64
edits
Changes
Jump to navigation
Jump to search
Created page with "Biology Team's Pilot Project ==SSI Bio 2016 Pilot Project== SSI Bio is launching with the DNA synthesizer as their primary project. ==Components of the Synthesis Project== S..."
Biology Team's Pilot Project
==SSI Bio 2016 Pilot Project==
SSI Bio is launching with the DNA synthesizer as their primary project.
==Components of the Synthesis Project==
SSI Bio will be breaking up this DNA synthesizer project into several smaller subteams to tackle the several different systems needed
===Enzymatic Synthesis Chemistry===
Enzymatic DNA synthesis would be a great way to synthesize DNA in space, for the following reasons:
====Safety, Non-flammability, Non-toxicity====
Most enzymatic reagents could in theory be aqueous solutions, unlike the acetonitrile organic solvents typically used in phosphoramidite chemistry.
====Recyclability, creation on site====
If most of the reagents used are enzymes, then in theory these enzymes could be made by bacteria and then purified on site. This might mean that reagents could be produced, and modified, by the machine itself.
====Improved speed and efficiency====
It may be possible that an enzymatic method could improve the speed and efficiency with which this reaction takes place. This would be split into two effects. First, being able to make longer strands of DNA (oligonucleotides) would mean that the final product could be composed of fewer parts, which makes the creation of algorithms and strategies for reassembling this DNA to become much easier. Second, being able to make longer strands of DNA faster would cut down substantially on the complexity and time involved with synthesizing DNA.
===Safe Phosphoramidite Chemistry===
A more conventional alternative to aiming for enzymatic synthesis would be to try to adjust conventional phosphoramidite chemistry to be safer for use in space. This might involve creating a system that can synthesize DNA using safer organic solvents and less toxic reagents.
===Microfluidic Synthesizer Design===
To fit all of these fluidic parts into a small enough payload, we have to make everything quite small. Microfluidics is a good way to do this.
===Reassembly Chemistry and Algorithm===
===DNA Product Verification===
Once a strand of DNA is made, we will need to check to make sure that it is the correct desired sequence.
==Effects of Space on Synthesizer==
===Payload Size and Power constraints===
We'd like to fit our synthesizer into a 10 centimeter cube, so that it could be launched on a [https://en.wikipedia.org/wiki/CubeSat CubeSat] or another standardized research payload.
===What kind of shielding do we need?===
We're not sure what kind of shielding we need! UV radiation can have damage DNA through a process called [https://en.wikipedia.org/wiki/Direct_DNA_damage Direct DNA damage] that can lead to thymine or pyrimidine dimers. This is what causes sunburn, and it's why your skin can tan to help block out UVB.
====Communication from Device====
Depending on our strategy for launching to space, communication from our device to some sort of receiver we can listen to involves a number of interesting questions. How do we return the message that synthesis has been carried out successfully? Will the message describe the sequence of the product created, or a simple boolean yes or no?
==History of DNA synthesizer idea in SSI==
The idea of a DNA synthesizer for space has been floating around SSI for some time. [[John Cumbers - Synthetic Biology | One of the earliest recordings stretches back to 2013, in a talk given John Cumbers.]] John Cumbers was also consulted during the initial conception and planning of the project in the summer of 2015.
==SSI Bio 2016 Pilot Project==
SSI Bio is launching with the DNA synthesizer as their primary project.
==Components of the Synthesis Project==
SSI Bio will be breaking up this DNA synthesizer project into several smaller subteams to tackle the several different systems needed
===Enzymatic Synthesis Chemistry===
Enzymatic DNA synthesis would be a great way to synthesize DNA in space, for the following reasons:
====Safety, Non-flammability, Non-toxicity====
Most enzymatic reagents could in theory be aqueous solutions, unlike the acetonitrile organic solvents typically used in phosphoramidite chemistry.
====Recyclability, creation on site====
If most of the reagents used are enzymes, then in theory these enzymes could be made by bacteria and then purified on site. This might mean that reagents could be produced, and modified, by the machine itself.
====Improved speed and efficiency====
It may be possible that an enzymatic method could improve the speed and efficiency with which this reaction takes place. This would be split into two effects. First, being able to make longer strands of DNA (oligonucleotides) would mean that the final product could be composed of fewer parts, which makes the creation of algorithms and strategies for reassembling this DNA to become much easier. Second, being able to make longer strands of DNA faster would cut down substantially on the complexity and time involved with synthesizing DNA.
===Safe Phosphoramidite Chemistry===
A more conventional alternative to aiming for enzymatic synthesis would be to try to adjust conventional phosphoramidite chemistry to be safer for use in space. This might involve creating a system that can synthesize DNA using safer organic solvents and less toxic reagents.
===Microfluidic Synthesizer Design===
To fit all of these fluidic parts into a small enough payload, we have to make everything quite small. Microfluidics is a good way to do this.
===Reassembly Chemistry and Algorithm===
===DNA Product Verification===
Once a strand of DNA is made, we will need to check to make sure that it is the correct desired sequence.
==Effects of Space on Synthesizer==
===Payload Size and Power constraints===
We'd like to fit our synthesizer into a 10 centimeter cube, so that it could be launched on a [https://en.wikipedia.org/wiki/CubeSat CubeSat] or another standardized research payload.
===What kind of shielding do we need?===
We're not sure what kind of shielding we need! UV radiation can have damage DNA through a process called [https://en.wikipedia.org/wiki/Direct_DNA_damage Direct DNA damage] that can lead to thymine or pyrimidine dimers. This is what causes sunburn, and it's why your skin can tan to help block out UVB.
====Communication from Device====
Depending on our strategy for launching to space, communication from our device to some sort of receiver we can listen to involves a number of interesting questions. How do we return the message that synthesis has been carried out successfully? Will the message describe the sequence of the product created, or a simple boolean yes or no?
==History of DNA synthesizer idea in SSI==
The idea of a DNA synthesizer for space has been floating around SSI for some time. [[John Cumbers - Synthetic Biology | One of the earliest recordings stretches back to 2013, in a talk given John Cumbers.]] John Cumbers was also consulted during the initial conception and planning of the project in the summer of 2015.