Synthetic alienation of microbial organisms by using genetic code engineering: Why and how?

Vladimir Kubyshkin; Nediljko Budisa

doi:10.1002/biot.201600097

journal article Jul 03, 2017

Synthetic alienation of microbial organisms by using genetic code engineering: Why and how?

Vladimir Kubyshkin

Nediljko Budisa

Biotechnology Journal Vol. 12 No. 8 · Wiley

View at Publisher Save 10.1002/biot.201600097

Abstract

AbstractThe main goal of synthetic biology (SB) is the creation of biodiversity applicable for biotechnological needs, while xenobiology (XB) aims to expand the framework of natural chemistries with the non‐natural building blocks in living cells to accomplish artificial biodiversity. Protein and proteome engineering, which overcome limitation of the canonical amino acid repertoire of 20 (+2) prescribed by the genetic code by using non‐canonic amino acids (ncAAs), is one of the main focuses of XB research. Ideally, estranging the genetic code from its current form via systematic introduction of ncAAs should enable the development of bio‐containment mechanisms in synthetic cells potentially endowing them with a “genetic firewall” i.e. orthogonality which prevents genetic information transfer to natural systems. Despite rapid progress over the past two decades, it is not yet possible to completely alienate an organism that would use and maintain different genetic code associations permanently. In order to engineer robust bio‐contained life forms, the chemical logic behind the amino acid repertoire establishment should be considered. Starting from recent proposal of Hartman and Smith about the genetic code establishment in the RNA world, here the authors mapped possible biotechnological invasion points for engineering of bio‐contained synthetic cells equipped with non‐canonical functionalities.

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References

79

[1]

10.1126/science.1190719

[2]

10.1038/nature04342

[3]

10.1007/978-3-319-21088-9_2

[4]

10.1002/anie.200501023

[5]

The origin of intermediary metabolism

Harold J. Morowitz, Jennifer D. Kostelnik, Jeremy Yang et al.

Proceedings of the National Academy of Sciences 10.1073/pnas.110153997

[6]

Loomis W. D. "Chemistry and biology of boron" Biofactors (1992)

[7]

10.1039/c2ob06922a

[8]

Organosilicon Molecules with Medicinal Applications

Annaliese K. Franz, Sean O. Wilson

Journal of Medicinal Chemistry 10.1021/jm3010114

[9]

Gouverneur V. Müller K. (Eds.).Fluorine in Pharmaceutical and Medicinal Chemistry Imperial College Press London2012. 10.1142/p746

[10]

10.1126/science.1131943

[11]

Yong J. H. "In vitro and in vivo evaluation of o‐carboranylalanine as a potential boron delivery agent for neutron capture therapy" Anticancer Res. (1995)

[12]

10.1002/bies.200900147

[13]

10.1021/acssynbio.7b00029

[14]

10.1038/srep44748

[15]

10.2174/138527281808140616154301

[16]

10.1093/nar/gkv566

[17]

10.1021/ja309570x

[18]

Biocatalysis with Unnatural Amino Acids: Enzymology Meets Xenobiology

Federica Agostini, Jan‐Stefan Völler, Beate Koksch et al.

Angewandte Chemie International Edition 10.1002/anie.201610129

[19]

Synthetic biology

Steven A. Benner, A. Michael Sismour

Nature Reviews Genetics 10.1038/nrg1637

[20]

10.1016/j.cbpa.2012.05.198

[21]

10.1042/bst20160076

[22]

10.1038/nrmicro1204

[23]

10.1111/1751-7915.12398

[24]

10.1002/anie.201103010

[25]

10.5562/cca2915

[26]

10.1007/s11693-009-9040-9

[27]

10.1016/j.copbio.2016.01.006

[28]

10.3389/fmicb.2013.00005

[29]

10.1016/j.sbi.2013.04.012

[30]

10.1021/ja806998v

[31]

10.1073/pnas.0809211106

[32]

10.1016/j.sbi.2013.06.009

[33]

10.1007/978-1-4939-2272-7_15

[34]

10.1002/cbic.201600537

[35]

10.1016/j.copbio.2017.02.002

[36]

Biocontainment of genetically modified organisms by synthetic protein design

Daniel J. Mandell, Marc J. Lajoie, Michael T. Mee et al.

Nature 10.1038/nature14121

[37]

10.1038/nature14095

[38]

10.1073/pnas.1507741112

[39]

10.1002/bit.10718

[40]

10.1002/cbic.201400060

[41]

10.1002/elsc.201300049

[42]

10.1007/s000180050401

[43]

10.1007/bf01795749

[44]

10.1016/0022-2836(68)90392-6

[45]

10.1002/anie.201100535

[46]

10.1002/anie.201502868

[47]

10.3390/life5041610

[48]

10.1016/j.jmb.2015.09.003

[49]

10.3390/life7010012

[50]

10.3390/life4020227

Showing 50 of 79 references

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Metrics

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Citations

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References

Details

Published: Jul 03, 2017
Vol/Issue: 12(8)
License: View

Authors

V

Vladimir Kubyshkin

Biocatalysis group, Institute of Chemistry Technical University of Berlin Germany

N

Nediljko Budisa

Biocatalysis group, Institute of Chemistry Technical University of Berlin Germany

Funding

Deutsche Forschungsgemeinschaft Award: BU1404/3‐2

Seventh Framework Programme Award: METACODE 289572

Cite This Article

Vladimir Kubyshkin, Nediljko Budisa (2017). Synthetic alienation of microbial organisms by using genetic code engineering: Why and how?. Biotechnology Journal, 12(8). https://doi.org/10.1002/biot.201600097

Synthetic alienation of microbial organisms by using genetic code engineering: Why and how?

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