Team:Newcastle/other

Contents 1 Attribution and Contribution 1.1 Sub Projects 1.1.1 Filamentous cells 1.1.2 Urease 1.1.3 Glue 1.1.4 Quorum Sensing 1.2 Chassis Testing 1.2.1 Extreme Base Resistance 1.2.2 Swarming 1.3 Workflows 2 Awards 3 Jamboree 4 Poster 5 UK iGEM Get Together 5.1 Programme 5.2 Presentation 6 Photos 6.1 Team Photos 6.2 Random Photos 7 Ethics 7.1 Synthetic Biology: Background 7.1.1 Biohackers 7.1.2 Playing God!!! 7.1.3 Biosecurity 7.2 Construction: Background 7.2.1 Environmental Disaster 7.2.2 Post-Chernobyl Disaster

Attribution and Contribution

The work on this project (including part design, computational modelling, lab work and graphic design) was completed entirely by a multidisciplinary team of students.

Tube	Part to be amplified	DNA fragment consisting the part	Forward primer	Reverse Primer	Melting Temperature (Tm in °C)	Size of the fragment (in bp)	Extension time* (in seconds)
1	Plasmid Vector	pSB1C3	P1V1 forward	P2V1 reverse	58	2072 approx.	60
2	Pspacoid Promoter	pMutin4	P1P1 forward	P2P1 reverse	49	106 approx.	15
3	1st fragment of rocF CDS	B. subtilis 168 chromosome	P1S1 forward	P2S1 reverse	58	246 approx.	15
4	2nd fragment of rocF CDS	B. subtilis 168 chromosome	P3S2 forward	P4S2 reverse	65	597 approx.	20
5	3rd fragment of rocF CDS	B. subtilis 168 chromosome	P5S3 forward	P6S3 reverse	66	125 approx.	15
6	Double Terminator	pSB1AK3 consisting BBa_B0014 biobrick	P1T1 forward	P2T1 reverse	56	116 approx.	15

Sub Projects

Filamentous cells

1. Resecrh and Design
   1. Rachel
   2. Phil
   3. Deena
   4. Jannetta
2. Lab work
   1. Alan
   2. Rachel
   3. Deena
3. Characterization and Testing
   1. Harsh
   2. Rachel
4. Modelling
   1. Steven
   2. Jannetta

Urease

1. Research and Design
   1. Alan
   2. Steven
2. Lab and Testing
   1. Alan
   2. Harsh
   3. Steven
3. Modelling
   1. Steven

Glue

1. Research and Design
   1. Phil
2. Lab and Testing
   1. Every student

Quorum Sensing

1. Research and Design
   1. Alan
   2. Steven
   3. Rachel
2. Lab
   1. Phil
   2. Younus

Chassis Testing

Extreme Base Resistance

1. Research
   1. Harsh
   2. Steven
2. Lab
   1. Harsh
   2. Steven

Swarming

1. Research
   1. Harsh
2. Lab
   1. Phil

Workflows

Jannetta developed the e-Science Approarch to Synthetic Biology focussing on workflows. She submitted to the BioBrick foundation as BBF RFC 66.

Details of this work can be found on the Solution, Modelling and Lab book pages. This work is unrelated to the work done by the labs of our instructors and advisors.

Awards

Aims and Medals

Jamboree

Jamboree

Poster

Poster Requirements

UK iGEM Get Together

Programme

The Programme for UK Gathering at Newcastle

UK get together

Presentation

Our Presentation for the UK Gathering at Newcastle

Questions asked about our presentation:

1. Would this project require us to change the strength of the filamentous cells in relation to different types of concrete?
2. What is the strength of filamentous cells? How do filamentous cells actually help to fill up the cracks?
3. How can repairing microcracks in concrete help to prevent a building collapsing in an earthquake?

For answers to these questions see Deena's concrete lecture

Photos

Team Photos

Random Photos

Ethics

Synthetic Biology: Background

Synthetic biology is a new research field that has a big potential in coming up with solutions for our everyday problems. However, ethical issues have been raised since the start of development in this field. Here we will discuss the ethical issues that our project will bring.

Biohackers

In this field, there are always people that view synthetic biology's negative aspects with concern, like worrying about the production of pathogens to be used as weapons. Their fears are that people will hack into systems to obtain data that might be used to do this. Therefore, we have to be very careful with the products of our research so that they remain safe in our hands.

Playing God!!!

In synthetic biology, we control the lives of bacteria. We insert proteins into bacteria to make them do what we want them to do. We make them kill themselves at the end of their job because they might be released into the environment and be harmful to other living things. It shows that we do not really treat the single-celled organism as life. However, we are coming up with a novel solution for the environment by healing concrete cracks.

Biosecurity

Bacteria might be harmful to the environment and living things around. Considering the fact that they are such small organisms and could not be spotted with the naked-eye if they are released in air, we make them kill themselves with the ‘kill switch’ biobrick. This can be very inconsiderate standing in a bacteria’s point of view, but it is the novel thing to do to avoid them hurting other living organisms.

Construction: Background

Cracks form in concrete structures as soon as they set. These cracks continue to grow in size if they are not repaired due to the weight of the structure, imposed load, freeze-thaw effect and wind loading. The bigger the cracks are, the higher the rate of water seeping into the steel reinforcements, causing them to corrode and thus weakening the structure. Therefore, we would like to use Bacilla Filla to fill up these cracks before things get worse.

Environmental Disaster

Concrete is a very widely used material in construction. In fact, cement that is used to make concrete is the second most widely used substance in the world after water. Some building structures have to be demolished because the cracks formed appear to be threatening the strength of the structures. These buildings have to be rebuilt in order to reinforce its tensile strength. This is an unsustainable method of recovery because cement is a material that requires a lot of energy to be produced. In the production of cement, the rotating kiln requires the temperature to be between 1350°C-1400°C, which not only uses up a lot of energy resources, but also produces a lot of carbon dioxide. These carbon dioxide contributes to the green house effect which then leads to global warming. Therefore, our project can help to reduce renovation of buildings which in turn lowers the amount of cement that has to be produced each year.

Post-Chernobyl Disaster

The nuclear power plant combustion that occurred in Chernobyl on 26 April 1986 has allowed radioactive elements to be released into the environment, threatening the health of people living within close proximity of the plant. Therefore, a shelter, the Shelter Implementation Plan (SIP) which will be completed in 2012 is currently being built to cover up the area that where the accident occurred so as to make it environmentally friendly. However, if cracks were to form, something that inevitably occurs for building structures, those radioactive elements will still be dispersed into the environment. With the help of our project, those cracks will be able to be filled-up and the area will be safe again.