Difference between revisions of "Team:Exeter/Log"

 
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You can see below the team photo taken the other day.
 
You can see below the team photo taken the other day.
 
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Today we were given a talk by Markus Gershater, the cofounder of Synthace
 
Today we were given a talk by Markus Gershater, the cofounder of Synthace
 
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We discussed the kill switch idea more in depth, looking at the possibility of using a lab grown amino acid to trigger the kill switch.
 
We discussed the kill switch idea more in depth, looking at the possibility of using a lab grown amino acid to trigger the kill switch.
 
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In addition to this, we started developing an instruction manual to accompany the game.
 
In addition to this, we started developing an instruction manual to accompany the game.
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Some of the team spoke to Dr Mark Ramsdale, a fungal cell biologist. He gave feedback on the PAF dea, raising the question as to why we wanted to express PAF in E. coli as opposed to a fungus. Dr Ramsdale pointed out that due to how small PAF was as a protein, using GFP as a tag could affect how it is transported around the cell, and therefore skew the results. He told us about fungi specific promoters in Neurospora crassa which acts as a Circadian Clock using light and heat as inducers.
 
Some of the team spoke to Dr Mark Ramsdale, a fungal cell biologist. He gave feedback on the PAF dea, raising the question as to why we wanted to express PAF in E. coli as opposed to a fungus. Dr Ramsdale pointed out that due to how small PAF was as a protein, using GFP as a tag could affect how it is transported around the cell, and therefore skew the results. He told us about fungi specific promoters in Neurospora crassa which acts as a Circadian Clock using light and heat as inducers.
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We also met with Professor Rob Beardmore to discuss the genome integration idea. He said it sounds interesting but raised concerns about if it would even be possible to mathematically model it. He also liked the killswitch idea and said testing KillerRed and KillerOrange under a gradient of slowly increasing light intensity could be the strongest selector for resistance.
 
We also met with Professor Rob Beardmore to discuss the genome integration idea. He said it sounds interesting but raised concerns about if it would even be possible to mathematically model it. He also liked the killswitch idea and said testing KillerRed and KillerOrange under a gradient of slowly increasing light intensity could be the strongest selector for resistance.
 
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We also experimented with the vlog format, testing out the dynamics of using three people instead of two which we felt it worked a lot better.
 
We also experimented with the vlog format, testing out the dynamics of using three people instead of two which we felt it worked a lot better.
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Also, we completed two presentations on Synthetic Biology and iGEM which we intend to run on a loop on two iPads for the duration of the fair.
 
Also, we completed two presentations on Synthetic Biology and iGEM which we intend to run on a loop on two iPads for the duration of the fair.
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<p id="pp">Leanne and Emily met with Dr Nicky King again to discuss what we have so far for the synthetic biology module we are writing. It was incredibly useful, as Dr King gave us advice on several different module structures we could look at and several other academics we could talk to. She seems very enthusiastic about our idea, offering to propose it to the Natural Sciences and the Biosciences committee at the start of first term to find out if it’s something we can implement.</p>
 
<p id="pp">Leanne and Emily met with Dr Nicky King again to discuss what we have so far for the synthetic biology module we are writing. It was incredibly useful, as Dr King gave us advice on several different module structures we could look at and several other academics we could talk to. She seems very enthusiastic about our idea, offering to propose it to the Natural Sciences and the Biosciences committee at the start of first term to find out if it’s something we can implement.</p>
 
<p id="pp">We also redid headshots and our team photo, as everyone was present today and the previous image sizes were not appropriate for the wiki. We definitely like these ones, and it’s great to have the whole student side of the team together!</p>
 
<p id="pp">We also redid headshots and our team photo, as everyone was present today and the previous image sizes were not appropriate for the wiki. We definitely like these ones, and it’s great to have the whole student side of the team together!</p>
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<h6 style="padding-left:0;padding-top:20px;">Log entry</h6>
 
<h6 style="padding-left:0;padding-top:20px;">Log entry</h6>
 
<p id="pp">Joel finished the logo redesign today - this time, he based the logo idea on a power button, recreating that with DNA and an E. coli cell, as you can see below. We continued with the teal based colour scheme, as it’s a gentle colour which we all liked, and the grey-teal colour scheme on the wiki looks really good.</p>
 
<p id="pp">Joel finished the logo redesign today - this time, he based the logo idea on a power button, recreating that with DNA and an E. coli cell, as you can see below. We continued with the teal based colour scheme, as it’s a gentle colour which we all liked, and the grey-teal colour scheme on the wiki looks really good.</p>
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<p id="pp">The LB experiment Dan set up yesterday showed us that the chloramphenicol still functioned after one day, but all media was contaminated after two days. The DNase1 and Lysozyme transformations were unsuccessful again.</p>
 
<p id="pp">The LB experiment Dan set up yesterday showed us that the chloramphenicol still functioned after one day, but all media was contaminated after two days. The DNase1 and Lysozyme transformations were unsuccessful again.</p>
 
<p id="pp">Of the LB flasks prepared yesterday, three were inoculated with Killer Orange and one was used as a control. The OD was measured every hour, and the proteins were left to mature for an hour. The lab team spread plated the cultures and tested two in the light box, then placed the spread plates in the cold room so they can be tested on Monday. The transformed Killer Red plate was put in the cold room with them so it can be overnighted on Monday.</p>
 
<p id="pp">Of the LB flasks prepared yesterday, three were inoculated with Killer Orange and one was used as a control. The OD was measured every hour, and the proteins were left to mature for an hour. The lab team spread plated the cultures and tested two in the light box, then placed the spread plates in the cold room so they can be tested on Monday. The transformed Killer Red plate was put in the cold room with them so it can be overnighted on Monday.</p>
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<h6 style="padding-left:0;padding-top:20px;">Log entry</h6>
 
<h6 style="padding-left:0;padding-top:20px;">Log entry</h6>
 
<p id="pp">Today was the first day of team presentations at Westminster - we had our talk at 2:30, and Jack and Eloise did an amazing job of presenting our project to the other teams. Our human practises aspect of the project was received very well by the others teams, as indicated by speaking with them later and the tweets we got about it.</p>
 
<p id="pp">Today was the first day of team presentations at Westminster - we had our talk at 2:30, and Jack and Eloise did an amazing job of presenting our project to the other teams. Our human practises aspect of the project was received very well by the others teams, as indicated by speaking with them later and the tweets we got about it.</p>
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<p id="pp">It was great watching the other teams present and seeing how far they’ve come, and the guest speakers - Professor Jane Lewis (introduction), Dr Anatoliy Markiv (introduction), Edward Perello (CRISPR) and Dr Robert Smith (social and ethical dimensions of synthetic biology) - were all very interesting to listen to. We’re very much looking forward to tomorrow!</p>
 
<p id="pp">It was great watching the other teams present and seeing how far they’ve come, and the guest speakers - Professor Jane Lewis (introduction), Dr Anatoliy Markiv (introduction), Edward Perello (CRISPR) and Dr Robert Smith (social and ethical dimensions of synthetic biology) - were all very interesting to listen to. We’re very much looking forward to tomorrow!</p>
 
<p id="pp">Yesterday’s DNAse1 and Lysozyme transformations turned out to be successful, so they were overnighted. Dan inoculated the flasks prepared yesterday with Killer Red and Killer Orange and took OD readings on them - the cultures were then incubated at 37℃ and 220rpm overnight. The DNAse1 and Lysozyme colonies were also overnighted in the 37℃, non-shaking incubator.</p>
 
<p id="pp">Yesterday’s DNAse1 and Lysozyme transformations turned out to be successful, so they were overnighted. Dan inoculated the flasks prepared yesterday with Killer Red and Killer Orange and took OD readings on them - the cultures were then incubated at 37℃ and 220rpm overnight. The DNAse1 and Lysozyme colonies were also overnighted in the 37℃, non-shaking incubator.</p>
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<p id="pp">Today was our turn to sit back and observe - the team presentations were all fantastic, and guest speakers Dr Tom Ellis (balancing biology and engineering) and Dr Vitor Bernardes Pinheiro (directed evolution) both delivered fascinating talks.</p>
 
<p id="pp">Today was our turn to sit back and observe - the team presentations were all fantastic, and guest speakers Dr Tom Ellis (balancing biology and engineering) and Dr Vitor Bernardes Pinheiro (directed evolution) both delivered fascinating talks.</p>
 
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<p id="pp">We have organised a collaboration with the Glasgow iGEM team as a result of the Westminster meetup - we’ll be sending them Killer Red and Killer Orange transformed in E. coli DH5α cells to run some proof of concept tests for us, and they’ll be sending us Z1 lac-repressor E. coli strains to use in our kill switch experiments.</p>
 
<p id="pp">We have organised a collaboration with the Glasgow iGEM team as a result of the Westminster meetup - we’ll be sending them Killer Red and Killer Orange transformed in E. coli DH5α cells to run some proof of concept tests for us, and they’ll be sending us Z1 lac-repressor E. coli strains to use in our kill switch experiments.</p>
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<p id="pp">We mailed the Killer Orange spread plate to the Glasgow iGEM team for the collaboration, and they’ll be posting the Z1 lac-repressor E. coli strains to us tomorrow morning. Dr Tom Ellis responded to an email from Jack, giving his definition of a kill switch and bringing up potential ways to build upon the project if more time was available (like constructing an almost 100% efficient operon system).</p>
 
<p id="pp">We mailed the Killer Orange spread plate to the Glasgow iGEM team for the collaboration, and they’ll be posting the Z1 lac-repressor E. coli strains to us tomorrow morning. Dr Tom Ellis responded to an email from Jack, giving his definition of a kill switch and bringing up potential ways to build upon the project if more time was available (like constructing an almost 100% efficient operon system).</p>
 
<p id="pp">Joel designed a title banner for the wiki over the weekend which incorporated our colour scheme, logo and title (pictured just below).</p>
 
<p id="pp">Joel designed a title banner for the wiki over the weekend which incorporated our colour scheme, logo and title (pictured just below).</p>
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<p id="pp">Today’s lab team consisted of Dan, Emily, Pablo and Joel. They prepared cultures of Killer Red and Killer Orange for an upcoming experiment, and cleaned the mini stat chambers so they can be autoclaved and then used again.</p>
 
<p id="pp">Today’s lab team consisted of Dan, Emily, Pablo and Joel. They prepared cultures of Killer Red and Killer Orange for an upcoming experiment, and cleaned the mini stat chambers so they can be autoclaved and then used again.</p>
 
<p id="pp">They transformed DNAse1 and sent samples of the miniprep off for sequencing. They also prepared overnights of Killer Red and Killer Orange for repeat experiments, and performed overnights for the Interlab Study.</p>
 
<p id="pp">They transformed DNAse1 and sent samples of the miniprep off for sequencing. They also prepared overnights of Killer Red and Killer Orange for repeat experiments, and performed overnights for the Interlab Study.</p>

Latest revision as of 01:45, 20 October 2016