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In vivo multi-dimensional information-keeping in Halobacterium salinarum

J. Davis, A. Bisson-Filho, D. Kadyrov, T. M. De Kort, M. T. Biamonte, M. Thattai, S. Thutupalli, G. M. Church
doi: https://doi.org/10.1101/2020.02.14.949925
J. Davis
1Department of Genetics, Blavatnik Institute, Harvard Medical School, Brandeis University, Waltham, MA 02454
2Department of Biology, Massachusetts Institute of Technology, Brandeis University, Waltham, MA 02454
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  • For correspondence: Jdavis@genetics.med.harvard.edu gchurch@genetics.med.harvard.edu
A. Bisson-Filho
3Department of Biology, Rosenstiel Basic Medical Science Research Center, Brandeis University, Waltham, MA 02454
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D. Kadyrov
4SkBiolab, Technopark Skolkovo, Skolkovo Innovation center, Moscow 143026, Russia
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T. M. De Kort
5Biosciences Master’s programme Molecular & Cellular Life Sciences, Faculty of Science, Utrecht University, Utrecht, the Netherlands
1Department of Genetics, Blavatnik Institute, Harvard Medical School, Brandeis University, Waltham, MA 02454
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M. T. Biamonte
6Department of Mathematics, Massachusetts Institute of Technology, Cambridge, MA 02139
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M. Thattai
7Simons Centre for the Study of Living Machines, National Centre for Biological Sciences, Tata Institute of Fundamental Research, Bengaluru 560065, India
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S. Thutupalli
7Simons Centre for the Study of Living Machines, National Centre for Biological Sciences, Tata Institute of Fundamental Research, Bengaluru 560065, India
8International Centre for Theoretical Sciences, Tata Institute of Fundamental Research, Bengaluru 560089, India
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G. M. Church
1Department of Genetics, Blavatnik Institute, Harvard Medical School, Brandeis University, Waltham, MA 02454
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  • For correspondence: Jdavis@genetics.med.harvard.edu gchurch@genetics.med.harvard.edu
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Abstract

Shortage of raw materials needed to manufacture components for silicon-based digital memory storage has led to a search for alternatives, including systems for storing texts, images, movies and other forms of information in DNA. Use of DNA as a medium for storage of 3-D information has also been investigated. However, two problems have yet to be addressed: first, storage of 3-D information in DNA has used objects and coding schemes which require large volumes of data; second, the medium used for DNA information-keeping has been inconsistent with qualities needed for long-term data storage. Here, we address these problems. First, we created in vivo DNA-encoded digital archives holding precise specifications for 3- and 4-dimensional figures with unprecedented efficiency. Second, we have demonstrated more robust and longer-lasting information-carriers than earlier repositories for DNA-based data archives by inserting digital information into the halophile, Halobacterium salinarum, an extremophilic archaeon. We then embedded Information-keeping halophiles into crystalline mineral salts in which similar organisms have been shown to persist in stasis for hundreds of millions of years. We propose that digital information archives composed in 3 or more dimensions may be inserted into halophilic organisms and preserved intact for indefinite periods of time.

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Posted February 15, 2020.
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In vivo multi-dimensional information-keeping in Halobacterium salinarum
J. Davis, A. Bisson-Filho, D. Kadyrov, T. M. De Kort, M. T. Biamonte, M. Thattai, S. Thutupalli, G. M. Church
bioRxiv 2020.02.14.949925; doi: https://doi.org/10.1101/2020.02.14.949925
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In vivo multi-dimensional information-keeping in Halobacterium salinarum
J. Davis, A. Bisson-Filho, D. Kadyrov, T. M. De Kort, M. T. Biamonte, M. Thattai, S. Thutupalli, G. M. Church
bioRxiv 2020.02.14.949925; doi: https://doi.org/10.1101/2020.02.14.949925

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