Team:Korea U Seoul/Notebook sub

Meeting

- First meeting with 2014 kuas team members. Discussed about what is kuas, synthetic biology and igem.

Information

- Synthetic biology homepage : http://syntheticbiology.org

- Part legistry page : http://part.igem.org

Homework

- investigate about subject of2008, 2009 igem teams investigate about subject of 2008, 2009 igem teams

Study of igem 2008~2009 colleges

1. Minseob - cell to cell communication

- Outer membrane vesicles (OMV) : gram negative bacteria like E. coli have Outer membrane vesicles (OMV), which can transfer toxin to other bacteria or host strains. Omv is composed of bi-lipid layer with water soluble core, so it can transfer both water soluble materials and lipid soluble materials. Omv is a strong candidate in long-distance messaging.

2. Hyeyeong -sensitivity tuners, color generator

- Different color expression by density

3. Juyoung –biosensor by density

- Check the expression by density divided strong, wild, weak Lock & key, Jammer

4. Heonsong – estimating stress by promoter & microorganism which can produce materials when get some light.

- Formation of hybrid-promoter, light-sensing, biomaterial production

5. Jihee- Biothermometer using RNA, not protein

- RNA double helix come untied when increase the heat.

6. Kyugin- treat for kidney disease

- using NhaA, Urea sensor

Tips of instrutor

1. Categorize the theme.
2. Regulate the level.
3. Refer other colleges access methods.

Discussion of direction

1. Take category- one of food/energy, environment, manufacturing.
2. Investigate some ideas food & energy part until 2013.12.23

Study presentation

1. JUYOUNG

- Siderosphore : Fe3+ absorb, high reducing agent. =>use ocean microbes to greenhouse effect, pathogen control, biofuel

- Degradation Aplatoxin

2. MINSEOB

- GABA : neuro-material.

- T3SS(Type 3 secretion system) : related to plant immunity. Mechanism has been found.

- Pathogen microorganism sensor : use metabolic product as marker like enterotoxin or virulence factor

- PCN(antifungal product)

- Shiga toxin producing E. coli : can develop to cell to cell communication. Herein.

- checker of cosmetics: ex) PH sensor

3. JIHEE

- dye : E. coli producing indigo

- Pectinase+ beta-chrotin, E. coli producing 3-4 nutrients-> making juice

4. HYEYEONG

- bio-filter

- removal odors of food junks : ex)remove pathogenity.

- Soil sensor

Next week

• minseob- GABA, Shiga toxin, components of cosmetics
• jihee- effectiveness of making juice
• hyeyeong- effectiveness of removing bad smells and probability of removing pathogenity
• juyeong- about iron ion, removing ground torpedo microbes

About ideas

1. JUYOUNG

- extension of siderosphore idea

2. MINSEOB

- papers of Sigatoxin

3. JIHEE

- papers about pection production

4. HYEYEONG

- papers of streptomycetes, actinomycetes

Next week

• kyungwoo- feedback to papers
• others- get feedbacks and more study about each idea.

Schedule

Fix idea until middle of January

Accounts

Presentation of ideas

1. JUYOUNG

- Siderophore : absorb iron ion FUR system ) Ferric Uptake Regulator.

- Aflatoxin

2. MINSEOB

- Shiga toxin @ shiga toxin producing E. coli: cause hemolytic-uremic syndrome (Proprotein convertases :change proprotein to protein )

- Messages in a bubble : outer membrane vesicle (OMV)

- Collaboration : proprotein caspases (one of serine proteases, subtilisin serine proteases) , send subtilisin to STEC (destroyed shiga toxin will be sent to eukaryotic, but it won’t work. )

- Develop experiments of Paris

3. JIHEE

- pectinase production from E. coli

- Cellulase+pectinase-> more degradation of pulp

- Use residuum of fruits by pectinase

4. HYEYEONG

- Removing bad smells of food junks

- the main components of bad smells include nitrogen->regulate metabolism

5. HYUKJIN

- Cellulolytic E. coli : cellulose-> oligo-saccharides-> disaccharide -> glucose(Use ocean microbes which can degrade cellulose to disaccharides, Regulating promoter for find ultimate media.)

- Filamentus bacteria phage

- C. glutamioum: agarose fili designing: new microbes, not E. coli

Next week

• Proteins which can attach to filamentus bacteria phage

Dine together: Le’guette 60500 korean dollars

discussion

1. OMV
2. Agarose
3. Bio informatics
4. Micro Dynamics

discussion

1. OMV dynamics
2. Reappearance experiment -OMV
3. Targeting -OMV
4. Agarase + other enzyme metabolic pathway
5. Cellulose degradation –agarose degradation

Ideas

1. OMV reservation
2. Circular per-mutation protein

- advantage : high effectiveness

- high tolerance enzyme : endothermic

- new substrate-specificity expression

Human practice

Apply Univ-expo

Next week

1. minseob –study the structure, what kind of protein we will attach

NGS

Hyukjjin’s presentation

Enzyme fuel cell

reference

1. http://www.sony.net/SonyInfo/csr/SonyEnvironment/technology/bio_battery2.html
2. http://www.nature.com/ncomms/2014/140121/ncomms4026/full/ncomms4026.html
3. https://2013.igem.org/Team:Bielefeld-Germany

Apply Univ-expo

Human practice

1. Waiting contact from Univ EXPO.

Ideas

1. Kyungwoo - Microbial behavior control

Next week

1. Evolutionary dynamics study