Literature DB >> 26396651

Recent advances and opportunities in synthetic logic gates engineering in living cells.

Vijai Singh1.   

Abstract

Recently, a number of synthetic biologic gates including AND, OR, NOR, NOT, XOR and NAND have been engineered and characterized in a wide range of hosts. The hope in the emerging synthetic biology community is to construct an inventory of well-characterized parts and install distinct gene and circuit behaviours that are externally controllable. Though the field is still growing and major successes are yet to emerge, the payoffs are predicted to be significant. In this review, we highlight specific examples of logic gates engineering with applications towards fundamental understanding of network complexity and generating a novel socially useful applications.

Entities:  

Keywords:  Gene networks; Gene regulation; Logic gate; Synthetic biology; Therapy

Year:  2014        PMID: 26396651      PMCID: PMC4571725          DOI: 10.1007/s11693-014-9154-6

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


  67 in total

1.  Rewiring MAP kinase pathways using alternative scaffold assembly mechanisms.

Authors:  Sang-Hyun Park; Ali Zarrinpar; Wendell A Lim
Journal:  Science       Date:  2003-01-02       Impact factor: 47.728

2.  Distributed biological computation with multicellular engineered networks.

Authors:  Sergi Regot; Javier Macia; Núria Conde; Kentaro Furukawa; Jimmy Kjellén; Tom Peeters; Stefan Hohmann; Eulàlia de Nadal; Francesc Posas; Ricard Solé
Journal:  Nature       Date:  2010-12-08       Impact factor: 49.962

Review 3.  Riboswitches as antibacterial drug targets.

Authors:  Kenneth F Blount; Ronald R Breaker
Journal:  Nat Biotechnol       Date:  2006-12       Impact factor: 54.908

4.  Thiamine derivatives bind messenger RNAs directly to regulate bacterial gene expression.

Authors:  Wade Winkler; Ali Nahvi; Ronald R Breaker
Journal:  Nature       Date:  2002-10-16       Impact factor: 49.962

5.  Designable DNA-binding domains enable construction of logic circuits in mammalian cells.

Authors:  Rok Gaber; Tina Lebar; Andreja Majerle; Branko Šter; Andrej Dobnikar; Mojca Benčina; Roman Jerala
Journal:  Nat Chem Biol       Date:  2014-01-12       Impact factor: 15.040

Review 6.  Genetic modification of critical enzymes and involved genes in butanol biosynthesis from biomass.

Authors:  He Huang; Hui Liu; Yi-Ru Gan
Journal:  Biotechnol Adv       Date:  2010-05-24       Impact factor: 14.227

Review 7.  Opportunities for yeast metabolic engineering: Lessons from synthetic biology.

Authors:  Anastasia Krivoruchko; Verena Siewers; Jens Nielsen
Journal:  Biotechnol J       Date:  2011-02-16       Impact factor: 4.677

Review 8.  Progress in metabolic engineering of Saccharomyces cerevisiae.

Authors:  Elke Nevoigt
Journal:  Microbiol Mol Biol Rev       Date:  2008-09       Impact factor: 11.056

9.  Engineering modular and orthogonal genetic logic gates for robust digital-like synthetic biology.

Authors:  Baojun Wang; Richard I Kitney; Nicolas Joly; Martin Buck
Journal:  Nat Commun       Date:  2011-10-18       Impact factor: 14.919

10.  A fast, robust and tunable synthetic gene oscillator.

Authors:  Jesse Stricker; Scott Cookson; Matthew R Bennett; William H Mather; Lev S Tsimring; Jeff Hasty
Journal:  Nature       Date:  2008-10-29       Impact factor: 49.962

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  9 in total

Review 1.  The application of powerful promoters to enhance gene expression in industrial microorganisms.

Authors:  Shenghu Zhou; Guocheng Du; Zhen Kang; Jianghua Li; Jian Chen; Huazhong Li; Jingwen Zhou
Journal:  World J Microbiol Biotechnol       Date:  2017-01-02       Impact factor: 3.312

2.  Development of mammalian cell logic gates controlled by unnatural amino acids.

Authors:  Emily M Mills; Victoria L Barlow; Arwyn T Jones; Yu-Hsuan Tsai
Journal:  Cell Rep Methods       Date:  2021-09-16

3.  Multiplexed drug-based selection and counterselection genetic manipulations in Drosophila.

Authors:  Nick Matinyan; Mansi S Karkhanis; Yezabel Gonzalez; Antrix Jain; Alexander Saltzman; Anna Malovannaya; Alejandro Sarrion-Perdigones; Herman A Dierick; Koen J T Venken
Journal:  Cell Rep       Date:  2021-09-14       Impact factor: 9.423

Review 4.  Clues to the function of bacterial microcompartments from ancillary genes.

Authors:  Henning Kirst; Cheryl A Kerfeld
Journal:  Biochem Soc Trans       Date:  2021-06-30       Impact factor: 4.919

Review 5.  Intracellular delivery of biologic therapeutics by bacterial secretion systems.

Authors:  Barnabas James Walker; Guy-Bart V Stan; Karen Marie Polizzi
Journal:  Expert Rev Mol Med       Date:  2017-04-06       Impact factor: 5.600

6.  Designing miRNA-Based Synthetic Cell Classifier Circuits Using Answer Set Programming.

Authors:  Katinka Becker; Hannes Klarner; Melania Nowicka; Heike Siebert
Journal:  Front Bioeng Biotechnol       Date:  2018-06-22

Review 7.  Exploring the Potential of Cell-Free Protein Synthesis for Extending the Abilities of Biological Systems.

Authors:  Khushal Khambhati; Gargi Bhattacharjee; Nisarg Gohil; Darren Braddick; Vishwesh Kulkarni; Vijai Singh
Journal:  Front Bioeng Biotechnol       Date:  2019-10-11

8.  Reprogrammed tracrRNAs enable repurposing of RNAs as crRNAs and sequence-specific RNA biosensors.

Authors:  Filipe Pinto; Xinyi Wan; Yang Liu; Zhugen Yang; Shuguang Peng; Mengxi Li; Jonathan M Cooper; Zhen Xie; Christopher E French; Baojun Wang
Journal:  Nat Commun       Date:  2022-04-11       Impact factor: 14.919

Review 9.  Bacterial transmembrane signalling systems and their engineering for biosensing.

Authors:  Kirsten Jung; Florian Fabiani; Elisabeth Hoyer; Jürgen Lassak
Journal:  Open Biol       Date:  2018-04       Impact factor: 6.411

  9 in total

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