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Monday, May 21-Group Meeting in 244 Ag Engineering 3PM More information about the meetings below. If times do not work, please let me know and we can reschedule them to a better time. Also, if anyone has a copy of the Genetic Switch and would like to lend it out to one of our 3 new members please let me know, and I will get it to one of them as quickly as possible.

At the Student Meeting

Friday, May 18-Student Meeting at 408 Althouse 2PM

We went over:

  • using the spectrophotometer
  • locations of lab supplies
  • general lab strategies
  • planned brainstorming session

Monday, May 21-Group Meeting in 244 Ag Engineering 3PM

Summer Schedule

Monday, May 30-Group Meeting in 244 Ag Engineering 4PM

Todays Topic: Project Propoasals

  • Friday is decision deadline

Suggestions: Focus on areas under advisors expertise, focus on iGEM objectives (Energy, Fuel) iGEM objectives for 2007

  • Health and Medicine
  • Energy and Environment
  • Parts and Devices

Project Proposals

  • Radiation Biosensor
  • Heat Biosensor
    • Exothermic Enzymes
  • Biofilms
    • Tom Richards: Applications to Synthetic Biology
  • Renewable Energy Biomass:
    • Problem is Multiple Sugar Types
      • Diauxie
      • Remove Diauxie by modifying bacteria to remove both sugars at the same time.

Saturday, June 2-Undergraduate Online Meeting 4PM

  • What is the composition of the biomass (sugars x%)?
  • Is there a biomass standard
  • How do we knock the xylose metabolism parts out of the chromosome
  • Put xyl A, B, E under control of xylR
  • Do we we want the xylose metabolism to be under tight repression?
  • Should we be looking at multiple sugar metabolizing pathways?


  • Noah/Garrett-look up biomass papers come up with questions
  • Luc-come up with weekly plan

Sunday, June 3-Undergraduate Meeting HUB 12PM

Monday, June 4-Group Meeting in 244 Ag Engineering 4PM

  • Biobrick-ing
    • Just need to order primers, will have biobricks on them
    • Have to add a silent mutation to use restriction enzymes on so that you dont accidentally cut the gene
    • Should probably make 2 separate biobricks:
      • 1) All the way from xylF to just before xylA starts
      • 2) Smaller one: remove crp binding site, possibly put in a spacer to preserve looping mechanism
        • This might be a pain to PCR: might want to order it if we go that route
  • Diauxie Project
    • Use xylE instead of xylF,G,H (smaller and easier to work with)
    • Ptac = mixture of lac and trp
    • If xylR acts like araC we need to keep an upstream area to allow it to loop correctly (~200bp)
    • Fis? - Noone knew how it worked or if its necessary... found short description from 2006 iGEM, also paper describing Fis listed on ANGEL under Diauxie
    • NAD+ Chromosomal deletion- good idea, research further
    • Biomass- Glucose and Xylose are ~80-90%
    • Don't need to worry about repressing crp because majority of dimers will be crp* so the overwhelming concentration will factor out crp
  • Dosimeter Project
    • Currently a UV lysing component is used on plasmids
      • Does it use recA? ...should look into it
    • Part BBa R0011 - Lambda switch
    • Could consider biobrick-ing recA
  • Next Steps:
    • Biobrick xylR first separately, biobrick other components mentioned
    • Look into cloning software (CloneManager), If not possible to get on Richard Lab computers we can use Dr. Cirino's computers in his lab sometime
    • Order DNA synthesis soon
    • Research feasibility of dosimeter
    • Continue researching diauxie project.. Dr. C will send more papers