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The DNA computer : super hard drive of the future ?

Lennart Hilbert
Lennart Hilbert
Professor of Bioinformatics and Systems Biology at Karlsruhe Institute of Technology
Key takeaways
  • DNA computers exploit the computational capacities of cells by replacing the binary code (0 and 1) with a four-unit code: ATCG.
  • Although DNA is a biodegradable material, DNA computers will not replace silicon chips, not least because of the challenges involved in reading and writing them.
  • DNA computers offer more durable and dense information storage, but their potential goes beyond that by using enzymes and cellular machinery.
  • Research into DNA computers could shed light on the functioning of living organisms, even if this technology is still not fully developed.
  • DNA computing raises major ethical issues, with its potential for transhumanism but also for the likely “invisibility” of its use.

Living com­pu­ters are the pro­mise of DNA com­pu­ting. This tech­no­lo­gy pro­poses to exploit the com­pu­ta­tio­nal capa­bi­li­ties of cells, repla­cing sili­con sys­tems with bio­tech­no­lo­gy. Although the approach is still in its infan­cy, it is alrea­dy arou­sing a mix­ture of won­der and fear.

TRUE – By replacing the binary code, with its 0s and 1s, with a four-unit code, ATCG, we can create a DNA computer.

There are the four sym­bols, based on the nucleo­tide bases, which are the mole­cules that consti­tute the DNA alpha­bet. A for ade­nine, T for thy­mine, C for cyto­sine and G for gua­nine. So, just as we code in bina­ry (0, 1) by playing on the dif­fe­rence in elec­tri­cal charge, we can encode infor­ma­tion in A, T, C and G. In prin­ciple, the concept not par­ti­cu­lar­ly com­pli­ca­ted to do. The proof : in 2020, Twist Bios­cience, an Ame­ri­can com­pa­ny spe­cia­li­sing in DNA syn­the­sis, Net­flix and the Zurich Poly­tech­nic announ­ced that they had enco­ded the entire Ger­man series Bio­ha­ckers – which centres its plot on the world of syn­the­tic bio­lo­gy – on only a few strands of DNA. A cut­ting-edge com­mu­ni­ca­tions coup !

FALSE – DNA computers are just storage systems.

In fact, in terms of sto­rage, DNA com­pu­ters are much bet­ter than elec­tro­nic sys­tems. DNA stores infor­ma­tion for thou­sands, even mil­lions of years without any ener­gy input. Fos­sil DNA, for example, has shown us this. So, in that sense, it is a more sus­tai­nable solu­tion, with grea­ter infor­ma­tion den­si­ty and bio­de­gra­da­bi­li­ty. But the tech­no­lo­gy will not stop there. With an enzyme that can edit bases, a DNA sequence and cel­lu­lar machi­ne­ry that reads DNA and pro­duces bio­lo­gi­cal mole­cules, we alrea­dy have a DNA com­pu­ter. The real chal­lenge is the archi­tec­ture of such sys­tems. Lest we for­get John von Neu­mann, the Hun­ga­rian-Ame­ri­can mathe­ma­ti­cian who enabled modern com­pu­ting to emerge by inven­ting an archi­tec­ture enabling pro­ces­sors to com­mu­ni­cate with ran­dom access memo­ry (RAM) when he was a consul­tant at IBM. This is what DNA com­pu­ters need today : an architecture.

DNA mole­cules are memo­ries. As far as pro­ces­sors are concer­ned, recent work has high­ligh­ted ‘trans­cript hubs’ in stem cells, i.e. regions concen­tra­ting a large num­ber of sys­tems for rea­ding and control­ling DNA machi­ne­ry. These regions are lin­ked to the orga­ni­sa­tion of DNA in space, to the way in which dis­tant sequences of the genome can come toge­ther when the DNA strand folds. They are like the micro­pro­ces­sors in DNA com­pu­ters, which can control both access to and the rea­ding of dif­ferent regions of the genome. Thanks to this dis­co­ve­ry, we can ima­gine that within 10 or 20 years, labo­ra­to­ries will have real demons­tra­tors of bio­lo­gi­cal computers.

TRUE & FALSE – DNA computing will lead to more sustainable electronics.

DNA is a bio­de­gra­dable mate­rial. Howe­ver, DNA com­pu­ters will never enti­re­ly replace sili­con chips. We won’t see DNA tele­phones, for example. This is because to read infor­ma­tion in DNA with cur­rent sequen­cing tech­niques we must extract the gene­tic mate­rial from the sample and the­re­fore des­troy the chip or cell that contai­ned it. What’s more, to encode the infor­ma­tion requires syn­the­tic bio­lo­gy, which is time-consu­ming, cost­ly, and dif­fi­cult to gene­rate long frag­ments. A great deal of research is nee­ded to improve these processes.

TRUE – DNA computers will help us to unlock the secret of life.

In any case, the research that needs to be car­ried out to ima­gine DNA com­pu­ters will be very ins­truc­tive about how living things work. In this sense, even if this tech­no­lo­gy never comes to frui­tion, it will advance our unders­tan­ding of life. In the same way that the steam engine made it pos­sible to mas­ter the laws of ther­mo­dy­na­mics, DNA com­pu­ters will help us to unders­tand the ther­mo­dy­na­mics of life.

TRUE & UNCERTAIN – This technology will help us communicate with other life forms.

Pro­gram­ming a cell is a way of tal­king to a life form. By pro­du­cing trans­mis­sible trans­for­ma­tions in these DNA com­pu­ters, we will be able to com­mu­ni­cate with living beings over seve­ral gene­ra­tions. DNA is a uni­ver­sal lan­guage bet­ween spe­cies on Earth. In this sense, isn’t rea­ding the DNA of an extinct spe­cies a form of com­mu­ni­ca­tion, even if it is one-way ? Howe­ver, the lan­guage of living things is not like a human lan­guage. We shouldn’t hold out too much hope that we can crack jokes with trees or talk to a wool­ly mam­moth as if we were tal­king to our dog.

UNCERTAIN – With this technology, we are going to go beyond biology, create a supra-biology that verges on transhumanism.

DNA com­pu­ting has the poten­tial, yes. But is it accep­table ? Just because we have the power to do some­thing doesn’t mean we should. Pur­pose is a bioe­thi­cal issue that must not be igno­red while we deve­lop this tech­no­lo­gy. And this ques­tion is all the more impor­tant because most DNA com­pu­ters will not be visible. It will be hid­den inside cells, simi­lar to those that make up our bodies. Only spe­cia­lists will reco­gnise the pre­sence of DNA computers. 

Agnès Vernet

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