university of st andrews - international genetically engineered...
TRANSCRIPT
![Page 1: University of St Andrews - International Genetically Engineered …2012.igem.org/files/presentation/St_Andrews.pdf · 2012-10-19 · Team St Andrews thanks those who made our project](https://reader033.vdocuments.mx/reader033/viewer/2022052801/5f1768b3f58453599d7f1233/html5/thumbnails/1.jpg)
University of St AndrewsiGEM Team 2012
![Page 2: University of St Andrews - International Genetically Engineered …2012.igem.org/files/presentation/St_Andrews.pdf · 2012-10-19 · Team St Andrews thanks those who made our project](https://reader033.vdocuments.mx/reader033/viewer/2022052801/5f1768b3f58453599d7f1233/html5/thumbnails/2.jpg)
200719831957
All photos taken near Key West, Florida. Left to right: 1 & 2 Monroe County Library collection (Florida Keys) 3. Smithsonian Magazine (September 2008), Loren McClenachan
“Modern oceans have been so vastly altered by overexploitation of fishes as to be barely recognizable semblances of their pre-exploitation states.”
Callum Roberts 2007The Unnatural
History of the Sea
![Page 3: University of St Andrews - International Genetically Engineered …2012.igem.org/files/presentation/St_Andrews.pdf · 2012-10-19 · Team St Andrews thanks those who made our project](https://reader033.vdocuments.mx/reader033/viewer/2022052801/5f1768b3f58453599d7f1233/html5/thumbnails/3.jpg)
Fish depletion
Our model: “by 2100 only a fraction of today’s fish biomass will remain”
- Biodiversity loss- Food problem- Global omega-3 shortage
Model predictions for the future if we continue fishing at current rates
![Page 4: University of St Andrews - International Genetically Engineered …2012.igem.org/files/presentation/St_Andrews.pdf · 2012-10-19 · Team St Andrews thanks those who made our project](https://reader033.vdocuments.mx/reader033/viewer/2022052801/5f1768b3f58453599d7f1233/html5/thumbnails/4.jpg)
Modelling ω-3 fatty acid depletion
ω-3 fatty acid synthesis
re source
Metal binding proteins
Scientific impact of iGEM
Zoe Ashwood
![Page 5: University of St Andrews - International Genetically Engineered …2012.igem.org/files/presentation/St_Andrews.pdf · 2012-10-19 · Team St Andrews thanks those who made our project](https://reader033.vdocuments.mx/reader033/viewer/2022052801/5f1768b3f58453599d7f1233/html5/thumbnails/5.jpg)
Modelling fish population dynamics
![Page 6: University of St Andrews - International Genetically Engineered …2012.igem.org/files/presentation/St_Andrews.pdf · 2012-10-19 · Team St Andrews thanks those who made our project](https://reader033.vdocuments.mx/reader033/viewer/2022052801/5f1768b3f58453599d7f1233/html5/thumbnails/6.jpg)
Real-world fish biomass data
- 77 data points- 234 sets of data extrapolated and combined- 1932-2006 time series
![Page 7: University of St Andrews - International Genetically Engineered …2012.igem.org/files/presentation/St_Andrews.pdf · 2012-10-19 · Team St Andrews thanks those who made our project](https://reader033.vdocuments.mx/reader033/viewer/2022052801/5f1768b3f58453599d7f1233/html5/thumbnails/7.jpg)
Parameter tuning
Solid – model’s prediction of catch; Dots – real-world catch data
Solid – model’s prediction of biomass; Dots – real-world biomass data
![Page 8: University of St Andrews - International Genetically Engineered …2012.igem.org/files/presentation/St_Andrews.pdf · 2012-10-19 · Team St Andrews thanks those who made our project](https://reader033.vdocuments.mx/reader033/viewer/2022052801/5f1768b3f58453599d7f1233/html5/thumbnails/8.jpg)
Model’s biomass prediction
Model's prediction of world fish biomass (solid), as it changes throughout the years between 1950 and 2100; as well as biomass data (dots).
![Page 9: University of St Andrews - International Genetically Engineered …2012.igem.org/files/presentation/St_Andrews.pdf · 2012-10-19 · Team St Andrews thanks those who made our project](https://reader033.vdocuments.mx/reader033/viewer/2022052801/5f1768b3f58453599d7f1233/html5/thumbnails/9.jpg)
Alternative aquaculture scheme
Omega-3 flowWild: algae => fish => humans
Aquaculture: algae => fish => fish oil => farmed fish => humans
Fish meal is replaceable with non-fish products.
Fish oil contains omega-3: wild fish input required (at
present).
Substitute with synthetic omega-3
![Page 10: University of St Andrews - International Genetically Engineered …2012.igem.org/files/presentation/St_Andrews.pdf · 2012-10-19 · Team St Andrews thanks those who made our project](https://reader033.vdocuments.mx/reader033/viewer/2022052801/5f1768b3f58453599d7f1233/html5/thumbnails/10.jpg)
Omega-3: required production levels
Green: fish-free aquaculture (current output of farmed fish). Purple: fish-free aquaculture (increased output of farmed fish). Blue: world population provided with daily recommended intake of omega-3 of 500mg per day
![Page 11: University of St Andrews - International Genetically Engineered …2012.igem.org/files/presentation/St_Andrews.pdf · 2012-10-19 · Team St Andrews thanks those who made our project](https://reader033.vdocuments.mx/reader033/viewer/2022052801/5f1768b3f58453599d7f1233/html5/thumbnails/11.jpg)
Model’s biomass prediction (restricted catch)
Model predictions for the future if we continue fishing at current rates (dashed) and if we reform our aquaculture habits (orange)
![Page 12: University of St Andrews - International Genetically Engineered …2012.igem.org/files/presentation/St_Andrews.pdf · 2012-10-19 · Team St Andrews thanks those who made our project](https://reader033.vdocuments.mx/reader033/viewer/2022052801/5f1768b3f58453599d7f1233/html5/thumbnails/12.jpg)
Modelling ω-3 fatty acid depletion
ω-3 fatty acid synthesis
re source
Metal binding proteins
Scientific impact of iGEM
Josi Buerger
![Page 13: University of St Andrews - International Genetically Engineered …2012.igem.org/files/presentation/St_Andrews.pdf · 2012-10-19 · Team St Andrews thanks those who made our project](https://reader033.vdocuments.mx/reader033/viewer/2022052801/5f1768b3f58453599d7f1233/html5/thumbnails/13.jpg)
Synthesising the ω-3 pathway
Figure modified from Livore V., Tripodi K., Utarro A., 2007. Elongation of polyunsaturated fatty acids in trypanosomatids. FEBS Journal, 274:
264–274.
18:1$(9)$
18:2$(9,$12)$
18:3$(9,$12,$15)$
1$3
1$
3$ 5$ 7$ 9$
1$3
1$
3$ 5$ 7$ 9$
1$3
1$
3$ 5$ 7$ 9$
![Page 14: University of St Andrews - International Genetically Engineered …2012.igem.org/files/presentation/St_Andrews.pdf · 2012-10-19 · Team St Andrews thanks those who made our project](https://reader033.vdocuments.mx/reader033/viewer/2022052801/5f1768b3f58453599d7f1233/html5/thumbnails/14.jpg)
Results
Fatty Acid Methyl Ester (FAME) analysis by Gas Chromatography Mass Spectrometry (GC-MS)
![Page 15: University of St Andrews - International Genetically Engineered …2012.igem.org/files/presentation/St_Andrews.pdf · 2012-10-19 · Team St Andrews thanks those who made our project](https://reader033.vdocuments.mx/reader033/viewer/2022052801/5f1768b3f58453599d7f1233/html5/thumbnails/15.jpg)
Lipid analysis
![Page 16: University of St Andrews - International Genetically Engineered …2012.igem.org/files/presentation/St_Andrews.pdf · 2012-10-19 · Team St Andrews thanks those who made our project](https://reader033.vdocuments.mx/reader033/viewer/2022052801/5f1768b3f58453599d7f1233/html5/thumbnails/16.jpg)
Modelling ω-3 fatty acid depletion
ω-3 fatty acid synthesis
re source
Metal binding proteins
Scientific impact of iGEM
Josi Buerger
![Page 17: University of St Andrews - International Genetically Engineered …2012.igem.org/files/presentation/St_Andrews.pdf · 2012-10-19 · Team St Andrews thanks those who made our project](https://reader033.vdocuments.mx/reader033/viewer/2022052801/5f1768b3f58453599d7f1233/html5/thumbnails/17.jpg)
New Ni binding sequence
6 x HisGST
Short metal binding peptides
![Page 18: University of St Andrews - International Genetically Engineered …2012.igem.org/files/presentation/St_Andrews.pdf · 2012-10-19 · Team St Andrews thanks those who made our project](https://reader033.vdocuments.mx/reader033/viewer/2022052801/5f1768b3f58453599d7f1233/html5/thumbnails/18.jpg)
gBlocks
New Ni binding sequence
6 x HisGST
Precious))metal)scavenger)
Toxic)metal)scavenger)
1mbo
![Page 19: University of St Andrews - International Genetically Engineered …2012.igem.org/files/presentation/St_Andrews.pdf · 2012-10-19 · Team St Andrews thanks those who made our project](https://reader033.vdocuments.mx/reader033/viewer/2022052801/5f1768b3f58453599d7f1233/html5/thumbnails/19.jpg)
Modelling ω-3 fatty acid depletion
ω-3 fatty acid synthesis
re source
Metal binding proteins
Scientific impact of iGEM
Antti Korpimaki
![Page 20: University of St Andrews - International Genetically Engineered …2012.igem.org/files/presentation/St_Andrews.pdf · 2012-10-19 · Team St Andrews thanks those who made our project](https://reader033.vdocuments.mx/reader033/viewer/2022052801/5f1768b3f58453599d7f1233/html5/thumbnails/20.jpg)
Results summary
0"
20"
40"
60"
80"
100"
120"
140"
160"
180"
200"
2004" 2005" 2006" 2007" 2008" 2009" 2010" 2011"
Num
ber'o
f'
Year'
Teams"
Parts"submi6ed"(10s)"
Papers"men<oning"iGEM"
Papers"men<oning"Parts"Registry"
Papers"men<oning"specific"Registry"BioBricks"
![Page 21: University of St Andrews - International Genetically Engineered …2012.igem.org/files/presentation/St_Andrews.pdf · 2012-10-19 · Team St Andrews thanks those who made our project](https://reader033.vdocuments.mx/reader033/viewer/2022052801/5f1768b3f58453599d7f1233/html5/thumbnails/21.jpg)
iGEM – Registry relationship
![Page 22: University of St Andrews - International Genetically Engineered …2012.igem.org/files/presentation/St_Andrews.pdf · 2012-10-19 · Team St Andrews thanks those who made our project](https://reader033.vdocuments.mx/reader033/viewer/2022052801/5f1768b3f58453599d7f1233/html5/thumbnails/22.jpg)
Suggested citation style
Team, PartName, PartChassis, Date, [DOI or Link]
![Page 23: University of St Andrews - International Genetically Engineered …2012.igem.org/files/presentation/St_Andrews.pdf · 2012-10-19 · Team St Andrews thanks those who made our project](https://reader033.vdocuments.mx/reader033/viewer/2022052801/5f1768b3f58453599d7f1233/html5/thumbnails/23.jpg)
Conclusions re source
• Successfully modelled past and future fish biomass and our omega-3 requirement• Built part of the omega-3 pathway in E. Coli• Created novel metal binding peptide • Quantified iGEM impact
![Page 24: University of St Andrews - International Genetically Engineered …2012.igem.org/files/presentation/St_Andrews.pdf · 2012-10-19 · Team St Andrews thanks those who made our project](https://reader033.vdocuments.mx/reader033/viewer/2022052801/5f1768b3f58453599d7f1233/html5/thumbnails/24.jpg)
Our sponsors re source
Team St Andrews thanks those who made our project possible
Dr Markus Gierth, Adam Boggon, Dr Morven Shearer, Professor Gordon Bell, Jesse H. Ausubel, Jason Fontana, Twitter's Bootstrap, DTU-Denmark 2011 (iGEM team), School of Geography &
Geosciences, The Terry K. Smith Laboratory