Re: [DIYbio] Purchasing DNA synthesizer

Without any polymerase

ср, 10 авг. 2022 г., 12:06 Лангин Сергей <langinsergey@gmail.com>:

I think Mr. Koeng plans to make a chip with localized affinity for certain letters with using an autocatalytic reaction

вт, 9 авг. 2022 г., 22:51 Abizar Lakdawalla <abizarl@gmail.com>:

DNA writing has been the focus for a few for a while due to DNA based data storage, Twist is one, IDT also, Microsoft (https://www.microsoft.com/en-us/research/project/dna-storage/), Catalog (https://www.catalogdna.com/). There is quite a bit of money funding this, so hopefully some of it will come your way!

The reason I asked about chemical means of synthesis is it might be worthwhile checking enzymatic means of oligo synthesis such as DNAScript.

On Tue, Aug 9, 2022 at 11:52 AM Andrew Hessel <ahessel@gmail.com> wrote:

Great that DNA writing is popping up again. It's so foundational yet has received so much less attention than reading DNA. This said, making gene-length fragments is pretty standard and inexpensive these days and is offered by a spectrum of commercial groups. I don't recommend doing it at home/garage/etc if you're planning on working with proteins or short metabolic pathways just because of the economics. Your time and money are better spent on protein/metabolic engineering etc. Also, if you're planning on using older, organic chemistries to make DNA, keep in mind the chemicals required and waste products produced are not great to have around your home or garage. You may want to explore newer enzymatic-based chemistries coming online that are much greener. The idea of a chip-based oligo assembler has been around for a while but to my knowledge no one has been able to get it to work well -- it would be great to have this revisited, but I still would have the oligos pre-synthesized and focus mainly on getting the assembly processes working well. Note that chip-based foundry systems and chip-based test and measurement systems are getting a lot of attention these days. I point people to these two papers to get a sense of where things stand -- Venter's recent review of synbio -- pay particular attention to Figure 4, which describes Avery bio's chip-based DNA synthesis system -- and Roswell's description of their Molecular Electronic chip -- a general purpose, single molecule sensing platform. The problem of making long DNA assemblies necessary for synthetic genomes has not yet been solved. My baseline is E. coli K12 from ATCC, which retails for $400. The genome is about 4.5 megabases. At current synthesis prices, about $0.10 base, K12 would be a $450,000 print job. When it's $450 to print the genome -- and we have base-level control of the entire chromosome -- no one will order the microbe from ATCC again. I look forward to this day.

As Bryan says, onwards and upwards.

Cheers, Andrew

On Tue, Aug 9, 2022 at 5:05 AM Bryan Bishop <kanzure@gmail.com> wrote:

Thanks everyone. I am still around (and so is Nathan), and I actually sent an off-list email earlier indicating my interest in funding this project. Onwards and upwards,

- Bryan

https://twitter.com/kanzure

On Tue, Aug 9, 2022, 3:15 AM Brian Degger <brian.degger@gmail.com> wrote:

https://diyhpl.us/wiki/dna/dna-synthesis.html a the page Bryans on DNA Synth.

Otherwise, search the research papers on microfluidic dna synth. 

Cheers,

Brian

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