Tackling Achilles' Heel in Synthetic Biology: Pairing Intracellular Synthesis of Noncanonical Amino Acids with Genetic-Code Expansion to Foster Biotechnological Applications.


Journal

Chembiochem : a European journal of chemical biology
ISSN: 1439-7633
Titre abrégé: Chembiochem
Pays: Germany
ID NLM: 100937360

Informations de publication

Date de publication:
04 05 2020
Historique:
received: 13 12 2019
pubmed: 24 12 2019
medline: 29 5 2021
entrez: 24 12 2019
Statut: ppublish

Résumé

For the last two decades, synthetic biologists have been able to unlock and expand the genetic code, generating proteins with unique properties through the incorporation of noncanonical amino acids (ncAAs). These evolved biomaterials have shown great potential for applications in industrial biocatalysis, therapeutics, bioremediation, bioconjugation, and other areas. Our ability to continue developing such technologies depends on having relatively easy access to ncAAs. However, the synthesis of enantiomerically pure ncAAs in practical quantitates for large-scale processes remains a challenge. Biocatalytic ncAA production has emerged as an excellent alternative to traditional organic synthesis in terms of cost, enantioselectivity, and sustainability. Moreover, biocatalytic synthesis offers the opportunity of coupling the intracellular generation of ncAAs with genetic-code expansion to overcome the limitations of an external supply of amino acid. In this minireview, we examine some of the most relevant achievements of this approach and its implications for improving technological applications derived from synthetic biology.

Identifiants

pubmed: 31868982
doi: 10.1002/cbic.201900756
doi:

Substances chimiques

Amino Acids 0
Proteins 0

Types de publication

Journal Article Review

Langues

eng

Sous-ensembles de citation

IM

Pagination

1265-1273

Informations de copyright

© 2019 Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim.

Références

J. Chin, Nature 2017, 550, 53-60.
K. Keating, E. Young, Curr. Opin. Chem. Eng. 2019, 24, 107-114.
J. Li, T. Liu, Y. Wang, A. Mehta, P. Schultz, J. Am. Chem. Soc. 2018, 140, 15997-16000.
H. Huang, T. Liu, Synth. Syst Biotechnol. 2018, 3, 150-158.
Y. Won, A. Pagar, M. Patil, P. Dawson, H. Yun, Biotechnol. Bioprocess Eng. 2019, 24, 592-604.
V. Kubyshkin, N. Budisa, Curr. Opin. Biotechnol. 2019, 60, 242-249.
V. Kubyshkin, C. Acevedo-Rocha, N. Budisa, BioSystems 2018, 164, 16-25.
O. Leslie, Crit. Rev. Biochem. Mol. Biol. 2004, 39, 99-123.
L. Katz, Y. Chen, R. Gonzalez, T. Peterson, H. Zhao, R. Baltz, J. Ind. Microbiol. Biotechnol. 2018, 45, 449-461.
V. de Lorenzo, K. Prather, G.-Q. Chen, E. O'Day, C. von Kameke, D. Oyarzún, L. Hosta-Rigau, H. Alsafar, C. Cao, W. Ji, H. Okano, R. Roberts, M. Ronaghi, K. Yeung, F. Zhang, S. Lee, EMBO Rep. 2018, 19, e45658.
C. Rabinovitch-Deere, J. Oliver, G. Rodriguez, S. Atsumi, Chem. Rev. 2013, 113, 4611-4632.
V. Chubukov, A. Mukhopadhyay, C. J. Petzold, J. D. Keasling, H. García Martín, npj Syst. Biol. Appl. 2016, 2, 16009.
M. Kang, Y. Lu, S. Chen, F. Tian, Curr. Opin. Chem. Biol. 2018, 46, 123-129.
S. Sun, P. Schultz, C. Kim, ChemBioChem 2014, 15, 1721-1729.
M. Schmidt, L. Pei, N. Budisa in Synthetic Biology-Metabolic Engineering (Eds.: H. Zhao, A.-P. Zeng), Springer, Heidelberg, 2016, pp. 301-315.
N. Budisa, Curr. Org. Chem. 2014, 18, 936-943.
N. A. Yewdall, A. F. Mason, J. C. M. van Hest, Interface Focus 2018, 8, https://doi.org/10.1098/rsfs.2018.0023.
C. Xu, S. Hu, X. Chen, Mater. Today 2016, 19, 516-532.
Y. Ravikumar, S. Nadarajan, T. Yoo, C. Lee, H. Yun, Biotechnol. J. 2015, 10, 1862-1876.
N. McCarty, R. Ledesma-Amaro, Trends Biotechnol. 2019, 37, 181-197.
J. S. Völler, N. Budisa, Curr. Opin. Biotechnol. 2017, 48, 1-7.
Q. Wang, L. Wang, J. Am. Chem. Soc. 2008, 130, 6066-6067.
W. Liu, C. Stewart, Jr., Trends Plant Sci. 2015, 20, 309-317.
A. Nödling, L. Spear, T. Williams, L. Luk, Y.-H. Tsai, Essays Biochem. 2019, 63, 237-266.
S. Smolskaya, Y. Andreev, Biomolecules 2019, 9, 255.
L. Leisle, F. Valiyaveetil, R. A. Mehl, C. A. Ahern in Advances in Experimental Medicine and Biology, Vol 869: Novel Chemical Tools to Study Ion Channel Biology (Eds.: C Ahern, S. Pless), Springer, New York, 2015, pp. 119-151.
H. Biava, N. Budisa, Eng. Life Sci. 2014, 14, 340-351.
A. Dumas, L. Lercher, C. Spicer, B. Davis, Chem. Sci. 2015, 6, 50-69.
I. Beletskaya, C. Nájera, M. Yus, Chem. Rev. 2018, 118, 5080.
R. Sheldon, D. Brady, ChemSusChem 2019, 12, 2859-2881.
T. Narancic, S. Almahboub, K. O'Connor, World J. Microbiol. Biotechnol. 2019, 35, 67-77.
Y.-P. Xue, C.-H. Cao, Y.-G. Zheng, Chem. Soc. Rev. 2018, 47, 1516-1561.
A. Hironaga, H. Junji, S. Haruhiko, O. Toshihisa, Front. Microbiol. 2018, 9, 1760.
M. Di Salvo, N. Budisa, R. Contestabile, Beilstein Bozen Symposium on Molecular Engineering and Control, Beilstein Institute, Prien, 2013, p. 27.
F. Guo, P. Berglund, Green Chem. 2017, 19, 333-360.
N. Yang, M. Hinner, Methods Mol. Biol. 2015, 1266, 29-53.
R. Mehl, J. Anderson, S. Santoro, L. Wang, A. Martin, D. King, D. Horn, P. Schultz, J. Am. Chem. Soc. 2003, 125, 935-939.
J. Kolev, J. Zaengle, R. Ravikumar, R. Fasan, ChemBioChem 2014, 15, 1001-1010.
J.-E. Jung, S. Lee, H. Park, H. Cha, W. Ko, K. Sachin, D. Kim, D. Chi, H. Lee, Chem. Sci. 2014, 5, 1881-1885.
C. Kim, J. Axup, P. Schultz, Curr. Opin. Chem. Biol. 2013, 17, 412-419.
I. Coin, Curr. Opin. Chem. Biol. 2018, 46, 156-163.
H. Biava, T. Schreiber, S. Katz, J. Völler, M. Stolarski, C. Schulz, N. Michael, N. Budisa, J. Kozuch, T. Utesch, P. Hildebrandt, J. Phys. Chem. B 2018, 122, 8330-8342.
H. Ma, X. Yang, Z. Lu, N. Liu, Y. Chen, PLoS One 2014, 9, e103792.
H. Xiao, P. G. Schultz, Cold Spring Harbor Perspect. Biol. 2016, https://doi.org/10.1101/cshperspect.a023945.
L. Supekova, C. Zambaldo, S. Choi, R. Lim, X. Luo, S. Kazane, T. Young, P. Schultz, Bioorg. Med. Chem. Lett. 2018, 28, 1570-1573.
T. Huber, T. Sakmar in Methods in Molecular Biology, Vol 1785: Epitope Mapping Protocols (Eds.: J. Rockberg, J. Nilvebrant), Humana, Totowa, 2018, pp. 65-75.
A. Creon, I. Josts, S. Niebling, N. Huse, H. Tidow, Struct. Dyn. 2018, 5, 064701.
E. Abdelkader, A. Feintuch, X. Yao, L. Adams, L. Aurelio, B. Graham, D. Goldfarb, G. Otting, Chem. Commun. 2015, 51, 15898-15901.
A. Gust, L. Jakob, D. M. Zeitler, A. Bruckmann, K. Kramm, S. Willkomm, P. Tinnefeld, G. Meister, D. Grohmann, ChemBioChem 2018, 19, 780-783.
Y. Ma, H. Biava, R. Contestabile, N. Budisa, M. di Salvo, Molecules 2014, 19, 1004-1022.
R. C. Hunter, K. Binder, T. Valentini, S. K. Lucas, L. Cameron, J. M. Dunitz, Am. J. Respir. Crit. Care Med. 2019, 199, A1209.
D. McClatchy, Y. Ma, C. Liu, B. Stein, S. Martínez-Bartolomé, D. Vasquez, K. Hellberg, R. Shaw, J. Yates, J. Proteome Res. 2015, 14, 4815-4822.
M. Exner, T. Kuenzl, T. To, Z. Ouyang, S. Schwagerus, M. Hoesl, C. Hackenberger, M. Lensen, S. Panke, N. Budisa, ChemBioChem 2017, 18, 85-90.
S. Nojoumi, Y. Ma, S. Schwagerus, C. Hackenberger, N. Budisa, Int. J. Mol. Sci. 2019, 20, E2299.
P. Sakayanathana, C. Loganathan, A. Iruthayaraj, P. Periyasamy, K. Poomani, V. Periasamy, P. Thayumanavan, Int. J. Biol. Macromol. 2018, 118, 252-262.
 
R. S. Phillips, Tetrahedron: Asymmetry 2004, 15, 2787-2792;
E. Goss, P. Newill, Chem. Commun. 2006, 4924-4925.
N. Budisa, W. Wengera, B. Wiltschi, Mol. BioSyst. 2010, 6, 1630-1639.
J. Parsons, G. Xiao, G. Gilliland, R. Armstrong, Biochemistry 1998, 37, 6286-6294.
E. Chronopoulou, N. Labrou, Recent Pat. Biotechnol. 2009, 3, 211-223.
H. Wang, W. Liu, F. Shi, L. Huang, J. Lian, L. Qu, J. Cai, Z. Xu, Metab. Eng. 2018, 48, 279-287.
J. Italia, P. Addy, S. Erickson, J. Peeler, E. Weerapana, A. Chatterjee, J. Am. Chem. Soc. 2019, 141, 6204-6212.
J. Italia, P. Addy, C. Wrobel, A. Crawford, M. Lajoie, Y. Zheng, A. Chatterjee, Nat. Chem. Biol. 2017, 13, 446-450.
S. Kim, B. Sung, S. Kim, H. Lee, Chem. Commun. 2018, 54, 3002-3005.
P. Arranz-Gibert, K. Vanderschuren, F. Isaacs, Curr. Opin. Chem. Biol. 2018, 46, 203-211.
H. Raj, W. Szymanski, J. de Villiers, H. Rozeboom, V. Puthan Veetil, C. Reis, F. Dekker, S. de Wildeman, W. Quax, A. Thunnissen, B. Feringa, D. Janssen, G. Poelarends, Nat. Chem. 2012, 4, 478-484.
P. Almhjell, C. Boville, F. Arnold, Chem. Soc. Rev. 2018, 47, 8980-8997.
C. Diwo, N. Budisa, Genes 2019, 10, 17.

Auteurs

Hernán D Biava (HD)

Department of Science and Mathematics, Brevard College, One Brevard College Drive, Brevard, 28712, NC, USA.

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