Project 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 with supervisors

April

• 2013-04-15 Team contract written and signed
• 2013-04-28 Human Practices: Held second workshop 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 complete and successful. From a cytoplasmic extraction, we have observed GFP in the periplasm and RFP in the cytoplasm.
• Toxicity Experiment and data analysis complete: average ammonia concentrations in wastewater are not toxic to E. coli.

Week 28

• Began growing Nitrosomonas culture and made special media for it
• 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
• Attempting to extract Nir gene in two pieces, since this has not been successful so far
• 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

• biobricks -- have 2 that are fine: AMO and cytochromes
• redo colony pcr with sequencing primers to verify
• Nir experiment on friday
• Planning for bioreactor experiment
• Human Practices: Attended BioPeople event "The Basics and the Best" on IP and patent law

Week 38

• Filmed "Bricks of Knowledge" video on USER cloning for KU team
• Biobricks mailed
  • tat signal peptide
  • amo
  • cytochromes
• arabinose promoter biobrick not made -- Kristian and Henrike will make this in the next few days
• Bioreactor experiment started this morning, will finish at 10pm tonight.

Week 39

• Hackathon intensive to complete wiki 28th of Sept
• Nir experiment -- Kasia and Ariadne will do this on Thursday
• Video in progress
• Reviewed poster v2

October

Week 40

• Wiki complete!