Team:Cambridge/Team

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{| style="color:#1b2c8a;background-color:#3ae2e8;" cellpadding="3" cellspacing="0" border="1" bordercolor="#fff" width="62%" align="center"
 
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!align="center"|[[Team:Cambridge|Home]]
 
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!align="center"|[[Team:Cambridge/Team|Team]]
 
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!align="center"|[https://igem.org/Team.cgi?year=2012&team_name=Cambridge Official Team Profile]
 
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!align="center"|[[Team:Cambridge/Project|Project]]
 
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!align="center"|[[Team:Cambridge/Parts|Parts Submitted to the Registry]]
 
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!align="center"|[[Team:Cambridge/Modeling|Modeling]]
 
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!align="center"|[[Team:Cambridge/Notebook|Notebook]]
 
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!align="center"|[[Team:Cambridge/Safety|Safety]]
 
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!align="center"|[[Team:Cambridge/Attributions|Attributions]]
 
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!align="center"|[[Team:Cambridge/Sponsors|Sponsors]]
 
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=='''The Team'''==
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|You can write a background of your team here.  Give us a background of your team, the members, etc.  Or tell us more about something of your choosing.
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[[File:Cam_team_001.jpg|760px]]
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|[[Image:Cambridge_logo.png|200px|right|frameless]]
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<!---[[Image:Cambridge_team.png|right|frame|Your team picture]] --->
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|align="center"|[[Team:Cambridge | Team Cambridge]]
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----
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Image:Cambridge_Andreas.png|Andreas Petrides
 
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Image:Cambridge_Charlie.png|Charlie Bransfield-Garth
 
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Image:Emmy.jpg|Emmy Tsang
 
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Image:Jolyon.png|Jolyon Martin
 
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Image:Cambridge_Oli.png|Oli Meacock
 
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== '''What we did''' ==
 
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(Provide proper attribution for all work)
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<h6>I have just finished the second year of Engineering and I am planning to continue specialising in Electrical and Information Sciences. I have always been interested in integrating engineering into biological applications and thus I find iGEM as an excellent educational experience. Apart from science and engineering, I enjoy swimming (preferably in the Mediterranean) and hiking.</h6>
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<div id='charlie' class='profile'>
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<h6>Part II Zoologist with a penchant for cheesecake and old Voyager episodes.</h6>
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<h6>I spent the last year doing biochemistry and neuroscience, and will be doing more of that as a part II PDN (Physiology, Development and Neuroscience) student next year, with my main interest in developmental neurobiology. But SynBio is exciting too- so is photography, and baking ;)</h6>
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<h6>Does the picture not tell you everything you need to know?</h6>
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<h6>I have a particular interest in physiology and neuroscience, going into part II PDN (physiology, development and neuroscience) next year. Molecular biology is therefore not really my area of expertise, but I'm keen to learn and I have a steady pipetting hand.</h6>
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<div id='paul' class='profile'>
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<h6>I finished my third year Engineering for the Life Sciences course this year and will be continuing with this for my masters year in October. This is my first major foray into experimental biology and am keen to get as much engineering into the project as possible!</h6>
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<div id='stuart' class='profile'>
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<h6>I'm a biologist with an interest in cell biology and biochemistry, although next year I'm specialising in plant sciences which is also very cool. Outside of science I like lots of samba percussion and all kinds of outdoor pursuits.</h6>
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<h6>I'm a biologist mostly interested in cell biology and biochemistry, but also in pathological processes and viruses, both as pathogens and as potential chassis for synthetic systems. Next year I'm going on to a third (and fourth) year of biochemistry, by which point I hope to be able to pipette with two Gilsons simultaneously. </h6>
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=='''Advisors'''==
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====Academics====
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We are extremely grateful to the following academics for supporting us throughout the competition.
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*''' Jim Haseloff'''
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[[File:jimh.jpg]]
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*'''Jim Ajioka'''   
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[[File:jima.jpg]]
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*'''James Brown'''
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[[File:jamesb.jpg]]
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*'''Fernan Federici'''
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[[File:fernanf.jpg]]
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*'''Paul Grant'''
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[[File:paulg.jpg]]
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*'''Gos Micklem'''
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[[File:gosm.jpg]]
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*'''Nuri Purswani'''
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[[File:nurip.jpg]]
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*'''PJ Steiner'''
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[[File:pjs.jpg]]
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====iGEM2011====
 +
----
 +
These three were on last year's iGEM team and have been hugely helpful, without them, we would probably still be flapping around like tip-less pipettes
 +
 +
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*'''Joe Harvey'''
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[[File:joeh.jpg]]
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*'''Matt Jones'''
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[[File:mattj.jpeg]]
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*'''Cat McMurran'''
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[[File:catm.jpg]]
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----
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=='''Get in touch with us'''==
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''email (prefered):''  cambridgeigem2012@gmail.com
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''facebook:''  [https://www.facebook.com/CambridgeIgem2012 https://www.facebook.com/CambridgeIgem2012]
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''twitter:''  [https://twitter.com/CambridgeiGEM12 @CambridgeiGEM12]
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''phone:''  +44 (0)1223 766545
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''post:''  iGEM, Haseloff Lab, Department of Plant Sciences, University of Cambridge, Downing Street, Cambridge, CB2 3EA, United Kingdom
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== '''Previous Cambridge iGEM teams''' ==
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Follow links below to wiki pages for previous Cambridge teams
 +
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*[https://2011.igem.org/Team:Cambridge <span style="color:#0000CD">Team2011</span>]
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[[File:2011.png|none|link=https://2011.igem.org/Team:Cambridge]]
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*[https://2010.igem.org/Team:Cambridge <span style="color:#0000CD">Team2010</span>]
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[[File:2010.png|none|link=https://2010.igem.org/Team:Cambridge]]
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*[https://2009.igem.org/Team:Cambridge <span style="color:#0000CD">Team2009</span>]
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[[File:2009.jpg|none|link=https://2009.igem.org/Team:Cambridge]]
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*[https://2008.igem.org/Team:Cambridge <span style="color:#0000CD">Team2008</span>]
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[[File:2008.png|none|link=https://2008.igem.org/Team:Cambridge]]
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*[https://2007.igem.org/Cambridge <span style="color:#0000CD">Team2007</span>]
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[[File:2007.png|none|link=https://2007.igem.org/Cambridge]]
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== '''Where we're from''' ==
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{{Template:Team:Cambridge/CAM_2012_TEMPLATE_FOOTNEW}}

Latest revision as of 00:53, 27 October 2012

Parts for a reliable and field ready biosensing platform

Implementation of biosensors in real world situations has been made difficult by the unpredictable and non-quantified outputs of existing solutions, as well as a lack of appropriate storage, distribution and utilization systems. This leaves a large gap between a simple, functional sensing mechanism and a fully realised product that can be used in the field. We aim to bridge this gap at all points by developing a standardised ratiometric luciferase output in a Bacillus chassis. This output can be linked up with prototyped instrumentation and software for obtaining reliable quantified results. Additionally, we have reduced the specialized requirements for the storage and distribution of our bacteria by using Bacillus' sporulation system. To improve the performance of our biosensing platform we have genetically modified Bacillus’ germination speed. Lastly, we demonstrated the robustness of our system by testing it with a new fluoride riboswitch, providing the opportunity to tackle real life problems.

One minute tour! :)

>> Return to page
>> Return to page


Contents

Judging Form

  • Please help the judges by filling out this form. Tell them what medal you think you deserve and why. Tell them which special prizes you should win. Help them find your best parts. Show them how you thought about the safety of your project. Helping the judges will help you too.
  • Team: Cambridge
  • Region: Europe
  • iGEM Year:2012
  • Track:Foundational Advance
  • Project Name:Parts for a reliable and field ready biosensing platform
  • Project Abstract: Implementation of biosensors in real world situations has been made difficult by the unpredictable and non-quantified outputs of existing solutions, as well as a lack of appropriate storage, distribution and utilization systems. This leaves a large gap between a simple, functional sensing mechanism and a fully realised product that can be used in the field.

    We aim to bridge this gap at all points by developing a standardised ratiometric luciferase output in a Bacillus chassis. This output can be linked up with prototyped instrumentation and software for obtaining reliable quantified results. Additionally, we have reduced the specialized requirements for the storage and distribution of our bacteria by using Bacillus' sporulation system. To improve the performance of our biosensing platform we have genetically modified Bacillus’ germination speed. Lastly, we demonstrated the robustness of our system by testing it with a new fluoride riboswitch, providing the opportunity to tackle real life problems.

Back to wiki


iGEM Medals for non-software teams

  • We believe our team deserves the following medal:
    • Bronze
    • Silver
    • √Gold

Because we met the following criteria (check all that apply and provide details where needed)

Requirements for a Bronze Medal

  • √Register the team, have a great summer, and plan to have fun at the Regional Jamboree.
  • √Successfully complete and submit this iGEM 2012 Judging form.
  • √Create and share a Description of the team's project using the iGEM wiki and the team's parts using the Registry of Standard Biological Parts.
  • √Plan to present a Poster and Talk at the iGEM Jamboree.
  • √Enter information detailing at least one new standard BioBrick Part or Device in the Registry of Standard Biological Parts. Including:
    • √Primary nucleaic acid sequence
    • √Description of function
    • √Authorship
    • Safety notes, if relevant.
    • √Acknowedgment of sources and references
  • √Submit DNA for at least one new BioBrick Part or Device to the Registry.

Additional Requirements for a Silver Medal

  • √Demonstrate that at least one new BioBrick Part or Device of your own design and construction works as expected; characterize the operation of your new part/device.
  • √Enter this information and other documentation on the part's 'Main Page' section of the Registry
    Part Number(s): [http://partsregistry.org/Part:BBa_K911004 BBa_K911004]

Additional Requirements for a Gold Medal: (one OR more)

Back to wiki

iGEM Prizes

All teams are eligible for special prizes at the Jamborees. more... To help the judges, please indicate if you feel you should be evaluated for any of the following special prizes:

  • √Best Human Practice Advance
  • √Best Experimental Measurement
  • Best Model

Please explain briefly why you should receive any of these special prizes:

Best Human Practice Advance:

We feel that we deserve this prize for three reasons:

  1. We explored the impacts, *both positive and negative*, of synthetic biology as a solution to real world problems, through interviewing professionals working in a relevant field, namely the impact of arsenic water contamination in Bangladesh.
  2. We recognized existing problems with the way the current direction of synthetic. On going through the registry we found that most of the characterization data for biosensing parts is often neither comparable nor replicable. We have worked to solve this issue, for example with our ratiometric dual channel output.
  3. *Our project doesn’t stop here*, in Chanel number 6 (Team:Cambridge/HumanPractices/FutureDirections) we considered the future implications and technological applications of our project, as well as the means by which it could be improved by subsequent users. We feel that the end to an iGEM project should not be the conclusion of an idea, but the start of it.

Best BioBrick Measurement Approach:

It is absolutely vital that a quantitative, numerical, robust, and flexible measurement approach exists to relay information to a user that is an accurate representation of the input processed by a biological device. Working from these principles, the following was done:

  1. We designed and built Biologger, a *cheap, arduino-based, fully functional automatic rotary device* that has an incorporated ratiolumnometer
  2. Our project is entirely open-sourced and open-platform. We have published source code for the two applications which serve to operate the device, one for PCs and the other for Android devices, as well as the open source circuit design that provides this ratiometric reading. Furthermore, the Android app is able to receive its data wirelessly, which we feel is a great advance in BioBrick measurement.
  3. Our dual-channel luciferase reporter was successfully tested with a dilution series of E.coli transformed with the Lux Operon (under pBAD) biobrick (Part BBa_K325909) of the Cambridge iGEM 2010 team. It can detect, with good accuracy, both different light intensities, as well as the percentages of blue or orange frequencies in a sample.
  4. Our device was successfully tested using artificial light to detect different frequencies (colours) as well.

Having done all the above, we believe that this fully open-sourced instrumentation kit (mechanical) chassis, electronics, software code), estimated at *$35.00* (or $85.00 if a Bluetooth modem is required), is a complete BioBrick measurement solution for any and all BioBricks with a light output.

Back to wiki

Team_Parts

To help the judges evaluate your parts, please identify 3 of your parts that you feel are best documented and are of the highest quality.

  • Best new BioBrick part (natural)
    [http://partsregistry.org/Part:BBa_K911003 BBa_K911003]
    Best new BioBrick part (engineered)
    [http://partsregistry.org/Part:BBa_K911004 BBa_K911004]
  • Best improved part(s): None

List any other parts you would like the judges to examine:[http://partsregistry.org/Part:BBa_K911001 BBa_K911001], [http://partsregistry.org/Part:BBa_K911008 BBa_K911009], [http://partsregistry.org/Part:BBa_K911008 BBa_K911008]

Please explain briefly why the judges should examine these other parts:

  • Magnesium Sensitive Riboswitch [http://partsregistry.org/Part:BBa_K911001 BBa_K911001]
    As a riboswitch sensing construct, this part is an entirely new type of biosensor (along with the fluoride construct) that could potentially change the way we think about designing input genetic circuits. Unlike the fluoride riboswitch, it is a derepression system and therefore serves to demonstrate the principle that riboswitches can be used regardless of whether they turn on or off their reporter.
  • Fluorescent ratiometric construct for standardizing promoter output [http://partsregistry.org/Part:BBa_K911009 BBa_K911009]
    Fluorescence is a major cornerstone for biosensors in the registry, however, most parts do not involve the use of a ratiometric output, which has been shown in the literature to provide much more reliable and meaningful data. This part not only furthers the development of ratiometric measurements in molecular biology but due to the choice of promoters and terminators it can be used to characterize the difference in activity between E. coli and B. Subtilis
  • Fast Germination (B. subtilis) [http://partsregistry.org/Part:BBa_K911008 BBa_K911008]
    This part is entirely novel for the registry and fully utilizes the recombination machinery inherent in the Bacillus chassis. Have spores that can germinate at a faster rate is certainly a worthy achievement and could help with experiments with B. Subtilis that any future iGEM teams may wish to perform.

Back to wiki

iGEM Safety

For iGEM 2012 teams are asked to detail how they approached any issues of biological safety associated with their projects.

The iGEM judges expect that you have answered the four safety questions Safety page on your iGEM 2012 wiki.

Please provide the link to that page: Page name: Team:Cambridge/Safety

Attribution and Contributions

For iGEM 2012 the description of each project must clearly attribute work done by the team and distinguish it from work done by others, including the host labs, advisors, and instructors.

Please provide the link to that page, or comments in the box below: Page name: Team:Cambridge/Attributions

Comments

If there is any other information about your project you would like to highlight for the judges, please provide a link to your wiki page here: Team:Cambridge/Overview/DesignProcess


The Team

Cam team 001.jpg

Students

I have just finished the second year of Engineering and I am planning to continue specialising in Electrical and Information Sciences. I have always been interested in integrating engineering into biological applications and thus I find iGEM as an excellent educational experience. Apart from science and engineering, I enjoy swimming (preferably in the Mediterranean) and hiking.
Part II Zoologist with a penchant for cheesecake and old Voyager episodes.
I spent the last year doing biochemistry and neuroscience, and will be doing more of that as a part II PDN (Physiology, Development and Neuroscience) student next year, with my main interest in developmental neurobiology. But SynBio is exciting too- so is photography, and baking ;)
Does the picture not tell you everything you need to know?
I have a particular interest in physiology and neuroscience, going into part II PDN (physiology, development and neuroscience) next year. Molecular biology is therefore not really my area of expertise, but I'm keen to learn and I have a steady pipetting hand.
I finished my third year Engineering for the Life Sciences course this year and will be continuing with this for my masters year in October. This is my first major foray into experimental biology and am keen to get as much engineering into the project as possible!
I'm a biologist with an interest in cell biology and biochemistry, although next year I'm specialising in plant sciences which is also very cool. Outside of science I like lots of samba percussion and all kinds of outdoor pursuits.
I'm a biologist mostly interested in cell biology and biochemistry, but also in pathological processes and viruses, both as pathogens and as potential chassis for synthetic systems. Next year I'm going on to a third (and fourth) year of biochemistry, by which point I hope to be able to pipette with two Gilsons simultaneously.

Advisors

Academics

We are extremely grateful to the following academics for supporting us throughout the competition.

  • Jim Haseloff

Jimh.jpg


  • Jim Ajioka

Jima.jpg


  • James Brown

Jamesb.jpg


  • Fernan Federici

Fernanf.jpg


  • Paul Grant

Paulg.jpg


  • Gos Micklem

Gosm.jpg

  • Nuri Purswani

Nurip.jpg

  • PJ Steiner

Pjs.jpg

iGEM2011

These three were on last year's iGEM team and have been hugely helpful, without them, we would probably still be flapping around like tip-less pipettes


  • Joe Harvey

Joeh.jpg


  • Matt Jones

Mattj.jpeg


  • Cat McMurran

Catm.jpg


Get in touch with us

email (prefered): cambridgeigem2012@gmail.com

facebook: https://www.facebook.com/CambridgeIgem2012

twitter: @CambridgeiGEM12

phone: +44 (0)1223 766545

post: iGEM, Haseloff Lab, Department of Plant Sciences, University of Cambridge, Downing Street, Cambridge, CB2 3EA, United Kingdom

Previous Cambridge iGEM teams

Follow links below to wiki pages for previous Cambridge teams

2011.png


2010.png


2009.jpg


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Retrieved from "http://2012.igem.org/Team:Cambridge/Team"