File:toolbar_notebook.png|140px|link=Team:BVCAPS_Research_KS/Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Team:BVCAPS_Research_KS/Results|Results]][[File:toolbar_Safety.png|140px|link=Team:BVCAPS_Research_KS/Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Team:BVCAPS_Research_KS/Sponsors|Sponsors]]<br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/Team:BVCAPS_Research_KS/NotebookTeam:BVCAPS Research KS/Notebook2012-05-14T13:29:34Z<p>Agrottinghaus: </p>
<hr />
<div>::[[File:toolbar_team.png|140px|link=Team:BVCAPS_Research_KS/Team|Team]] [[File:toolbar_project.png|140px|link=Team:BVCAPS_Research_KS/Project|Project]] [[File:toolbar_notebook.png|140px|link=Team:BVCAPS_Research_KS/Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Team:BVCAPS_Research_KS/Results|Results]][[File:toolbar_Safety.png|140px|link=Team:BVCAPS_Research_KS/Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Team:BVCAPS_Research_KS/Sponsors|Sponsors]]<br />
<br />
==Protocols==<br />
<br />
====Transformation====<br />
We used New England Biolab's High Efficiency Trasformation protocol.<br />
<br />
1. Thaw a tube of NEB 5-alpha Competent E. coli cells on ice until the last ice crystals disappear. Mix gently and carefully pipette 50 µl of cells into a transformation tube on ice.<br />
<br />
2. Add 1-5 µl containing 1 pg-100 ng of plasmid DNA to the cell mixture. Carefully flick the tube 4-5 times to mix cells and DNA. Do not vortex.<br />
<br />
3. Place the mixture on ice for 30 minutes. Do not mix.<br />
<br />
4. Heat shock at exactly 42°C for exactly 30 seconds. Do not mix.<br />
<br />
5. Place on ice for 5 minutes. Do not mix.<br />
<br />
6. Pipette 950 µl of room temperature SOC into the mixture.<br />
<br />
7. Place at 37°C for 60 minutes. Shake vigorously (250 rpm) or rotate.<br />
<br />
8. Warm selection plates to 37°C.<br />
<br />
9. Mix the cells thoroughly by flicking the tube and inverting, then perform several 10-fold serial dilutions in SOC.<br />
<br />
10. Spread 50-100 µl of each dilution onto a selection plate and incubate overnight at 37°C. Alternatively, incubate at 30°C for 24-36 hours or 25°C for 48 hours.<br />
<br />
====Plasmid Purification====<br />
We used the Aurum Plasmid Mini Kit, with the spin method, for plasmid isolation and purification.<br />
<br />
1. Transfer up to 12 OD•ml of plasmid-containing bacterial host to a 1.5–2.0 ml<br />
capped microcentrifuge tube (not provided). Pellet the cells by centrifugation<br />
for 1 min. Remove all supernatant by decanting or pipetting.<br />
<br />
2. Add 250 μl of resuspension solution and vortex or pipet up and down until<br />
the cell pellet is completely resuspended.<br />
<br />
3. Add 250 μl of lysis solution and mix by inverting the capped tube briskly<br />
6–8 times. DO NOT VORTEX OR SHAKE. The solution should become<br />
viscous and slightly clear. Note: The neutralization solution should be added within 5 min after lysis.<br />
<br />
4. Add 350 μl of neutralization solution and mix by inverting the capped tube<br />
briskly 6–8 times. DO NOT VORTEX OR SHAKE. A visible precipitate should<br />
form.<br />
<br />
5. Centrifuge the neutralized lysate for 5 min. A compact white debris pellet will<br />
form along the side or at the bottom of the tube. The supernatant or cleared<br />
lysate contains the plasmid DNA.<br />
<br />
6. While centrifuging the lysate, insert a plasmid mini column into a 2 ml<br />
capless wash tube (provided).<br />
<br />
7. By decanting or pipetting, transfer the cleared lysate from step 5 to the<br />
plasmid mini column. Centrifuge for 1 min.<br />
<br />
8. The wash solution is supplied as a 5x concentrate. Add 4 volumes (100 ml)<br />
of 95–100% ethanol or reagent-grade (denatured) ethanol before initial use.<br />
<br />
9. Remove the plasmid mini column from the wash tube. Discard the filtrate<br />
from the tube, and replace the column into the same wash tube. Add 750 μl<br />
of wash solution and centrifuge for 1 min.<br />
<br />
10. Discard the wash solution from the tube, and replace the column into the<br />
same wash tube. Centrifuge for 1 additional minute to remove residual wash<br />
solution.<br />
<br />
11. Transfer the plasmid mini column to a 1.5–2.0 ml capped microcentrifuge<br />
tube (not provided). Add 50 μl of elution solution onto the membrane stack<br />
at the base of the column and allow 1 min for the solution to saturate the<br />
membranes. Centrifuge for 1 min to elute the plasmid.<br />
<br />
12. Discard the mini column and store the eluted DNA at 4ºC.<br />
<br />
==Notebook==<br />
<br />
<br />
3/20/2012<br />
<br />
Today we attempted to build a circuit and added our project description.<br />
We also tried to select parts to be used in our biological system, we selected a promoter that functions as coliroid and is named BBa_R0082<br />
<br />
3/21/2012 <br />
<br />
We worked on selecting the parts we need and selected two mint producing parts we could attempt to use BBa_J45004 and BBa_J45099. The banana producing part is BBa_J45199, an enyzme generator that creates an enzyme to catalyze the process that causes isoamyl alcohol to break down into isoamyl acetate, which smells like bananas.<br />
<br />
3/23/2012<br />
<br />
Today we hit a magnificent breakthrough in wiki page editing. We can now call ourselves masters. We also planned the system we will create for our project.<br />
<br />
3/26/2012 and 3/27/2012<br />
<br />
Worked on creating a visual of our system. We are working on Tinker Cell to create the whole thing and have a diagram of what we are creating. We know that we will need the light sensor (Cph8) part name BBa_I15010 and the molecule activating our smells will be the OmpRp part name BBa_R0082<br />
<br />
3/28/2012 - 4/3/2012<br />
<br />
Tim did a whole bunch of research and modeling. Austin and Brandon double tasked with "Operation Superman" which was a ginormous success.<br />
<br />
4/4/2012<br />
<br />
Each of the plasmids needed were inserted into compatible bacteria and grown on plates. The bacteria with the light sensor gene failed to grow.<br />
<br />
4/5/2012<br />
<br />
Today we moved isolated colonies of each part to broth for growth. We also poured a bunch of plates! <br />
<br />
4/6/2012<br />
<br />
We worked on isolating the plasmids of each part.<br />
<br />
4/9/2012<br />
<br />
Today we set down with our instructor to describe the next steps in our project. We also worked on finding published papers of our parts to get a better understanding about them. We also learned that OmpRp is phosphated OmpR and is activated when there is no light. OmpR regulates our system so at night it will be activating the banana smell but we need a activator that will activate the mint during light.<br />
<br />
4/10/2012<br />
<br />
We set down and worked on modeling our system and came to a realization of what parts we need to add like OmpC and OmpF promoter. <br />
<br />
4/11/2012<br />
<br />
The systems we are creating were finalized on the Tinkercell program and uploaded to the wiki. We also collaborated with our mentors at Arizona State University. Tim began modeling on Jmol.<br />
<br />
4/16/2012<br />
<br />
We attempted another transformation on the light sensor, but were unsuccessful.<br />
<br />
4/25/2012<br />
<br />
New competent cells were delivered so we reattempted the transformation of the light sensor. The bacteria failed to grow on the kanamycin plates, but successfully grew on regular LB plates. Our longshot attempt to grow the bacteria on ampicillin plates also failed.<br />
<br />
4/26/2012<br />
<br />
We problem solved why our kanamycin plates continued to prohibit bacterial growth and set up the experiment to determine what aspect of the transformation created the failures.<br />
<br />
4/27/2012<br />
<br />
We attempted the transformation of a part unrelated to the project. The plasmid provides both ampicillin and kanamycin resistance so we will attempt to grow the bacteria on one plate with ampicillin and another with kanamycin. If it grows on both then the issue with our light sensor is in the part. If it only grows on the ampicillin then we have an issue with our kanamycin.<br />
<br />
5/2/12<br />
<br />
We tried to transformation our light sensor again and it failed so we tried to contact another mentor to get advise on why just that part is failing. We also transformed another promoter that we will use. <br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/Team:BVCAPS_Research_KS/SafetyTeam:BVCAPS Research KS/Safety2012-05-14T13:29:16Z<p>Agrottinghaus: </p>
<hr />
<div>::[[File:toolbar_team.png|140px|link=Team:BVCAPS_Research_KS/Team|Team]] [[File:toolbar_project.png|140px|link=Team:BVCAPS_Research_KS/Project|Project]] [[File:toolbar_notebook.png|140px|link=Team:BVCAPS_Research_KS/Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Team:BVCAPS_Research_KS/Results|Results]][[File:toolbar_Safety.png|140px|link=Team:BVCAPS_Research_KS/Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Team:BVCAPS_Research_KS/Sponsors|Sponsors]]<br />
<br />
<br />
We have taken classes before where we learned about lab safety. We were told of any additional instructions and warnings that we must be aware of as we work on the project.<br />
<br />
[[File:tim brain bee.jpeg]]<br />
<br />
At all times when chemicals were being used:<br />
*Lab coats were on<br />
*Safety goggles were on<br />
*Gloves were worn<br />
*flames were rarely left unattended<br />
*At the end of every day (if bacteria was used) the tables were disinfected and clean off/pick up any chemicals that were left out.<br />
*No Animals, including Kaitlyn's fish and Mr. Kessler's snakes were harmed in our experiments (they have died during the experiment, but not because of us).<br />
*If Tim did work then we double checked everything he did because of his past failures. <br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/Team:BVCAPS_Research_KS/TeamTeam:BVCAPS Research KS/Team2012-05-14T13:28:54Z<p>Agrottinghaus: </p>
<hr />
<div>::[[File:toolbar_team.png|140px|link=Team:BVCAPS_Research_KS/Team|Team]] [[File:toolbar_project.png|140px|link=Team:BVCAPS_Research_KS/Project|Project]] [[File:toolbar_notebook.png|140px|link=Team:BVCAPS_Research_KS/Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Team:BVCAPS_Research_KS/Results|Results]][[File:toolbar_Safety.png|140px|link=Team:BVCAPS_Research_KS/Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Team:BVCAPS_Research_KS/Sponsors|Sponsors]]<br />
<br />
<br />
BVCAPS Research KS is a team of wonderful high school kids unified in solving science problems through genetic engineering. The members attend a variety of schools in the Blue Valley School District, but became unified at the excellent Blue Valley CAPS professional studies center, geared towards getting the students real world experience. Once together in the Bioscience Research class, they recognized their vast potential, and aimed it at the iGEM competition.<br />
<br />
====Members====<br />
<br />
* [[Austin Rottinghaus]] a.k.a. Steady Hands<br />
<br />
* [[Brandon Whitcomb]] a.k.a. Beast from Butler<br />
<br />
* [[Tim Schaefer]] a.k.a Schaef-cat Hopkins<br />
<br />
* [[Graham Wehmeyer]] a.k.a. Green Cali Mojo<br />
<br />
====Facts====<br />
<br />
Mascot: Dragon slaying, banana shooting, mint breathing ecoli monster<br />
<br />
Drink: Chocolate Milk<br />
<br />
Game: Pokemon<br />
<br />
Super Game: Skyrim, Mass Effect(s)<br />
<br />
Hobby: Dropping 3s and dunking at the berg with 9 foot hoops<br />
<br />
Hero: Katniss<br />
<br />
Food: Chinese<br />
<br />
Book (for those who are literate): Hunger Games<br />
<br />
Movie: Hunger Games and The Avengers <br />
<br />
Hair Style: Mike Bruesewitz's red afro, 2010-2011<br />
<br />
Animal: Liger<br />
<br />
Piece of Artwork: This website<br />
<br />
Fantasy Animal: Skeletal, quadrahorn dragon<br />
<br />
Pokemon: Diglett, Lugia, Grimer<br />
<br />
Future: Fab 5.1<br />
<br />
Dislikes: SEC, Bacteria who do not uptake plasmids, Zebrafish<br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/Team:BVCAPS_Research_KSTeam:BVCAPS Research KS2012-05-14T13:26:35Z<p>Agrottinghaus: </p>
<hr />
<div>[[File:Heading7.png]]<br />
<br />
::[[File:toolbar_team.png|140px|link=Team:BVCAPS_Research_KS/Team|Team]] [[File:toolbar_project.png|140px|link=Team:BVCAPS_Research_KS/Project|Project]] [[File:toolbar_notebook.png|140px|link=Team:BVCAPS_Research_KS/Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Team:BVCAPS_Research_KS/Results|Results]][[File:toolbar_Safety.png|140px|link=Team:BVCAPS_Research_KS/Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Team:BVCAPS_Research_KS/Sponsors|Sponsors]]<br />
<br />
[[File:dragon logo.jpg]]<br />
<forum_subtle /></div>Agrottinghaushttp://2012hs.igem.org/File:Heading7.pngFile:Heading7.png2012-05-14T13:08:57Z<p>Agrottinghaus: </p>
<hr />
<div></div>Agrottinghaushttp://2012hs.igem.org/Team:BVCAPS_Research_KSTeam:BVCAPS Research KS2012-05-14T13:08:31Z<p>Agrottinghaus: </p>
<hr />
<div>[[File:Heading7.png]]<br />
<br />
[[File:toolbar_team.png|140px|link=Team:BVCAPS_Research_KS/Team|Team]] [[File:toolbar_project.png|140px|link=Team:BVCAPS_Research_KS/Project|Project]] [[File:toolbar_notebook.png|140px|link=Team:BVCAPS_Research_KS/Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Team:BVCAPS_Research_KS/Results|Results]]<br />
[[File:toolbar_Safety.png|140px|link=Team:BVCAPS_Research_KS/Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Team:BVCAPS_Research_KS/Sponsors|Sponsors]]<br />
<br />
[[File:dragon logo.jpg]]<br />
<forum_subtle /></div>Agrottinghaushttp://2012hs.igem.org/File:Heading6.pngFile:Heading6.png2012-05-14T12:59:03Z<p>Agrottinghaus: </p>
<hr />
<div></div>Agrottinghaushttp://2012hs.igem.org/Team:BVCAPS_Research_KSTeam:BVCAPS Research KS2012-05-14T12:58:47Z<p>Agrottinghaus: </p>
<hr />
<div>[[File:Heading6.png]]<br />
<br />
[[File:toolbar_team.png|140px|link=Team:BVCAPS_Research_KS/Team|Team]] [[File:toolbar_project.png|140px|link=Team:BVCAPS_Research_KS/Project|Project]] [[File:toolbar_notebook.png|140px|link=Team:BVCAPS_Research_KS/Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Team:BVCAPS_Research_KS/Results|Results]]<br />
[[File:toolbar_Safety.png|140px|link=Team:BVCAPS_Research_KS/Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Team:BVCAPS_Research_KS/Sponsors|Sponsors]]<br />
<br />
[[File:dragon logo small.jpg]]<br />
<forum_subtle /></div>Agrottinghaushttp://2012hs.igem.org/File:Heading5.pngFile:Heading5.png2012-05-14T12:57:37Z<p>Agrottinghaus: </p>
<hr />
<div></div>Agrottinghaushttp://2012hs.igem.org/Team:BVCAPS_Research_KSTeam:BVCAPS Research KS2012-05-14T12:57:03Z<p>Agrottinghaus: </p>
<hr />
<div>[[File:Heading5.png]]<br />
<br />
[[File:toolbar_team.png|140px|link=Team:BVCAPS_Research_KS/Team|Team]] [[File:toolbar_project.png|140px|link=Team:BVCAPS_Research_KS/Project|Project]] [[File:toolbar_notebook.png|140px|link=Team:BVCAPS_Research_KS/Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Team:BVCAPS_Research_KS/Results|Results]]<br />
[[File:toolbar_Safety.png|140px|link=Team:BVCAPS_Research_KS/Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Team:BVCAPS_Research_KS/Sponsors|Sponsors]]<br />
<br />
[[File:dragon logo small.jpg]]<br />
<forum_subtle /></div>Agrottinghaushttp://2012hs.igem.org/TeamTeam2012-04-27T14:27:58Z<p>Agrottinghaus: </p>
<hr />
<div>[[File:toolbar_team.png|140px|link=Team|Team]] [[File:toolbar_project.png|140px|link=Project|Project]] [[File:toolbar_notebook.png|140px|link=Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Results|Results]]<br />
[[File:toolbar_Safety.png|140px|link=Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Sponsors|Sponsors]]<br />
<br />
<br />
BVCAPS Research KS is a team of wonderful high school kids unified in solving science problems through genetic engineering. The members attend a variety of schools in the Blue Valley School District, but became unified at the excellent Blue Valley CAPS professional studies center, geared towards getting the students real world experience. Once together in the Bioscience Research class, they recognized their vast potential, and aimed it at the iGEM competition.<br />
<br />
====Members====<br />
<br />
* [[Austin Rottinghaus]] a.k.a. Steady Hands<br />
<br />
* [[Brandon Whitcomb]] a.k.a. Beast from Butler<br />
<br />
* [[Tim Schaefer]] a.k.a Schaef-cat Hopkins<br />
<br />
* [[Graham Wehmeyer]] a.k.a. Green Cali Mojo<br />
<br />
* [[Vivek Menon]] a.k.a Pokemon Master<br />
<br />
====Facts====<br />
<br />
Mascot: Dragon slaying, banana shooting, mint breathing ecoli monster<br />
<br />
Drink: Chocolate Milk<br />
<br />
Game: Pokemon<br />
<br />
Super Game: Skyrim, Mass Effect(s)<br />
<br />
Hobby: Dropping 3s and dunking at the berg with 9 foot hoops<br />
<br />
Hero: Katniss<br />
<br />
Food: Chinese<br />
<br />
Snack: CAPS m&m cookies<br />
<br />
Book (for those who are literate): Hunger Games<br />
<br />
Movie: Hunger Games<br />
<br />
Hair Style: Mike Bruesewitz's red afro, 2010-2011<br />
<br />
Animal: Liger<br />
<br />
Piece of Artwork: This website<br />
<br />
Fantasy Animal: Skeletal, quadrahorn dragon<br />
<br />
Pokemon: Diglett, Lugia, Grimer, ,<br />
<br />
Future: Fab 5.1<br />
<br />
Dislikes: SEC, Bacteria who do not uptake plasmids, Zebrafish<br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/Team:BVCAPS_Research_KS/SafetyTeam:BVCAPS Research KS/Safety2012-04-27T14:22:26Z<p>Agrottinghaus: </p>
<hr />
<div>[[File:toolbar_team.png|140px|link=Team:BVCAPS_Research_KS/Team|Team]] [[File:toolbar_project.png|140px|link=Team:BVCAPS_Research_KS/Project|Project]] [[File:toolbar_notebook.png|140px|link=Team:BVCAPS_Research_KS/Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Team:BVCAPS_Research_KS/Results|Results]]<br />
[[File:toolbar_Safety.png|140px|link=Team:BVCAPS_Research_KS/Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Team:BVCAPS_Research_KS/Sponsors|Sponsors]]<br />
<br />
<br />
We have taken classes before where we learned about lab safety. We were told of any additional instructions and warnings that we must be aware of as we work on the project.<br />
<br />
[[File:tim brain bee.jpeg]]<br />
<br />
At all times when chemicals were being used:<br />
*Lab coats were on<br />
*Safety goggles were on<br />
*Gloves were worn<br />
*flames were rarely left unattended<br />
*At the end of every day (if bacteria was used) the tables were disinfected and clean off/pick up any chemicals that were left out.<br />
*No Animals, including Kaitlyn's fish and Mr. Kessler's snakes were harmed in our experiments (they have died during the experiment, but not because of us).<br />
*If Tim did work then we double checked everything he did because of his past failures. <br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/Team:BVCAPS_Research_KS/SafetyTeam:BVCAPS Research KS/Safety2012-04-27T14:22:05Z<p>Agrottinghaus: </p>
<hr />
<div>[[File:toolbar_team.png|140px|link=Team:BVCAPS_Research_KS/Team|Team]] [[File:toolbar_project.png|140px|link=Team:BVCAPS_Research_KS/Project|Project]] [[File:toolbar_notebook.png|140px|link=Team:BVCAPS_Research_KS/Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Team:BVCAPS_Research_KS/Results|Results]]<br />
[[File:toolbar_Safety.png|140px|link=Team:BVCAPS_Research_KS/Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Team:BVCAPS_Research_KS/Sponsors|Sponsors]]<br />
<br />
<br />
We have taken classes before where we learned about lab safety. We were told of any additional instructions and warnings that we must be aware of as we work on the project.<br />
<br />
[[File:tim brain bee.jpeg]]<br />
<br />
At all times when chemicals were being used:<br />
*Lab coats were on<br />
*Safety goggles were on<br />
*Gloves were worn<br />
*flames were rarely left unattended<br />
*At the end of every day (if bacteria was used) the tables were disinfected and clean off/pick up any chemicals that were left out.<br />
*No Animals, including Kaitlyn's fish and Mr. Kessler's snakes were harmed in our experiments (they have died during the experiment, but not because of us).<br />
*If Tim did work then we double check everything he did because of his past failures. <br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/Team:BVCAPS_Research_KS/SafetyTeam:BVCAPS Research KS/Safety2012-04-27T14:21:23Z<p>Agrottinghaus: </p>
<hr />
<div>[[File:toolbar_team.png|140px|link=Team:BVCAPS_Research_KS/Team|Team]] [[File:toolbar_project.png|140px|link=Team:BVCAPS_Research_KS/Project|Project]] [[File:toolbar_notebook.png|140px|link=Team:BVCAPS_Research_KS/Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Team:BVCAPS_Research_KS/Results|Results]]<br />
[[File:toolbar_Safety.png|140px|link=Team:BVCAPS_Research_KS/Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Team:BVCAPS_Research_KS/Sponsors|Sponsors]]<br />
<br />
<br />
We have taken classes before where we learned about lab safety. We were told of any additional instructions and warnings that we must be aware of as we work on the project.<br />
<br />
[[File:tim brain bee.jpeg]]<br />
<br />
At all times when chemicals were being used:<br />
*Lab coats were on<br />
*Safety goggles were on<br />
*Gloves were worn<br />
*flames were rarely left unattended<br />
*At the end of every day (if bacteria was used) the tables were disinfected and clean off/pick up any chemicals that were left out.<br />
*No Animals, including Kaitlyn's fish and Mr. Kessler's snakes were harmed in our experiments (they have died during the experiment, but not because of us).<br />
<br />
If Tim did work then we double check everything he did because of his past failures <br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/Team:BVCAPS_Research_KS/SafetyTeam:BVCAPS Research KS/Safety2012-04-27T14:16:17Z<p>Agrottinghaus: </p>
<hr />
<div>[[File:toolbar_team.png|140px|link=Team:BVCAPS_Research_KS/Team|Team]] [[File:toolbar_project.png|140px|link=Team:BVCAPS_Research_KS/Project|Project]] [[File:toolbar_notebook.png|140px|link=Team:BVCAPS_Research_KS/Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Team:BVCAPS_Research_KS/Results|Results]]<br />
[[File:toolbar_Safety.png|140px|link=Team:BVCAPS_Research_KS/Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Team:BVCAPS_Research_KS/Sponsors|Sponsors]]<br />
<br />
<br />
We have taken classes before where we learned about lab safety. We were told of any additional instructions and warnings that we must be aware of as we work on the project.<br />
<br />
[[File:tim brain bee.jpeg]]<br />
<br />
At all times when chemicals were being used:<br />
*Lab coats were on<br />
*Safety goggles were on<br />
*Gloves were worn<br />
*No flames were ever unattended<br />
*At the end of every day (if bacteria was used) the tables were disinfected and clean off/pick up any chemicals that were left out.<br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/Team:BVCAPS_Research_KS/NotebookTeam:BVCAPS Research KS/Notebook2012-04-27T14:12:17Z<p>Agrottinghaus: </p>
<hr />
<div>[[File:toolbar_team.png|140px|link=Team:BVCAPS_Research_KS/Team|Team]] [[File:toolbar_project.png|140px|link=Team:BVCAPS_Research_KS/Project|Project]] [[File:toolbar_notebook.png|140px|link=Team:BVCAPS_Research_KS/Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Team:BVCAPS_Research_KS/Results|Results]]<br />
[[File:toolbar_Safety.png|140px|link=Team:BVCAPS_Research_KS/Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Team:BVCAPS_Research_KS/Sponsors|Sponsors]]<br />
<br />
==Protocols==<br />
<br />
====Transformation====<br />
We used New England Biolab's High Efficiency Trasformation protocol.<br />
<br />
1. Thaw a tube of NEB 5-alpha Competent E. coli cells on ice until the last ice crystals disappear. Mix gently and carefully pipette 50 µl of cells into a transformation tube on ice.<br />
<br />
2. Add 1-5 µl containing 1 pg-100 ng of plasmid DNA to the cell mixture. Carefully flick the tube 4-5 times to mix cells and DNA. Do not vortex.<br />
<br />
3. Place the mixture on ice for 30 minutes. Do not mix.<br />
<br />
4. Heat shock at exactly 42°C for exactly 30 seconds. Do not mix.<br />
<br />
5. Place on ice for 5 minutes. Do not mix.<br />
<br />
6. Pipette 950 µl of room temperature SOC into the mixture.<br />
<br />
7. Place at 37°C for 60 minutes. Shake vigorously (250 rpm) or rotate.<br />
<br />
8. Warm selection plates to 37°C.<br />
<br />
9. Mix the cells thoroughly by flicking the tube and inverting, then perform several 10-fold serial dilutions in SOC.<br />
<br />
10. Spread 50-100 µl of each dilution onto a selection plate and incubate overnight at 37°C. Alternatively, incubate at 30°C for 24-36 hours or 25°C for 48 hours.<br />
<br />
====Plasmid Purification====<br />
We used the Aurum Plasmid Mini Kit, with the spin method, for plasmid isolation and purification.<br />
<br />
1. Transfer up to 12 OD•ml of plasmid-containing bacterial host to a 1.5–2.0 ml<br />
capped microcentrifuge tube (not provided). Pellet the cells by centrifugation<br />
for 1 min. Remove all supernatant by decanting or pipetting.<br />
<br />
2. Add 250 μl of resuspension solution and vortex or pipet up and down until<br />
the cell pellet is completely resuspended.<br />
<br />
3. Add 250 μl of lysis solution and mix by inverting the capped tube briskly<br />
6–8 times. DO NOT VORTEX OR SHAKE. The solution should become<br />
viscous and slightly clear. Note: The neutralization solution should be added within 5 min after lysis.<br />
<br />
4. Add 350 μl of neutralization solution and mix by inverting the capped tube<br />
briskly 6–8 times. DO NOT VORTEX OR SHAKE. A visible precipitate should<br />
form.<br />
<br />
5. Centrifuge the neutralized lysate for 5 min. A compact white debris pellet will<br />
form along the side or at the bottom of the tube. The supernatant or cleared<br />
lysate contains the plasmid DNA.<br />
<br />
6. While centrifuging the lysate, insert a plasmid mini column into a 2 ml<br />
capless wash tube (provided).<br />
<br />
7. By decanting or pipetting, transfer the cleared lysate from step 5 to the<br />
plasmid mini column. Centrifuge for 1 min.<br />
<br />
8. The wash solution is supplied as a 5x concentrate. Add 4 volumes (100 ml)<br />
of 95–100% ethanol or reagent-grade (denatured) ethanol before initial use.<br />
<br />
9. Remove the plasmid mini column from the wash tube. Discard the filtrate<br />
from the tube, and replace the column into the same wash tube. Add 750 μl<br />
of wash solution and centrifuge for 1 min.<br />
<br />
10. Discard the wash solution from the tube, and replace the column into the<br />
same wash tube. Centrifuge for 1 additional minute to remove residual wash<br />
solution.<br />
<br />
11. Transfer the plasmid mini column to a 1.5–2.0 ml capped microcentrifuge<br />
tube (not provided). Add 50 μl of elution solution onto the membrane stack<br />
at the base of the column and allow 1 min for the solution to saturate the<br />
membranes. Centrifuge for 1 min to elute the plasmid.<br />
<br />
12. Discard the mini column and store the eluted DNA at 4ºC.<br />
<br />
==Notebook==<br />
<br />
<br />
3/20/2012<br />
<br />
Today we attempted to build a circuit and added our project description.<br />
We also tried to select parts to be used in our biological system, we selected a promoter that functions as coliroid and is named BBa_R0082<br />
<br />
3/21/2012 <br />
<br />
We worked on selecting the parts we need and selected two mint producing parts we could attempt to use BBa_J45004 and BBa_J45099. The banana producing part is BBa_J45199, an enyzme generator that creates an enzyme to catalyze the process that causes isoamyl alcohol to break down into isoamyl acetate, which smells like bananas.<br />
<br />
3/23/2012<br />
<br />
Today we hit a magnificent breakthrough in wiki page editing. We can now call ourselves masters. We also planned the system we will create for our project.<br />
<br />
3/26/2012 and 3/27/2012<br />
<br />
Worked on creating a visual of our system. We are working on Tinker Cell to create the whole thing and have a diagram of what we are creating. We know that we will need the light sensor (Cph8) part name BBa_I15010 and the molecule activating our smells will be the OmpRp part name BBa_R0082<br />
<br />
3/28/2012 - 4/3/2012<br />
<br />
Tim did a whole bunch of research and modeling. Austin and Brandon double tasked with "Operation Superman" which was a ginormous success.<br />
<br />
4/4/2012<br />
<br />
Each of the plasmids needed were inserted into compatible bacteria and grown on plates. The bacteria with the light sensor gene failed to grow.<br />
<br />
4/5/2012<br />
<br />
Today we moved isolated colonies of each part to broth for growth. We also poured a bunch of plates! <br />
<br />
4/6/2012<br />
<br />
We worked on isolating the plasmids of each part.<br />
<br />
4/9/2012<br />
<br />
Today we set down with our instructor to describe the next steps in our project. We also worked on finding published papers of our parts to get a better understanding about them. We also learned that OmpRp is phosphated OmpR and is activated when there is no light. OmpR regulates our system so at night it will be activating the banana smell but we need a activator that will activate the mint during light.<br />
<br />
4/10/2012<br />
<br />
We set down and worked on modeling our system and came to a realization of what parts we need to add like OmpC and OmpF promoter. <br />
<br />
4/11/2012<br />
<br />
The systems we are creating were finalized on the Tinkercell program and uploaded to the wiki. We also collaborated with our mentors at Arizona State University. Tim began modeling on Jmol.<br />
<br />
4/16/2012<br />
<br />
We attempted another transformation on the light sensor, but were unsuccessful.<br />
<br />
4/25/2012<br />
<br />
New competent cells were delivered so we reattempted the transformation of the light sensor. The bacteria failed to grow on the kanamycin plates, but successfully grew on regular LB plates. Our longshot attempt to grow the bacteria on ampicillin plates also failed.<br />
<br />
4/26/2012<br />
<br />
We problem solved why our kanamycin plates continued to prohibit bacterial growth and set up the experiment to determine what aspect of the transformation created the failures.<br />
<br />
4/27/2012<br />
<br />
We attempted the transformation of a part unrelated to the project. The plasmid provides both ampicillin and kanamycin resistance so we will attempt to grow the bacteria on one plate with ampicillin and another with kanamycin. If it grows on both then the issue with our light sensor is in the part. If it only grows on the ampicillin then we have an issue with our kanamycin.<br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/TeamTeam2012-04-25T13:56:14Z<p>Agrottinghaus: </p>
<hr />
<div>[[File:toolbar_team.png|140px|link=Team|Team]] [[File:toolbar_project.png|140px|link=Project|Project]] [[File:toolbar_notebook.png|140px|link=Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Results|Results]]<br />
[[File:toolbar_Safety.png|140px|link=Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Sponsors|Sponsors]]<br />
<br />
<br />
BVCAPS Research KS is a team of wonderful high school kids unified in solving science problems through genetic engineering. The members attend a variety of schools in the Blue Valley School District, but became unified at the excellent Blue Valley CAPS professional studies center, geared towards getting the students real world experience. Once together in the Bioscience Research class, they recognized their vast potential, and aimed it at the iGEM competition.<br />
<br />
====Members====<br />
<br />
* [[Austin Rottinghaus]] a.k.a. Steady Hands<br />
<br />
* [[Brandon Whitcomb]] a.k.a. Beast from Butler<br />
<br />
* [[Tim Schaefer]] a.k.a Schaef-cat Hopkins<br />
<br />
* [[Graham Wehmeyer]] a.k.a. Green Cali Mojo<br />
<br />
* [[Vivek Menon]] a.k.a Pokemon Master<br />
<br />
====Facts====<br />
<br />
Mascot: Dragon slaying, banana shooting, mint breathing ecoli monster<br />
<br />
Drink: Chocolate Milk<br />
<br />
Game: Pokemon<br />
<br />
Super Game: Skyrim, Mass Effect(s)<br />
<br />
Hobby: Dropping 3s and dunking at the berg with 9 foot hoops<br />
<br />
Hero: Katniss<br />
<br />
Food: Chinese<br />
<br />
Snack: CAPS m&m cookies<br />
<br />
Book (for those who are literate): Hunger Games<br />
<br />
Movie: Hunger Games<br />
<br />
Hair Style: Mike Bruesewitz's red afro, 2010-2011<br />
<br />
Animal: Liger<br />
<br />
Piece of Artwork: This website<br />
<br />
Fantasy Animal: Skeletal, quadrahorn dragon<br />
<br />
Pokemon: Diglett, Lugia, Grimer, ,<br />
<br />
Future: Fab 5.1<br />
<br />
Dislikes: SEC, Sports Med, Buisness strand, Bacteria who do not uptake plasmids, Zebrafish<br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/Team:BVCAPS_Research_KS/NotebookTeam:BVCAPS Research KS/Notebook2012-04-11T14:09:20Z<p>Agrottinghaus: </p>
<hr />
<div>[[File:toolbar_team.png|140px|link=Team:BVCAPS_Research_KS/Team|Team]] [[File:toolbar_project.png|140px|link=Team:BVCAPS_Research_KS/Project|Project]] [[File:toolbar_notebook.png|140px|link=Team:BVCAPS_Research_KS/Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Team:BVCAPS_Research_KS/Results|Results]]<br />
[[File:toolbar_Safety.png|140px|link=Team:BVCAPS_Research_KS/Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Team:BVCAPS_Research_KS/Sponsors|Sponsors]]<br />
<br />
<br />
<br />
3/20/2012<br />
<br />
Today we attempted to build a circuit and added our project description.<br />
We also tried to select parts to be used in our biological system, we selected a promoter that functions as coliroid and is named BBa_R0082<br />
<br />
3/21/2012 <br />
<br />
We worked on selecting the parts we need and selected two mint producing parts we could attempt to use BBa_J45004 and BBa_J45099. The banana producing part is BBa_J45199, an enyzme generator that creates an enzyme to catalyze the process that causes isoamyl alcohol to break down into isoamyl acetate, which smells like bananas.<br />
<br />
3/23/2012<br />
<br />
Today we hit a magnificent breakthrough in wiki page editing. We can now call ourselves masters. We also planned the system we will create for our project.<br />
<br />
3/26/2012 and 3/27/2012<br />
<br />
Worked on creating a visual of our system. We are working on Tinker Cell to create the whole thing and have a diagram of what we are creating. We know that we will need the light sensor (Cph8) part name BBa_I15010 and the molecule activating our smells will be the OmpRp part name BBa_R0082<br />
<br />
3/28/2012 - 4/3/2012<br />
<br />
Tim did a whole bunch of research and modeling. Austin and Brandon double tasked with "Operation Superman" which was a ginormous success.<br />
<br />
4/4/2012<br />
<br />
Each of the plasmids needed were inserted into compatible bacteria and grown on plates.<br />
<br />
4/5/2012<br />
<br />
Today we moved isolated colonies of each part to broth for growth. We also poured a bunch of plates! <br />
<br />
4/6/2012<br />
<br />
We worked on isolating the plasmids of each part.<br />
<br />
4/9/2012<br />
<br />
Today we set down with our instructor to describe the next steps in our project. We also worked on finding published papers of our parts to get a better understanding about them. We also learned that OmpRp is phosphated OmpR and is activated when there is no light. OmpR regulates our system so at night it will be activating the banana smell but we need a activator that will activate the mint during light.<br />
<br />
4/10/2012<br />
<br />
We set down and worked on modeling our system and came to a realization of what parts we need to add like OmpC and OmpF promoter. <br />
<br />
4/11/2012<br />
<br />
The systems we are creating were finalized on the Tinkercell program and uploaded to the wiki. We also collaborated with our mentors at Arizona State University. Tim began modeling on Jmol.<br />
<br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/Team:BVCAPS_Research_KS/TeamTeam:BVCAPS Research KS/Team2012-04-11T14:00:44Z<p>Agrottinghaus: /* Facts */</p>
<hr />
<div>[[File:toolbar_team.png|140px|link=Team:BVCAPS_Research_KS/Team|Team]] [[File:toolbar_project.png|140px|link=Team:BVCAPS_Research_KS/Project|Project]] [[File:toolbar_notebook.png|140px|link=Team:BVCAPS_Research_KS/Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Team:BVCAPS_Research_KS/Results|Results]]<br />
[[File:toolbar_Safety.png|140px|link=Team:BVCAPS_Research_KS/Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Team:BVCAPS_Research_KS/Sponsors|Sponsors]]<br />
<br />
<br />
BVCAPS Research KS is a team of wonderful high school kids unified in solving science problems through genetic engineering. The members attend a variety of schools in the Blue Valley School District, but became unified at the excellent Blue Valley CAPS professional studies center, geared towards getting the students real world experience. Once together in the Bioscience Research class, they recognized their vast potential, and aimed it at the iGEM competition.<br />
<br />
====Members====<br />
<br />
* [[Austin Rottinghaus]] a.k.a. Steady Hands<br />
<br />
* [[Brandon Whitcomb]] a.k.a. Beast from Butler<br />
<br />
* [[Tim Schaefer]] a.k.a Schaef-cat Hopkins<br />
<br />
* [[Graham Wehmeyer]] a.k.a. Green Cali Mojo<br />
<br />
* [[Vivek Menon]] a.k.a Pokemon Master<br />
<br />
====Facts====<br />
<br />
Mascot: Dragon slaying, banana shooting, mint breathing ecoli monster<br />
<br />
Drink: Chocolate Milk<br />
<br />
Game: Pokemon<br />
<br />
Super Game: Skyrim, Mass Effect(s)<br />
<br />
Hobby: Dropping 3s and dunking at the berg with 9 foot hoops<br />
<br />
Hero: Katniss<br />
<br />
Food: Chinese<br />
<br />
Book (for those who are literate): Hunger Games<br />
<br />
Movie: Hunger Games<br />
<br />
Hair Style: Mike Bruesewitz's red afro, 2010-2011<br />
<br />
Animal: Liger<br />
<br />
Piece of Artwork: This website<br />
<br />
Fantasy Animal: Skeletal, quadrahorn dragon<br />
<br />
Pokemon: Diglett, Lugia, Grimer, ,<br />
<br />
Future: Fab 5.1<br />
<br />
Dislikes: SEC, Bacteria who do not uptake plasmids, Zebrafish<br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/Team:BVCAPS_Research_KS/NotebookTeam:BVCAPS Research KS/Notebook2012-04-11T13:57:03Z<p>Agrottinghaus: </p>
<hr />
<div>[[File:toolbar_team.png|140px|link=Team:BVCAPS_Research_KS/Team|Team]] [[File:toolbar_project.png|140px|link=Team:BVCAPS_Research_KS/Project|Project]] [[File:toolbar_notebook.png|140px|link=Team:BVCAPS_Research_KS/Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Team:BVCAPS_Research_KS/Results|Results]]<br />
[[File:toolbar_Safety.png|140px|link=Team:BVCAPS_Research_KS/Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Team:BVCAPS_Research_KS/Sponsors|Sponsors]]<br />
<br />
<br />
<br />
3/20/2012<br />
<br />
Today we attempted to build a circuit and added our project description.<br />
We also tried to select parts to be used in our biological system, we selected a promoter that functions as coliroid and is named BBa_R0082<br />
<br />
3/21/2012 <br />
<br />
We worked on selecting the parts we need and selected two mint producing parts we could attempt to use BBa_J45004 and BBa_J45099. The banana producing part is BBa_J45199, an enyzme generator that creates an enzyme to catalyze the process that causes isoamyl alcohol to break down into isoamyl acetate, which smells like bananas.<br />
<br />
3/23/2012<br />
<br />
Today we hit a magnificent breakthrough in wiki page editing. We can now call ourselves masters. We also planned the system we will create for our project.<br />
<br />
3/26/2012 and 3/27/2012<br />
<br />
Worked on creating a visual of our system. We are working on Tinker Cell to create the whole thing and have a diagram of what we are creating. We know that we will need the light sensor (Cph8) part name BBa_I15010 and the molecule activating our smells will be the OmpRp part name BBa_R0082<br />
<br />
3/28/2012 - 4/3/2012<br />
<br />
Tim did a whole bunch of research and modeling. Austin and Brandon double tasked with "Operation Superman" which was a ginormous success.<br />
<br />
4/4/2012<br />
<br />
Each of the plasmids needed were inserted into compatible bacteria and grown on plates.<br />
<br />
4/5/2012<br />
<br />
Today we moved isolated colonies of each part to broth for growth. We also poured a bunch of plates! <br />
<br />
4/6/2012<br />
<br />
We worked on isolating the plasmids of each part.<br />
<br />
4/9/2012<br />
<br />
Today we set down with our instructor to describe the next steps in our project. We also worked on finding published papers of our parts to get a better understanding about them. We also learned that OmpRp is just phosphated OmpR and is activated when there is no light. OmpR regulates our system so at night it will be activating the banana smell but we need a activator that will activate the mint during light.<br />
<br />
4/10/2012<br />
<br />
We set down and worked on modeling our system and came to a realization of what parts we need to add like OmpC and OmpF promoter. <br />
<br />
4/11/2012<br />
<br />
The systems we are creating were finalized on the program tinkercell and uploaded to the wiki.<br />
<br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/Team:BVCAPS_Research_KS/NotebookTeam:BVCAPS Research KS/Notebook2012-04-11T12:42:38Z<p>Agrottinghaus: </p>
<hr />
<div>[[File:toolbar_team.png|140px|link=Team:BVCAPS_Research_KS/Team|Team]] [[File:toolbar_project.png|140px|link=Team:BVCAPS_Research_KS/Project|Project]] [[File:toolbar_notebook.png|140px|link=Team:BVCAPS_Research_KS/Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Team:BVCAPS_Research_KS/Results|Results]]<br />
[[File:toolbar_Safety.png|140px|link=Team:BVCAPS_Research_KS/Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Team:BVCAPS_Research_KS/Sponsors|Sponsors]]<br />
<br />
<br />
<br />
3/20/2012<br />
<br />
Today we attempted to build a circuit and added our project description.<br />
We also tried to select parts to be used in our biological system, we selected a promoter that functions as coliroid and is named BBa_R0082<br />
<br />
3/21/2012 <br />
<br />
We worked on selecting the parts we need and selected two mint producing parts we could attempt to use BBa_J45004 and BBa_J45099. The banana producing part is BBa_J45199, an enyzme generator that creates an enzyme to catalyze the process that causes isoamyl alcohol to break down into isoamyl acetate, which smells like bananas.<br />
<br />
3/23/2012<br />
<br />
Today we hit a magnificent breakthrough in wiki page editing. We can now call ourselves masters. We also planned the system we will create for our project.<br />
<br />
3/26/2012 and 3/27/2012<br />
<br />
Worked on creating a visual of our system. We are working on Tinker Cell to create the whole thing and have a diagram of what we are creating. We know that we will need the light sensor (Cph8) part name BBa_I15010 and the molecule activating our smells will be the OmpRp part name BBa_R0082<br />
<br />
3/28/2012 - 4/3/2012<br />
<br />
Tim did a whole bunch of research and modeling. Austin and Brandon double tasked with "Operation Superman" which was a ginormous success.<br />
<br />
4/4/2012<br />
<br />
Each of the plasmids needed were inserted into compatible bacteria and grown on plates.<br />
<br />
4/5/2012<br />
<br />
Today we moved isolated colonies of each part to broth for growth. We also poured a bunch of plates! <br />
<br />
4/6/2012<br />
<br />
We worked on isolating the plasmids of each part.<br />
<br />
4/9/2012<br />
<br />
Today we set down with our instructor to describe the next steps in our project. We also worked on finding published papers of our parts to get a better understanding about them. We also learned that OmpRp is just phosphated OmpR and is activated when there is no light. OmpR regulates our system so at night it will be activating the banana smell but we need a activator that will activate the mint during light.<br />
<br />
4/10/2012<br />
<br />
We set down and worked on modeling our system and came to a realization of what parts we need to add like OmpC and OmpF promoter. <br />
<br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/NotebookNotebook2012-04-05T13:48:07Z<p>Agrottinghaus: </p>
<hr />
<div>[[File:toolbar_team.png|140px|link=Team|Team]] [[File:toolbar_project.png|140px|link=Project|Project]] [[File:toolbar_notebook.png|140px|link=Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Results|Results]]<br />
[[File:toolbar_Safety.png|140px|link=Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Sponsors|Sponsors]]<br />
<br />
<br />
3/20/2012<br />
<br />
Today we attempted to build a circuit and added our project description.<br />
We also tried to select parts to be used in our biological system, we selected a promoter that functions as coliroid and is named BBa_R0082<br />
<br />
3/21/2012 <br />
<br />
We worked on selecting the parts we need and selected two mint producing parts we could attempt to use BBa_J45004 and BBa_J45099. The banana producing part is BBa_J45199, an enyzme generator that creates an enzyme to catalyze the process that causes isoamyl alcohol to break down into isoamyl acetate, which smells like bananas.<br />
<br />
3/23/2012<br />
<br />
Today we hit a magnificent breakthrough in wiki page editing. We can now call ourselves masters. We also planned the system we will create for our project.<br />
<br />
3/26/2012 and 3/27/2012<br />
<br />
Worked on creating a visual of our system. We are working on Tinker Cell to create the whole thing and have a diagram of what we are creating. We know that we will need the light sensor (Cph8) part name BBa_I15010 and the molecule activating our smells will be the OmpRp part name BBa_R0082<br />
<br />
3/28/2012 - 4/3/2012<br />
<br />
Tim did a whole bunch of research and modeling. Austin and Brandon double tasked with "Operation Superman" which was a ginormous success.<br />
<br />
4/4/2012<br />
<br />
Each of the plasmids needed were inserted into compatible bacteria and grown on plates.<br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/Austin_RottinghausAustin Rottinghaus2012-04-03T14:46:34Z<p>Agrottinghaus: </p>
<hr />
<div>[[File:toolbar_team.png|140px|link=Team|Team]] [[File:toolbar_project.png|140px|link=Project|Project]] [[File:toolbar_notebook.png|140px|link=Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Results|Results]]<br />
[[File:toolbar_Safety.png|140px|link=Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Sponsors|Sponsors]]<br />
<br />
<br />
School: Blue Valley CAPS<br />
<br />
Position: Point Guard<br />
<br />
Skills: Botany, 3-point shooting, short range putting, "Commander Shepherd", two man dinner serves, making ampicillin<br />
<br />
Future: Looks bright... University of Wisconsin (On Wisconsin!), house in Victor's Village, Wilwaukee Bucks, Burnt Pancake Problem, catching them all <br />
<br />
Other works: Glow in the dark plants (coming soon), Operation "Superman"<br />
<br />
[[File:profile pic.png]]<br />
<br />
Attributions:</div>Agrottinghaushttp://2012hs.igem.org/File:Profile_pic.pngFile:Profile pic.png2012-04-03T14:45:52Z<p>Agrottinghaus: </p>
<hr />
<div></div>Agrottinghaushttp://2012hs.igem.org/TeamTeam2012-03-30T13:41:08Z<p>Agrottinghaus: /* Facts */</p>
<hr />
<div>[[File:toolbar_team.png|140px|link=Team|Team]] [[File:toolbar_project.png|140px|link=Project|Project]] [[File:toolbar_notebook.png|140px|link=Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Results|Results]]<br />
[[File:toolbar_Safety.png|140px|link=Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Sponsors|Sponsors]]<br />
<br />
<br />
BVCAPS Research KS is a team of wonderful high school kids unified in solving science problems through genetic engineering. The members attend a variety of schools in the Blue Valley School District, but became unified at the excellent Blue Valley CAPS professional studies center, geared towards getting the students real world experience. Once together in the Bioscience Research class, they recognized their vast potential, and aimed it at the iGEM competition.<br />
<br />
====Members====<br />
<br />
* [[Austin Rottinghaus]] a.k.a. Steady Hands<br />
<br />
* [[Brandon Whitcomb]] a.k.a. Beast from Butler<br />
<br />
* [[Tim Schaefer]] a.k.a Schaef-cat Hopkins<br />
<br />
* [[Graham Wehmeyer]] a.k.a. Green Cali Mojo<br />
<br />
* [[Vivek Menon]] a.k.a Pokemon Master<br />
<br />
====Facts====<br />
<br />
Mascot: Dragon slaying, banana shooting, mint breathing ecoli monster<br />
<br />
Drink: Chocolate Milk<br />
<br />
Game: Pokemon<br />
<br />
Super Game: Skyrim, Mass Effect(s)<br />
<br />
Hobby: Dropping 3s and dunking at the berg with 9 foot hoops<br />
<br />
Hero: Katniss<br />
<br />
Food: Chinese<br />
<br />
Book (for those who are literate): Hunger Games<br />
<br />
Movie: Hunger Games<br />
<br />
Hair Style: Mike Bruesewitz's red afro, 2010-2011<br />
<br />
Animal: Liger<br />
<br />
Piece of Artwork: This website<br />
<br />
Fantasy Animal: Skeletal, quadrahorn dragon<br />
<br />
Pokemon: Diglett, Lugia, Grimer, ,<br />
<br />
Future: Fab 5.1<br />
<br />
Dislikes: SEC, Sports Med, Buisness strand, Bacteria who do not uptake plasmids, Zebrafish<br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/TeamTeam2012-03-30T13:36:09Z<p>Agrottinghaus: /* Facts */</p>
<hr />
<div>[[File:toolbar_team.png|140px|link=Team|Team]] [[File:toolbar_project.png|140px|link=Project|Project]] [[File:toolbar_notebook.png|140px|link=Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Results|Results]]<br />
[[File:toolbar_Safety.png|140px|link=Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Sponsors|Sponsors]]<br />
<br />
<br />
BVCAPS Research KS is a team of wonderful high school kids unified in solving science problems through genetic engineering. The members attend a variety of schools in the Blue Valley School District, but became unified at the excellent Blue Valley CAPS professional studies center, geared towards getting the students real world experience. Once together in the Bioscience Research class, they recognized their vast potential, and aimed it at the iGEM competition.<br />
<br />
====Members====<br />
<br />
* [[Austin Rottinghaus]] a.k.a. Steady Hands<br />
<br />
* [[Brandon Whitcomb]] a.k.a. Beast from Butler<br />
<br />
* [[Tim Schaefer]] a.k.a Schaef-cat Hopkins<br />
<br />
* [[Graham Wehmeyer]] a.k.a. Green Cali Mojo<br />
<br />
* [[Vivek Menon]] a.k.a Pokemon Master<br />
<br />
====Facts====<br />
<br />
Mascot: Dragon slaying, banana shooting, mint breathing ecoli monster<br />
<br />
Drink: Chocolate Milk<br />
<br />
Game: Pokemon<br />
<br />
Super Game: Skyrim, Mass Effect(s)<br />
<br />
Hobby: Dropping 3s and dunking at the berg with 9 foot hoops<br />
<br />
Hero: Katniss<br />
<br />
Food: Chinese<br />
<br />
Book (for those who are literate): Hunger Games<br />
<br />
Movie: Hunger Games<br />
<br />
Animal: Liger<br />
<br />
Website: This one<br />
<br />
Fantasy Animal: Skeletal, quadrahorn dragon<br />
<br />
Pokemon: Diglett, Lugia, Grimer, ,<br />
<br />
Future: Fab 5.1<br />
<br />
Dislikes: SEC, Sports Med, Buisness strand, Bacteria who do not uptake plasmids, Zebrafish<br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/TeamTeam2012-03-30T13:13:03Z<p>Agrottinghaus: /* Facts */</p>
<hr />
<div>[[File:toolbar_team.png|140px|link=Team|Team]] [[File:toolbar_project.png|140px|link=Project|Project]] [[File:toolbar_notebook.png|140px|link=Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Results|Results]]<br />
[[File:toolbar_Safety.png|140px|link=Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Sponsors|Sponsors]]<br />
<br />
<br />
BVCAPS Research KS is a team of wonderful high school kids unified in solving science problems through genetic engineering. The members attend a variety of schools in the Blue Valley School District, but became unified at the excellent Blue Valley CAPS professional studies center, geared towards getting the students real world experience. Once together in the Bioscience Research class, they recognized their vast potential, and aimed it at the iGEM competition.<br />
<br />
====Members====<br />
<br />
* [[Austin Rottinghaus]] a.k.a. Steady Hands<br />
<br />
* [[Brandon Whitcomb]] a.k.a. Beast from Butler<br />
<br />
* [[Tim Schaefer]] a.k.a Schaef-cat Hopkins<br />
<br />
* [[Graham Wehmeyer]] a.k.a. Green Cali Mojo<br />
<br />
* [[Vivek Menon]] a.k.a Pokemon Master<br />
<br />
====Facts====<br />
<br />
Mascot: Dragon slaying, banana shooting, mint breathing ecoli monster<br />
<br />
Drink: Chocolate Milk<br />
<br />
Game: Pokemon<br />
<br />
Super Game: Skyrim, Mass Effect(s)<br />
<br />
Hobby: Dropping 3s and dunking at the berg with 9 foot hoops<br />
<br />
Hero: Katniss<br />
<br />
Food: Chinese<br />
<br />
Book (for those who are literate): Hunger Games<br />
<br />
Movie: Hunger Games<br />
<br />
Pokemon: Diglett, Lugia, Grimer, ,<br />
<br />
Future: Fab 5.1<br />
<br />
Dislikes: SEC, Sports Med, Buisness strand, Bacteria who do not uptake plasmids, Zebrafish<br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/SponsorsSponsors2012-03-30T13:10:16Z<p>Agrottinghaus: </p>
<hr />
<div>[[File:toolbar_team.png|140px|link=Team|Team]] [[File:toolbar_project.png|140px|link=Project|Project]] [[File:toolbar_notebook.png|140px|link=Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Results|Results]]<br />
[[File:toolbar_Safety.png|140px|link=Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Sponsors|Sponsors]]<br />
<br />
<br />
[[File:Subway3.png]][[File:axelacare2.png]][[File:sassy cow.png]]<br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/SafetySafety2012-03-30T13:10:01Z<p>Agrottinghaus: </p>
<hr />
<div>[[File:toolbar_team.png|140px|link=Team|Team]] [[File:toolbar_project.png|140px|link=Project|Project]] [[File:toolbar_notebook.png|140px|link=Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Results|Results]]<br />
[[File:toolbar_Safety.png|140px|link=Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Sponsors|Sponsors]]<br />
<br />
<br />
We had taken classes before were we had to learn about lab safety and were told any addition instructions that we must be warned about as we worked on the project.<br />
<br />
[[File:tim brain bee.jpeg]]<br />
<br />
At all times when chemicals were being used:<br />
*Lab coats were on<br />
*Safety goggles were on<br />
*Gloves were worn<br />
*No flames were ever unattended<br />
*At the end of every day (if bacteria was used) the tables were disinfected and clean off/pick up any chemicals that were left out.<br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/ResultsResults2012-03-30T13:09:23Z<p>Agrottinghaus: </p>
<hr />
<div>[[File:toolbar_team.png|140px|link=Team|Team]] [[File:toolbar_project.png|140px|link=Project|Project]] [[File:toolbar_notebook.png|140px|link=Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Results|Results]]<br />
[[File:toolbar_Safety.png|140px|link=Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Sponsors|Sponsors]]<br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/NotebookNotebook2012-03-30T13:09:05Z<p>Agrottinghaus: </p>
<hr />
<div>[[File:toolbar_team.png|140px|link=Team|Team]] [[File:toolbar_project.png|140px|link=Project|Project]] [[File:toolbar_notebook.png|140px|link=Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Results|Results]]<br />
[[File:toolbar_Safety.png|140px|link=Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Sponsors|Sponsors]]<br />
<br />
<br />
3/20/2012<br />
<br />
Today we attempted to build a circuit and added our project description.<br />
We also tried to select parts to be used in our biological system, we selected a promoter that functions as coliroid and is named BBa_R0082<br />
<br />
3/21/2012 <br />
<br />
We worked on selecting the parts we need and selected two mint producing parts we could attempt to use BBa_J45004 and BBa_J45099. The banana producing part is BBa_J45199, an enyzme generator that creates an enzyme to catalyze the process that causes isoamyl alcohol to break down into isoamyl acetate, which smells like bananas.<br />
<br />
3/23/2012<br />
<br />
Today we hit a magnificent breakthrough in wiki page editing. We can now call ourselves masters. We also planned the system we will create for our project.<br />
<br />
3/26/2012 and 3/27/2012<br />
<br />
Worked on creating a visual of our system. We are working on Tinker Cell to create the whole thing and have a diagram of what we are creating. We know that we will need the light sensor (Cph8) part name BBa_I15010 and the molecule activating our smells will be the OmpRp part name BBa_R0082<br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/ProjectProject2012-03-30T13:08:46Z<p>Agrottinghaus: </p>
<hr />
<div>[[File:toolbar_team.png|140px|link=Team|Team]] [[File:toolbar_project.png|140px|link=Project|Project]] [[File:toolbar_notebook.png|140px|link=Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Results|Results]]<br />
[[File:toolbar_Safety.png|140px|link=Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Sponsors|Sponsors]]<br />
<br />
==Overview==<br />
<br />
Our project, in essence, designs the perfect alarm clock. The presence of a strong wintergreen smell is used to help the user wake up, heightening their senses. At night, when no light is present, a banana odor produced will assist in calming down the user, helping them go to bed. This all occurs in the absence of electricity through pure biological systems.<br />
<br />
This system is the combination of the MIT and University of Texas teams' projects from years past. We are making a combined genetic circuit with the smell of the bacteria (banana or mint) depending on the time of day (presence of light). The light receptor protein, obtained from photosynthetic algae, turns the banana smell on in the absence of light, and the mint smell on in the presence of light.<br />
<br />
<br />
==Human Practices==<br />
<br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/TeamTeam2012-03-30T12:57:58Z<p>Agrottinghaus: </p>
<hr />
<div>[[File:toolbar_team.png|140px|link=Team|Team]] [[File:toolbar_project.png|140px|link=Project|Project]] [[File:toolbar_notebook.png|140px|link=Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Results|Results]]<br />
[[File:toolbar_Safety.png|140px|link=Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Sponsors|Sponsors]]<br />
<br />
<br />
BVCAPS Research KS is a team of wonderful high school kids unified in solving science problems through genetic engineering. The members attend a variety of schools in the Blue Valley School District, but became unified at the excellent Blue Valley CAPS professional studies center, geared towards getting the students real world experience. Once together in the Bioscience Research class, they recognized their vast potential, and aimed it at the iGEM competition.<br />
<br />
====Members====<br />
<br />
* [[Austin Rottinghaus]] a.k.a. Steady Hands<br />
<br />
* [[Brandon Whitcomb]] a.k.a. Beast from Butler<br />
<br />
* [[Tim Schaefer]] a.k.a Schaef-cat Hopkins<br />
<br />
* [[Graham Wehmeyer]] a.k.a. Green Cali Mojo<br />
<br />
* [[Vivek Menon]] a.k.a Pokemon Master<br />
<br />
====Facts====<br />
<br />
Mascot: Dragon slaying, banana shooting, mint breathing ecoli monster<br />
<br />
Drink: Chocolate Milk<br />
<br />
Game: Pokemon<br />
<br />
Super Game: Skyrim, Mass Effect(s)<br />
<br />
Hobby: Dropping 3s and dunking at the berg with 9 foot hoops<br />
<br />
Hero: Katniss<br />
<br />
Food: Chinese<br />
<br />
Book (for those who are literate): Hunger Games<br />
<br />
Movie: Hunger Games<br />
<br />
Pokemon: Diglett, Lugia, Grimer, ,<br />
<br />
Future: Fab 5.1<br />
<br />
Dislikes: SEC, Sports Med,Buisness strand,Bacteria who do not uptake plasmids,Zebrafish<br />
<br />
[[Team:BVCAPS_Research_KS | Return to Home]]</div>Agrottinghaushttp://2012hs.igem.org/TeamTeam2012-03-30T12:57:09Z<p>Agrottinghaus: /* Facts */</p>
<hr />
<div>[[File:toolbar_team.png|140px|link=Team|Team]] [[File:toolbar_project.png|140px|link=Project|Project]] [[File:toolbar_notebook.png|140px|link=Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Results|Results]]<br />
[[File:toolbar_Safety.png|140px|link=Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Sponsors|Sponsors]]<br />
<br />
<br />
BVCAPS Research KS is a team of wonderful high school kids unified in solving science problems through genetic engineering. The members attend a variety of schools in the Blue Valley School District, but became unified at the excellent Blue Valley CAPS professional studies center, geared towards getting the students real world experience. Once together in the Bioscience Research class, they recognized their vast potential, and aimed it at the iGEM competition.<br />
<br />
====Members====<br />
<br />
* [[Austin Rottinghaus]] a.k.a. Steady Hands<br />
<br />
* [[Brandon Whitcomb]] a.k.a. Beast from Butler<br />
<br />
* [[Tim Schaefer]] a.k.a Schaef-cat Hopkins<br />
<br />
* [[Graham Wehmeyer]] a.k.a. Green Cali Mojo<br />
<br />
* [[Vivek Menon]] a.k.a Pokemon Master<br />
<br />
====Facts====<br />
<br />
Mascot: Dragon slaying, banana shooting, mint breathing ecoli monster<br />
<br />
Drink: Chocolate Milk<br />
<br />
Game: Pokemon<br />
<br />
Super Game: Skyrim, Mass Effect(s)<br />
<br />
Hobby: Dropping 3s and dunking at the berg with 9 foot hoops<br />
<br />
Hero: Katniss<br />
<br />
Food: Chinese<br />
<br />
Book (for those who are literate): Hunger Games<br />
<br />
Movie: Hunger Games<br />
<br />
Pokemon: Diglett, Lugia, Grimer, ,<br />
<br />
Future: Fab 5.1<br />
<br />
Dislikes: SEC, Sports Med,Buisness strand,Bacteria who do not uptake plasmids,Zebrafish<br />
<br />
[[Team:BVCAPS_Research_KS]]</div>Agrottinghaushttp://2012hs.igem.org/TeamTeam2012-03-28T13:31:06Z<p>Agrottinghaus: </p>
<hr />
<div>[[File:toolbar_team.png|140px|link=Team|Team]] [[File:toolbar_project.png|140px|link=Project|Project]] [[File:toolbar_notebook.png|140px|link=Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Results|Results]]<br />
[[File:toolbar_Safety.png|140px|link=Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Sponsors|Sponsors]]<br />
<br />
<br />
BVCAPS Research KS is a team of wonderful high school kids unified in solving science problems through genetic engineering. The members attend a variety of schools in the Blue Valley School District, but became unified at the excellent Blue Valley CAPS professional studies center, geared towards getting the students real world experience. Once together in the Bioscience Research class, they recognized their vast potential, and aimed it at the iGEM competition.<br />
<br />
====Members====<br />
<br />
* [[Austin Rottinghaus]] a.k.a. Steady Hands<br />
<br />
* [[Brandon Whitcomb]] a.k.a. Beast from Butler<br />
<br />
* [[Tim Schaefer]] a.k.a Schaef-cat Hopkins<br />
<br />
* [[Graham Wehmeyer]] a.k.a. Green Cali Mojo<br />
<br />
* [[Vivek Menon]] a.k.a Pokemon Master<br />
<br />
====Facts====<br />
<br />
Mascot: Dragon slaying, banana shooting, mint breathing ecoli monster<br />
<br />
Drink: Chocolate Milk<br />
<br />
Game: Pokemon<br />
<br />
Super Game: Skyrim, Mass Effect(s)<br />
<br />
Hobby: Dropping 3s and dunking at the berg with 9 foot hoops<br />
<br />
Hero: Katniss<br />
<br />
Food: Chinese<br />
<br />
Book (for those who are literate): Hunger Games<br />
<br />
Movie: Hunger Games<br />
<br />
Pokemon: Diglett, Lugia, Grimer, ,<br />
<br />
Future: Fab 5.1<br />
<br />
Dislikes: SEC, Sports Med,Buisness strand,Bacteria who do not uptake plasmids,Zebrafish</div>Agrottinghaushttp://2012hs.igem.org/NotebookNotebook2012-03-28T12:54:23Z<p>Agrottinghaus: </p>
<hr />
<div>[[File:toolbar_team.png|140px|link=Team|Team]] [[File:toolbar_project.png|140px|link=Project|Project]] [[File:toolbar_notebook.png|140px|link=Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Results|Results]]<br />
[[File:toolbar_Safety.png|140px|link=Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Sponsors|Sponsors]]<br />
<br />
<br />
3/20/2012<br />
<br />
Today we attempted to build a circuit and added our project description.<br />
We also tried to select parts to be used in our biological system, we selected a promoter that functions as coliroid and is named BBa_R0082<br />
<br />
3/21/2012 <br />
<br />
We worked on selecting the parts we need and selected two mint producing parts we could attempt to use BBa_J45004 and BBa_J45099. The banana producing part is BBa_J45199, an enyzme generator that creates an enzyme to catalyze the process that causes isoamyl alcohol to break down into isoamyl acetate, which smells like bananas.<br />
<br />
3/23/2012<br />
<br />
Today we hit a magnificent breakthrough in wiki page editing. We can now call ourselves masters. We also planned the system we will create for our project.<br />
<br />
3/26/2012 and 3/27/2012<br />
<br />
Worked on creating a visual of our system. We are working on Tinker Cell to create the whole thing and have a diagram of what we are creating. We know that we will need the light sensor (Cph8) part name BBa_I15010 and the molecule activating our smells will be the OmpRp part name BBa_R0082</div>Agrottinghaushttp://2012hs.igem.org/NotebookNotebook2012-03-28T12:52:14Z<p>Agrottinghaus: </p>
<hr />
<div>[[File:toolbar_team.png|140px|link=Team|Team]] [[File:toolbar_project.png|140px|link=Project|Project]] [[File:toolbar_notebook.png|140px|link=Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Results|Results]]<br />
[[File:toolbar_Safety.png|140px|link=Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Sponsors|Sponsors]]<br />
<br />
<br />
3/20/2012<br />
<br />
Today we attempted to build a circuit and added our project description.<br />
We also tried to select parts to be used in our biological system, we selected a promoter that functions as coliroid and is named BBa_R0082<br />
<br />
3/21/2012 <br />
<br />
We worked on selecting the parts we need and selected two mint producing parts we could attempt to use BBa_J45004 and BBa_J45099. The banana producing part is BBa_J45199, an enyzme generator that creates an enzyme to catalyze the process that causes isoamyl alcohol to break down into isoamyl acetate, which smells like bananas.<br />
<br />
3/23/2012<br />
<br />
Today we hit a magnificent breakthrough in wiki page editing. We can now call ourselves masters. We also planned the system we will create for our project.<br />
<br />
3/26/2012 and 3/27/2012 <br />
Worked on creating a visual of our system. We are working on Tinker Cell to create the whole thing and have a diagram of what we are creating. We know that we will need the light sensor (Cph8) part name BBa_I15010 and the molecule activating our smells will be the OmpRp part name BBa_R0082</div>Agrottinghaushttp://2012hs.igem.org/TeamTeam2012-03-27T14:35:36Z<p>Agrottinghaus: </p>
<hr />
<div>[[File:toolbar_team.png|140px|link=Team|Team]] [[File:toolbar_project.png|140px|link=Project|Project]] [[File:toolbar_notebook.png|140px|link=Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Results|Results]]<br />
[[File:toolbar_Safety.png|140px|link=Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Sponsors|Sponsors]]<br />
<br />
<br />
BVCAPS Research KS is a team of wonderful high school kids unified in solving science problems through genetic engineering. The members attend a variety of schools in the Blue Valley School District, but became unified at the excellent Blue Valley CAPS professional studies center, geared towards getting the students real world experience. Once together in the Bioscience Research class, they recognized their vast potential, and aimed it at the iGEM competition.<br />
<br />
====Members====<br />
<br />
* [[Austin Rottinghaus]] a.k.a. Steady Hands<br />
<br />
* [[Brandon Whitcomb]] a.k.a. Beast from Butler<br />
<br />
* [[Tim Schaefer]] a.k.a Schaef-cat Hopkins<br />
<br />
* [[Graham Wehmeyer]] a.k.a. Green Cali Mojo<br />
<br />
* [[Vivek Menon]] a.k.a Pokemon Master<br />
<br />
====Facts====<br />
<br />
Mascot: Dragon slaying, banana shooting, mint breathing ecoli monster<br />
<br />
Drink: Chocolate Milk<br />
<br />
Game: Pokemon<br />
<br />
Super Game: Skyrim, Mass Effect(s)<br />
<br />
Hobby: Dropping 3s and dunking at the berg with 9 foot hoops<br />
<br />
Hero: Katniss<br />
<br />
Food: Chinese<br />
<br />
Book (for those who are literate): Hunger Games<br />
<br />
Movie: Hunger Games<br />
<br />
Pokemon: Diglett,Lugia, Grimer, ,</div>Agrottinghaushttp://2012hs.igem.org/TeamTeam2012-03-27T14:34:10Z<p>Agrottinghaus: </p>
<hr />
<div>[[File:toolbar_team.png|140px|link=Team|Team]] [[File:toolbar_project.png|140px|link=Project|Project]] [[File:toolbar_notebook.png|140px|link=Notebook|Notebook]] [[File:toolbar_Results.png|140px|link=Results|Results]]<br />
[[File:toolbar_Safety.png|140px|link=Safety|Safety]] [[File:toolbar_Sponsors.png|140px|link=Sponsors|Sponsors]]<br />
<br />
<br />
BVCAPS Research KS is a team of wonderful high school kids unified in solving science problems through genetic engineering. The members attend a variety of schools in the Blue Valley School District, but became unified at the excellent Blue Valley CAPS professional studies center, geared towards getting the students real world experience. Once together in the Bioscience Research class, they recognized their vast potential, and aimed it at the iGEM competition.<br />
<br />
====Members====<br />
<br />
* [[Austin Rottinghaus]] a.k.a. Steady Hands<br />
<br />
* [[Brandon Whitcomb]] a.k.a. Beast from Butler<br />
<br />
* [[Tim Schaefer]] a.k.a Schaef-cat Hopkins<br />
<br />
* [[Graham Wehmeyer]] a.k.a. Green Cali Mojo<br />
<br />
* [[Vivek Menon]] a.k.a Pokemon Master<br />
<br />
====Facts====<br />
<br />
Mascot: Dragon slaying, banana shooting, mint breathing ecoli monster<br />
<br />
Drink: Chocolate Milk<br />
<br />
Game: Pokemon<br />
<br />
Super Game: Skyrim, Mass Effect(s)<br />
<br />
Hobby: Dropping 3s and dunking at the berg with 9 foot hoops<br />
<br />
Hero: Katniss<br />
<br />
Food: Chinese<br />
<br />
Book (for those who are literate): Hunger Games<br />
<br />
Movie: Hunger Games<br />
<br />
Pokemon: Diglett, , Grimer, Lugia,</div>Agrottinghaus