Literature DB >> 19083123

Stabilizing synthetic data in the DNA of living organisms.

Nozomu Yachie1, Yoshiaki Ohashi, Masaru Tomita.   

Abstract

Data-encoding synthetic DNA, inserted into the genome of a living organism, is thought to be more robust than the current media. Because the living genome is duplicated and copied into new generations, one of the merits of using DNA material is long-term data storage within heritable media. A disadvantage of this approach is that encoded data can be unexpectedly broken by mutation, deletion, and insertion of DNA, which occurs naturally during evolution and prolongation, or laboratory experiments. For this reason, several information theory-based approaches have been developed as an error check of broken DNA data in order to achieve data durability. These approaches cannot efficiently recover badly damaged data-encoding DNA. We recently developed a DNA data-storage approach based on the multiple sequence alignment method to achieve a high level of data durability. In this paper, we overview this technology and discuss strategies for optimal application of this approach.

Entities:  

Year:  2008        PMID: 19083123      PMCID: PMC2671590          DOI: 10.1007/s11693-008-9020-5

Source DB:  PubMed          Journal:  Syst Synth Biol        ISSN: 1872-5325


  21 in total

1.  Genome sequencing in microfabricated high-density picolitre reactors.

Authors:  Marcel Margulies; Michael Egholm; William E Altman; Said Attiya; Joel S Bader; Lisa A Bemben; Jan Berka; Michael S Braverman; Yi-Ju Chen; Zhoutao Chen; Scott B Dewell; Lei Du; Joseph M Fierro; Xavier V Gomes; Brian C Godwin; Wen He; Scott Helgesen; Chun Heen Ho; Chun He Ho; Gerard P Irzyk; Szilveszter C Jando; Maria L I Alenquer; Thomas P Jarvie; Kshama B Jirage; Jong-Bum Kim; James R Knight; Janna R Lanza; John H Leamon; Steven M Lefkowitz; Ming Lei; Jing Li; Kenton L Lohman; Hong Lu; Vinod B Makhijani; Keith E McDade; Michael P McKenna; Eugene W Myers; Elizabeth Nickerson; John R Nobile; Ramona Plant; Bernard P Puc; Michael T Ronan; George T Roth; Gary J Sarkis; Jan Fredrik Simons; John W Simpson; Maithreyan Srinivasan; Karrie R Tartaro; Alexander Tomasz; Kari A Vogt; Greg A Volkmer; Shally H Wang; Yong Wang; Michael P Weiner; Pengguang Yu; Richard F Begley; Jonathan M Rothberg
Journal:  Nature       Date:  2005-07-31       Impact factor: 49.962

2.  Combining two genomes in one cell: stable cloning of the Synechocystis PCC6803 genome in the Bacillus subtilis 168 genome.

Authors:  Mitsuhiro Itaya; Kenji Tsuge; Maki Koizumi; Kyoko Fujita
Journal:  Proc Natl Acad Sci U S A       Date:  2005-10-18       Impact factor: 11.205

3.  Alignment-based approach for durable data storage into living organisms.

Authors:  Nozomu Yachie; Kazuhide Sekiyama; Junichi Sugahara; Yoshiaki Ohashi; Masaru Tomita
Journal:  Biotechnol Prog       Date:  2007-01-25

Review 4.  Advanced sequencing technologies and their wider impact in microbiology.

Authors:  Neil Hall
Journal:  J Exp Biol       Date:  2007-05       Impact factor: 3.312

5.  Genomes for all.

Authors:  George M Church
Journal:  Sci Am       Date:  2006-01       Impact factor: 2.142

6.  Watermarking sexually reproducing diploid organisms.

Authors:  Dominik Heider; Daniel Kessler; Angelika Barnekow
Journal:  Bioinformatics       Date:  2008-07-03       Impact factor: 6.937

Review 7.  Recombinational repair of DNA damage in Escherichia coli and bacteriophage lambda.

Authors:  A Kuzminov
Journal:  Microbiol Mol Biol Rev       Date:  1999-12       Impact factor: 11.056

8.  Bottom-up genome assembly using the Bacillus subtilis genome vector.

Authors:  Mitsuhiro Itaya; Kyoko Fujita; Azusa Kuroki; Kenji Tsuge
Journal:  Nat Methods       Date:  2007-12-09       Impact factor: 28.547

9.  DNA-based watermarks using the DNA-Crypt algorithm.

Authors:  Dominik Heider; Angelika Barnekow
Journal:  BMC Bioinformatics       Date:  2007-05-29       Impact factor: 3.169

10.  The Genomes On Line Database (GOLD) in 2007: status of genomic and metagenomic projects and their associated metadata.

Authors:  Konstantinos Liolios; Konstantinos Mavromatis; Nektarios Tavernarakis; Nikos C Kyrpides
Journal:  Nucleic Acids Res       Date:  2007-11-02       Impact factor: 16.971

View more
  4 in total

Review 1.  Trends to store digital data in DNA: an overview.

Authors:  Fatima Akram; Ikram Ul Haq; Haider Ali; Aiman Tahir Laghari
Journal:  Mol Biol Rep       Date:  2018-08-02       Impact factor: 2.316

2.  DNA-LCEB: a high-capacity and mutation-resistant DNA data-hiding approach by employing encryption, error correcting codes, and hybrid twofold and fourfold codon-based strategy for synonymous substitution in amino acids.

Authors:  Ibbad Hafeez; Asifullah Khan; Abdul Qadir
Journal:  Med Biol Eng Comput       Date:  2014-09-07       Impact factor: 2.602

Review 3.  New Trends of Digital Data Storage in DNA.

Authors:  Pavani Yashodha De Silva; Gamage Upeksha Ganegoda
Journal:  Biomed Res Int       Date:  2016-09-05       Impact factor: 3.411

4.  A covert authentication and security solution for GMOs.

Authors:  Siguna Mueller; Farhad Jafari; Don Roth
Journal:  BMC Bioinformatics       Date:  2016-09-21       Impact factor: 3.169

  4 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.