(Difference between revisions)

February

February 25 Saturday

• Today was the beginning of our lab lessons.
• Accompinied by the Fatih University 2012 iGEM Team, we learned how to prepare LB Broth from our advisor Burak Yılmaz.

Procudures for LB Broth Preparation

Troubleshooting for LB Broth Preparation

March

March 5 Monday

Project Decision

1st Day of Brainstorming

Ideas

• Battery Bacteria

-Bacteria producing electricity
 -Inspired by the original Geobacter, we wanted to increase the electricity output. 

• Sound Insulator Bacteria

-Bacteria with the ability to absorb sound
 -With the genes taken from the pigment Melanin, we wished to use them for sound insulating purpouses.

• Water Cleaner Bacteria

-Bacteria able to precipitate salt in salty water.
 -By causing the salt to precipitate, we were going purify the sea water.

• Radio-Reducer Bacteria

-Bacteria which can absorb radiation
 -The radio-absorbtion ability of cactus was to be implemented to E.coli.

March 9 Friday

• Together with the Fatih Team, we learned how to do isolation.

Procudures for Isolation

March 10 Saturday

• We isolated the Red Fluorescent Protein, and with this we learned how to do isolation both practically and teorically.

Troubleshooting for Isolation

March 12 Monday =

Project Decision

2nd Day of Brainstorming

Ideas

• Dandruff Exterminator Bacteria

-Bacteria with the ability to cure dandruff
 -Using the genes of Aloe Vera and Eucalyptus globolus was going to be done.

• Anti-stink Bacteria

-Bacteria with the ability of removing trimethylaminuria
 -With the required enzymes, the fish odor trimethylaminuria will be removed.

• Firefighter Bacteria

-Bacteria working with the principle of a fire extinguisher
 -The bacteria will consume the oxygen in the air which will leave the fire extinguished.

• Paper Cleaner Bacteria

-Bacteria which can consume the ink on paper
 -The bacteria will digest the ink which will result as a clean paper.

• Do-not-'Die'betes Bacteria

-Bacteria with the ability to produce insulin
 -Insuling level detection was going to be followed by insulin production. 

March 19 Monday

We decided what our project was going to be.

Final Ideas

• Battery Bacteria
• Sound Insulator Bacteria
• Water Cleaner Bacteria
• Radio-Reducer Bacteria
• Dandruff Exterminator Bacteria
• Anti-stink Bacteria
• Firefighter Bacteria
• Paper Cleaner Bacteria
• Do-not-'Die'betes Bacteria

Winner: Anti-stink Bacteria

• With the decision of what we will do for our project, we started searching for the required the data for our project. We were divided into groups to search for the necessary data required. Since our project was going to be on a bacteria that removes bad smell and produces pleasent odor, we had to look for the following:

• Bad odors

-Trimethylamine
-Cadaverine
-Putrescine

• Good odors

-Vanillin
-Limonene
-Eugenol
-Benzaldehyde
-Cinnamaldehyde
-Geraniol

• Receptors
• A suitable construction

March 22 Thursday

• We arrived at the university and saw the preparations for the birthday of our dear advisor Mrs Gunduz. We had no idea so it was a suprise for us as well. We congragulated her and returned back(the birthday cake was awesome).

March 24 Saturday

• We started doing our first electrophoresis. We weren't there when the gel preparation was taking place as it was exam week. Everything was great, especially the part where we pipetted plasmid-coloring agent mixture was fun.

Procudures for Gel Electrophoresis

Troubleshooting for Gel Electrophoresis

• Today was also the day of our first digestion. The process was done with great speed and we did great.

Procudures for Digestion

Troubleshooting for Digestion

• The transformation that we missed out on was done today. The plates were ready for us to spread the colonies so we just did transformation and did not have to prepare any LB Agar.

Procudures for Transformation

Troubleshooting for Transformation

March 31 Saturday

• We did ligation for the first time. The ligation was successful and this meant that our education was complete.

Procudures for Ligation

Troubleshooting for Ligation

April

April 2 Monday

We tried to clarify how the project would work.

Two ideas were given

1)A system consisting of 2 bacterias with 1 producing bad smell and the other producing good smell. 1 of these will give put bad smell and the other will get rid of this smell and turn into something good and also inhibate the other one.

2)A system in which a bacteria removes bad smell and uses the products to produce good smell. The bacteria will use receptors to detect the products of the removal process and use them to give out good smell.

April 5 Thursday

• We discussed the ideas from last saturday. We weren`t able to find a conclusion.

April 7 Saturday

• We learned to do gel extraction.

April 9 Monday

• We researched for genes and enzymes which are compatible with our project.
• We took a team photo.

April 21 Saturday

• We transformated the parts E0022 and E0032.

April 26 Thursday

• We discussed what we can do for human practice.

April 28 Saturday

• We isolated the parts E0022 and E0023. We diluted the parts C0061, C0062, R0062, R0063, K118024, K118025, J45120, J45200, J45320, J09855, J23100, J52034 from the kit iGEM sent us.

May

May 2 Wednesday

• We transformated the parts C0061, C0062, R0062, R0063, K118024, K118025, J45120, J45200, J45320, J09855, J23100, J52034.

May 9 Wednesday

• When we came to the lab, we saw that the transformations from last week were not successful. We transformated the same parts again.

May 11 Friday

• Our arrival to the lab revealed that we couldn't successfully transformate for the second time. This result led us to find our mistake. We did several things to locate our mistake. Now we had nothing to do but wait for a few days to see what's wrong.

May 15 Tuesday

• The results of our experiments showed that the compotent cells that we have used were not okay. We repeated the process to ensure that we really figured out what the problem is. Yes,the problem was the compotent cells. The only problem was that we needed to make new compotent cells. Since this process takes time and our lack of experience on making compotent cells is huge,this meant great time loss for us.

May 18 Friday

• We were finally able to succeed in transforming our parts with the new compotent cells.

May 21 Monday

• We made LB media with the colonies taken from our plates. Since there was a 16 hour wait time, we had no choice but to wait.

May 22 Tuesday

• We isolated our LB media. When we went to spectrophotometer for the results, it was embrassing. Our plasmids had a concentration of approximately 2 ng/ml. We made another patch of LB media to isolate again.

May 26 Saturday

• We had the same horrible results with the isolation. Again, LB media preparation...

May 27 Sunday

• Same awesome results were acquired with the isolation. We repeated the process again.

June

<forum_subtle/>