Welcome to [http://www.msstate.edu Mississippi State University!]

From left to right: Teri Vaughn ₁, Scott Tran ₁, Lauren Beatty ₁, Robert Morris ₁, Victor Ho ₂, Dr. Din-Pow Ma ₂, Dr. Filip To ₁
[http://www.abe.msstate.edu/Undergraduate/Biological/ ₁ Biological Engineering Department] [http://www.msstate.edu/dept/biochemistry/ ₂ Biochemistry Department]

The Team

Faculty Members:

Dr. Filip To Agricultural and Biological Engineering

Dr. Bob Reese Electrical and Computer Engineering

Dr. Tod French Chemical Engineering

Dr. Din-Pow Ma Biochemistry

Students:

Teri Vaughn Undergraduate, Senior, Biomedical Engineering

Courtney Harbin Undergraduate, Senior, Biochemistry

Lauren Beatty Undergraduate, Junior, Biomedical Engineering

Scott Tran Undergraduate, Junior, Biological Engineering

Sam Pote Undergraduate, Freshman, Biological Engineering

Paul Kimbrough Undergraduate, Junior, Biological Engineering

Joseph Chen Undergraduate, Junior, Biological Engineering

Robert Morris Grad student, Biological Engineering

Meng-Hsuan Ho Grad student, Molecular Biology

Brendan Flynn Grad student, Biological Engineering

Introduction

• International Genetically Engineered Machine (iGEM) is a student-led competition to build the most innovative "machine" by synthetic biology.
• Headquarters is located at the Massachusetts Institute of Technology.
• In 2006, 37 schools and over 400 students from around the world are participating in projects to construct biologically engineered systems.
• Task of each team is to apply engineering methodology to design and develop a new biological system ("machine") through the use of existing and/or newly formed microscopic biological parts (termed BioBricks).
• Type of the "machine" is chosen by each individual school participating, and the only criterion is that the "machine" be made entirely of the functional units of DNA called BioBricks.
• A registry of all BioBricks is kept in the MIT Registry of Standard Biological Parts, which is regularly updated to include new parts developed by teams.
• Parts for each iGEM team are obtained through the Registry for a fee.
• Jamboree for students to present their projects will take place at MIT in November.

H₂ Reporter

• Syngas is a renewable source of energy that has the potential to improve and relieve the energy crisis in the world today. Syngas has the capability to yield products such as ethanol, bio-diesel, and bio-oil, which could replace gasoline and diesel as the major energy sources in the future. The problem, however, lies in the process of producing a high-quality syngas. In general, a high-quality syngas consists of low tar content and high levels of H₂ and CO. The high levels of H₂ and CO increase the combustibility and heating value of the syngas, making it more efficient and effective.

• Our purpose for iGEM 2006 is to build a machine containing a reporter capable of detecting the presence of H₂ and producing YFP if H₂ is present.

• Our team chose to test the hybB promoter to see if it had hydrogen sensing capabilities. We also placed switches in the constructions in order to be able to control our detectors. For a reporter, we chose a YFP.

• We built the following two constructs:
  

File:IGEM construct.gif

Results

Discussion

• After three rounds of testing, we are unable to verify our hybB promoter as a hydrogen sensing promoter. However, the results do indicate that hydrogen sensing capabilities are probable
• The results from the test with J43000 were not at all expected. There are several points in the data that are unexplainable. It would appear as though some human error in testing or our tetR switch led to the inconsistencies. The tetR switch was reported to be an inverter in the registry. Therefore, these results could be explainable by a mistake in the registry. On the other hand, our results could be explained by our promoter functioning as an inverter as well. In that case, there should increasing fluorescence with hydrogen concentration.
• The results from the test with J43001 were also not as expected. The LacI switch was not known to be an inverter. However, our results show that the entire part was producing an inverted signal. Either the LacI switch is an inverter or the promoter itself could be an inverter. If either of these are true, we would see decreasing fluorescence with hydrogen concentration.
• Based on the tests, it would appear as though our promoter displays some inverting characteristics. This is the only possible outcome that could explain the results from both tests. J43001 seems to be a working part with inverting characteristics. J43000 does not show the same promise, it will need to be tested again to determine the reasoning behind our data.
• Further testing should be performed to determine if this promoter is actually an hydrogen sensing promoter, and therefore, an inverter. At the moment we do not have the ideal equipment for testing fluorescence. With more funding and better equipment, we might be able to get a better idea of the capabilities of our parts.

Accomplishments

• October 25- Gather results from final tests and analyze.
• October 24- Took pictures of vials for final tetsing.
• October 23- Performed gassing for final testing (Solid Media).
• October 22- Inoculation of E.coli + plasmid into solid media.
• October 17- Sent two constructions to the registry, and registered our parts on the website.
• October 5- Analyzed results of second test.
• October 4- Took pictures of vials for second testing.
• October 3- Performed gassing for second testing (Liquid Media).
• October 2- Inoculation of E.coli + plasmid into liquid media.
• September 29- Built testing station to be used with spectrometer.
• September 22- Analyzed results of first test.
• September 21- Took pictures of vials in first test.
• September 20- Performed gassing of first test (Solid Media).
• September 18- Inoculation of E.coli + plasmid into solid media.
• September 12-14- Gathered resources to begin testing.
• August 29-September 8- Searched for the instrumentation needed to do the testing.
• August 24- Digested plasmids to test the ligation of HybB (successful).
• August 22- Sequenced promoter for verification
• August 18- Group meeting with faculty, Publicity and preparation for Jamboree discussed.
• August 16- Planning for Jamboree with help from James.
• August 15- Group meeting with James our Ambassador. iGEM presentations given by James.
• August 14- Digested plasmids to test the ligation of HybB (unsuccessful).
• August 13- Isolated plasmids HybB-Q04121-E0430 and HybB-Q04400-E0430.
• August 9- Ligation of HybB promoter with the two constructions.
• August 7- Digested and purified the two constructions.
• August 3- Digested plasmids to confirm the constructions of Q04121-E0430 and Q04400-E0430.
• August 2- Isolated plasmids Q04121-E0430 and Q04400-E0430.
• July 31- Isolated and confirmed Q04400. Reconstructed Q04121-E0430. Constructed Q04400-E0430.
• July 28- Isolated and analyzed Q04121-E0430 (unsuccessful).
• July 27- Initial project information and pictures sent to Kirsten at Momentum.
• July 26- Ligased Q04121 and E0430 together and transformed into E. coli. Regrew Q04400 (first attempt at growth was unsuccessful).
• July 25- Performed polymerase chain reaction.
• July 21- Digested plasmid.
• July 19- Harvested cells and performed electrophoresis.
• July 18- Cultivated and innoculated colonies.
• July 17- Transformed DNA into E. coli.
• July 14- Removed chosen parts from DNA plates. Modified one part of design: E0430 substituted for E0432.
• July 13- Began lab work. Prepared agar plates.
• July 10- Student meeting, BioBrick parts chosen.
• July 6 - Group meeting with faculty, Steps to build machine defined and parameters discussed.
• June 8 - Group meeting with faculty, Project goals defined.