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Team:DTU-Denmark/Notebook
From 2013.igem.org
(Difference between revisions)
| Line 34: | Line 34: | ||
===July=== | ===July=== | ||
| - | Week 27 | + | '''Week 27''' |
* Hello World project is successful. From a cytoplasmic extraction, we have observed GFP in the periplasm and RFP in the cytoplasm. See a nice picture [[Team:DTU-Denmark/Notebook/6_July_2013|here.]] | * Hello World project is successful. From a cytoplasmic extraction, we have observed GFP in the periplasm and RFP in the cytoplasm. See a nice picture [[Team:DTU-Denmark/Notebook/6_July_2013|here.]] | ||
* 2013-07-06 "Hello World" pilot project complete | * 2013-07-06 "Hello World" pilot project complete | ||
* Biolector experiment complete, initial data analysis complete. See some graphs [[Team:DTU-Denmark/ToxicityExperiment|here]] | * Biolector experiment complete, initial data analysis complete. See some graphs [[Team:DTU-Denmark/ToxicityExperiment|here]] | ||
| - | Week 28 | + | '''Week 28''' |
* Made media and began growing ''Nitrosomonas'' culture | * Made media and began growing ''Nitrosomonas'' culture | ||
* Designed, ordered and received primers to extract genes from ''Nitrosomonas'' and ''Pseudomonas'' | * Designed, ordered and received primers to extract genes from ''Nitrosomonas'' and ''Pseudomonas'' | ||
* Began work on cloning genes out of ''Nitrosomonas europaea'' and ''Pseudomonas aeruginosa''. All isolations successful except Nir. | * Began work on cloning genes out of ''Nitrosomonas europaea'' and ''Pseudomonas aeruginosa''. All isolations successful except Nir. | ||
| - | Week 29 | + | '''Week 29''' |
* Performed first nitrate -> nitrite experiment | * Performed first nitrate -> nitrite experiment | ||
| - | Week 30 | + | '''Week 30''' |
* Only have colonies for the cytochromes -- other genes do not give cultures | * Only have colonies for the cytochromes -- other genes do not give cultures | ||
* Will try to extract Nir gene in two pieces | * Will try to extract Nir gene in two pieces | ||
* Began work on arabinose inducible system | * Began work on arabinose inducible system | ||
| - | Week 31 | + | '''Week 31''' |
* Began work on Synthetic Promoter Library | * Began work on Synthetic Promoter Library | ||
* BBQ with KU this Saturday | * BBQ with KU this Saturday | ||
| Line 58: | Line 58: | ||
===August=== | ===August=== | ||
| - | Week 32 | + | '''Week 32''' |
| - | * | + | * The week no PCR worked -- ran 96 PCRs with varying conditions to debug |
| + | * Began work on modelling | ||
| + | * Began work on presentation | ||
| - | Week 33 | + | '''Week 33''' |
| + | * Began daily meetings to coordinate | ||
| + | * Arabinose inducible promoter works as of 2013-08-11 | ||
| + | * One Nir fragment has been amplified with USER primers (changed DMSO, Mg, temperature, etc), one to go | ||
| + | * E coli experiment will be run again this week | ||
| - | Week 34 | + | '''Week 34''' |
| + | * Decided on final human practices event | ||
| - | Week 35 | + | '''Week 35''' |
| + | * Attended Scandinavian meetup in Odense hosted by SDU team | ||
| + | * Biobricks in progress | ||
| + | * Biolector for SPL in progress | ||
| + | * sequencing for SPL in progress | ||
| + | * first draft of presentation | ||
| + | * first draft of poster | ||
| + | * measure Nir, AMO, HAO transformants | ||
| + | * modelling of kinetics and design of a reactor: Vanessa | ||
| + | * Title and abstract finished; Title: Requiem for a Stream | ||
| + | * Reviewed presentation with Julie, who gave us very good advice on pitching our project | ||
| + | * measure AMO, HAO transformants complete | ||
===September=== | ===September=== | ||
| + | '''Week 36''' | ||
| + | * Have biobricks for AMO and cytochromes (are going to sequence these), the others are coming. | ||
| + | * Running last biolector experiment today | ||
| + | * sequencing for SPL is in progress | ||
| + | * Kristian is working on a page in the parts registry for the parts registry | ||
| + | * first draft of presentation completed | ||
| + | * first draft of poster complete | ||
| + | * modelling of kinetics and design of a reactor: using Continuous Stirred Tank Reactor | ||
| + | * Began reactor design -- ask Mikael Rordham in 223 for 2 1L chemostats | ||
| - | Week | + | '''Week 37''' |
| - | Week | + | '''Week 38''' |
| - | + | '''Week 39''' | |
| - | + | ||
| - | Week 39 | + | |
=== October === | === October === | ||
| - | Week 40 | + | '''Week 40''' |
* Wiki complete! | * Wiki complete! | ||
Revision as of 13:05, 28 September 2013
Notebook
Contents |
Timeline
January
- 2013-01-15 Budget completed
- 2013-01-29 Human Practices: Workshop for highschool students
February
- 2013-02-25 Project selected: Conversion of ammonia to nitrous oxide in E. coli
March
- 2013-03-11 Biobrick workshop hosted for KU and SDU
- 2013-03-13 Project kickoff meeting
April
- 2013-04-15 Team contract signed
- 2013-04-28 Human Practices: Outreach for highschool students
May
- 2013-05-29 "Hello World" pilot project kicked off
June
- 2013-06-04 Team competency mapping
- 2013-06-09 Work on wiki started
- 2013-06-29 Team BBQ
July
Week 27
- Hello World project is successful. From a cytoplasmic extraction, we have observed GFP in the periplasm and RFP in the cytoplasm. See a nice picture here.
- 2013-07-06 "Hello World" pilot project complete
- Biolector experiment complete, initial data analysis complete. See some graphs here
Week 28
- Made media and began growing Nitrosomonas culture
- Designed, ordered and received primers to extract genes from Nitrosomonas and Pseudomonas
- Began work on cloning genes out of Nitrosomonas europaea and Pseudomonas aeruginosa. All isolations successful except Nir.
Week 29
- Performed first nitrate -> nitrite experiment
Week 30
- Only have colonies for the cytochromes -- other genes do not give cultures
- Will try to extract Nir gene in two pieces
- Began work on arabinose inducible system
Week 31
- Began work on Synthetic Promoter Library
- BBQ with KU this Saturday
August
Week 32
- The week no PCR worked -- ran 96 PCRs with varying conditions to debug
- Began work on modelling
- Began work on presentation
Week 33
- Began daily meetings to coordinate
- Arabinose inducible promoter works as of 2013-08-11
- One Nir fragment has been amplified with USER primers (changed DMSO, Mg, temperature, etc), one to go
- E coli experiment will be run again this week
Week 34
- Decided on final human practices event
Week 35
- Attended Scandinavian meetup in Odense hosted by SDU team
- Biobricks in progress
- Biolector for SPL in progress
- sequencing for SPL in progress
- first draft of presentation
- first draft of poster
- measure Nir, AMO, HAO transformants
- modelling of kinetics and design of a reactor: Vanessa
- Title and abstract finished; Title: Requiem for a Stream
- Reviewed presentation with Julie, who gave us very good advice on pitching our project
- measure AMO, HAO transformants complete
September
Week 36
- Have biobricks for AMO and cytochromes (are going to sequence these), the others are coming.
- Running last biolector experiment today
- sequencing for SPL is in progress
- Kristian is working on a page in the parts registry for the parts registry
- first draft of presentation completed
- first draft of poster complete
- modelling of kinetics and design of a reactor: using Continuous Stirred Tank Reactor
- Began reactor design -- ask Mikael Rordham in 223 for 2 1L chemostats
Week 37
Week 38
Week 39
October
Week 40
- Wiki complete!
Lab Book Entries
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