Building the SynBio community in the Czech Republic from the bottom up: You get what you give
Status PubMed-not-MEDLINE Jazyk angličtina Země Nizozemsko Médium electronic-ecollection
Typ dokumentu časopisecké články
PubMed
39416447
PubMed Central
PMC11446354
DOI
10.1016/j.biotno.2022.11.002
PII: S2665-9069(22)00013-7
Knihovny.cz E-zdroje
- Klíčová slova
- Biotechnology and bioengineering, Community, Czech Republic, EU13 countries, Public perception, Research landscape, Synthetic biology, iGEM,
- Publikační typ
- časopisecké články MeSH
Given its highly innovative character and potential socioeconomic impact, Synthetic Biology is often ranked among prominent research areas and national research priorities in developed countries. The global evolution of this field is proceeding by leaps and bounds but its development at the level of individual states varies widely. Despite their current satisfactory economic status, the majority of 13, mostly post-communist, countries that entered the European Union family in and after 2004 (EU13) have long overlooked the blossoming of Synthetic Biology. Their prioritized lines of research have been directed elsewhere or "Synthetic Biology" did not become a widely accepted term to encompass their bioengineering and biotechnology domains. The Czech Republic is not an exception. The local SynBio mycelium already exists but is mainly built bottom-up through the activities of several academic labs, iGEM teams, and spin-off companies. In this article, we tell their individual stories and summarize the prerequisites that allowed their emergence in the Czech academic and business environment. In addition, we provide the reader with a brief overview of laboratories, research hubs, and companies that perform biotechnology and bioengineering-oriented research and that may be included in a notional "shadow SynBio community" but have not yet adopted Synthetic Biology as a unifying term for their ventures. We also map the current hindrances for a broader expansion of Synthetic Biology in the Czech Republic and suggest possible steps that should lead to the maturity of this fascinating research field in our country.
Department of Experimental Biology Faculty of Science Masaryk University Brno Czech Republic
Former EUSynBioS Steering Committee Member Czech Republic
Zobrazit více v PubMed
Gardner T.S., Cantor C.R., Collins J.J. Construction of a genetic toggle switch in Escherichia coli. Nature. 2000;403:339–342. PubMed
Levskaya A., Chevalier A.A., Tabor J.J., et al. Engineering Escherichia coli to see light. Nature. 2005;438:441–442. PubMed
Elowitz M.B., Leibler S. A synthetic oscillatory network of transcriptional regulators. Nature. 2000;403:335–338. PubMed
Gibson D.G., Young L., Chuang R.Y., Venter J.C., Hutchison C.A., Smith H.O. Enzymatic assembly of DNA molecules up to several hundred kilobases. Nat Methods. 2009;6:343–345. PubMed
Wang H.H., Isaacs F.J., Carr P.A., et al. Programming cells by multiplex genome engineering and accelerated evolution. Nature. 2009;460:894–898. PubMed PMC
Gibson D.G., Glass J.I., Lartigue C., et al. Creation of a bacterial cell controlled by a chemically synthesized genome. Science. 2010;329:52–56. PubMed
Stephanopoulos G. Synthetic biology and metabolic engineering. ACS Synth Biol. 2012;1:514–525. PubMed
Dvořák P., Nikel P.I., Damborský J., de Lorenzo V. Bioremediation 3.0: engineering pollutant-removing bacteria in the times of systemic biology. Biotechnol Adv. 2017;35:845–866. PubMed
Foo J.L., Ching C.B., Chang M.W., Leong S.S.J. The imminent role of protein engineering in synthetic biology. Biotechnol Adv. 2012;30:541–549. PubMed
de Lorenzo V., Prather K.L., Chen G.Q., et al. The power of synthetic biology for bioproduction, remediation and pollution control: the UN's Sustainable Development Goals will inevitably require the application of molecular biology and biotechnology on a global scale. EMBO Rep. 2018;19 e45658. PubMed PMC
Rerimassie V., Stemerding D., Zhang W., Srinivas K.R. Discourses on Synthetic Biology in Europe, India and China. Sci Technol Govern Ethics. 2015:145–163.
Stemerding D., Rerimassie V. Discourses on Synthetic Biology in Europe. https://www.rathenau.nl/sites/default/files/2018-04/Working_Paper_Discourses_on_Synthetic_Biology_in_Europe_01_0.pdf [Internet], [cited 2022 Sep 4]. Available from.
European Commission Directorate-General for Health and Consumers. Opinion on synthetic biology I : definition. https://data.europa.eu/doi/10.2772/76553 [Internet], [cited 2022 Aug 9]. Available from. DOI
Cameron D.E., Bashor C.J., Collins J.J. A brief history of synthetic biology. Nat Rev Microbiol. 2014;12:381–390. PubMed
Scown C.D., Keasling J.D. Sustainable manufacturing with synthetic biology. Nat Biotechnol. 2022;40:304–307. PubMed
Paddon C.J., Keasling J.D. Semi-synthetic artemisinin: a model for the use of synthetic biology in pharmaceutical development. Nat Rev Microbiol. 2014;12:355–367. PubMed
Jinek M., Chylinski K., Fonfara I., Hauer M., Doudna J.A., Charpentier E. A programmable dual-RNA–guided DNA endonuclease in adaptive bacterial immunity. Science. 2012;337:816–821. PubMed PMC
Antonovsky N., Gleizer S., Noor E., et al. Sugar synthesis from CO2 in Escherichia coli. Cell. 2016;166:115–125. PubMed PMC
Fredens J., Wang K., de la Torre D., et al. Total synthesis of Escherichia coli with a recoded genome. Nature. 2019;569:514–518. PubMed PMC
Dolgin E. Synthetic biology speeds vaccine development. https://www.nature.com/articles/d42859-020-00025-4 [Internet], [cited 2022 Jul 19]. Available from.
Meng F., Ellis T. The second decade of synthetic biology: 2010-2020. Nat Commun. 2020;11:5174. PubMed PMC
Voigt C.A. Synthetic biology 2020–2030: six commercially-available products that are changing our world. Nat Commun. 2020;11:6379. PubMed PMC
World Economic Forum The top 10 emerging technologies for 2012. https://www.weforum.org/agenda/2012/02/the-2012-top-10-emerging-technologies/ [Internet], [cited 2022 Oct 8]. Available from.
World Economic Forum Realizing the potential of synthetic biology to help people and the planet. https://www.weforum.org/agenda/2021/04/synthetic-biology-potential-people-and-the-planet-gtgs21/ [Internet], [cited 2022 Oct 8]. Available from.
NCBI PubMed. https://pubmed.ncbi.nlm.nih.gov/ [Internet], [2022 Oct 8]. Available from.
Research and Market Global Synthetic Biology Market Forecast to 2028-COVID-19 Impact and Global Analysis by Products, Technology, and Application. https://www.researchandmarkets.com/reports/5598070/global-synthetic-biology-market-forecast-to-2028 [Internet], [cited 2022 Jul 19]. Available from.
Donati S., Barbier I., García-Soriano D.A., et al. Synthetic biology in Europe: current community landscape and future perspectives. Biotechnol Notes. 2022;3:54–61.
Krink N., Löchner A.C., Cooper H., Beisel C.L., Di Ventura B. Synthetic biology landscape and community in Germany. Biotechnol Notes. 2022;3:8–14.
Bhatt D.K., Crooijmans M.E., Coenradij J., et al. A SynBio community comes of age: political, academical, industrial, and societal developments in The Netherlands. Biotechnol Notes. 2022;3:62–69.
Damborský J., Prokop Z., Kostka M. Perspectives: biotechnology in Czech Republic, the past and the future. Biotechnol J. 2006;1:487–490. PubMed
Gasparek M., Hantabal J. De novo synthesis of synthetic biology ecosystem in Slovakia: challenges and opportunities. Biotechnol Notes. 2022;3:45–49.
Gradišar H., Božič S., Doles T., et al. Design of a single-chain polypeptide tetrahedron assembled from coiled-coil segments. Nat Chem Biol. 2013;9:362–366. PubMed PMC
Gaber R., Lebar T., Majerle A., et al. Designable DNA-binding domains enable construction of logic circuits in mammalian cells. Nat Chem Biol. 2014;10:203–208. PubMed
European Commission European Innovation Scoreboard. https://research-and-innovation.ec.europa.eu/statistics/performance-indicators/european-innovation-scoreboard_en [Internet], [2022 Oct 8]. Available from.
Eurostat R&D expenditure in the EU at 2.3% of GDP in 2020. 2022 Oct 8 https://ec.europa.eu/eurostat/web/products-eurostat-news/-/ddn-20211129-2 [Internet] Available from.
Marova I. Biotechnologies in the Czech Republic: current status, trends and challenges. Biotechnol Biotechnol Equip. 2021;35:S15–S22.
Tretyachenko V., Voráček V., Souček R., Fujishima K., Hlouchová K. CoLiDe: combinatorial Library Design tool for probing protein sequence space. Bioinforma Oxf Engl. 2021;37:482–489. PubMed PMC
Fried S.D., Fujishima K., Makarov M., Cherepashuk I., Hlouchova K. Peptides before and during the nucleotide world: an origins story emphasizing cooperation between proteins and nucleic acids. J R Soc Interface. 2022;19:20210641. PubMed PMC
Dvorak P., Bidmanova S., Damborsky J., Prokop Z. Immobilized synthetic pathway for biodegradation of toxic recalcitrant pollutant 1,2,3-trichloropropane. Environ Sci Technol. 2014;48:6859–6866. PubMed
Kurumbang N.P., Dvorak P., Bendl J., Brezovsky J., Prokop Z., Damborsky J. Computer-Assisted engineering of the synthetic pathway for biodegradation of a toxic persistent pollutant. ACS Synth Biol. 2014;3:172–181. PubMed
Dvořák P., Bayer E.A., de Lorenzo V. Surface display of designer protein scaffolds on genome-reduced strains of Pseudomonas putida. ACS Synth Biol. 2020;9:2749–2764. PubMed
Obruča S., Dvořák P., Sedláček P., et al. Polyhydroxyalkanoates synthesis by halophiles and thermophiles: towards sustainable production of microbial bioplastics. Biotechnol Adv. 2022;58:107906. PubMed
Scheidler C.M., Vrabel M., Schneider S., Genetic Code Expansion, Expression Protein, Functionalization Protein. In Bacillus subtilis. ACS Synth Biol. 2020;9:486–493. PubMed
Blažková K., Beranová J., Hradilek M., et al. The development of a high-affinity conformation-sensitive antibody mimetic using a biocompatible copolymer carrier (iBody) J Biol Chem. 2021;297:101342. PubMed PMC
Zahradník J., Dey D., Marciano S., et al. A protein-engineered, enhanced yeast display platform for rapid evolution of challenging targets. ACS Synth Biol. 2021;10:3445–3460. PubMed PMC
Zahradník J., Marciano S., Shemesh M., et al. SARS-CoV-2 variant prediction and antiviral drug design are enabled by RBD in vitro evolution. Nat Microbiol. 2021;6:1188–1198. PubMed
Jainarayanan A.K., Galanis A., Sreejith A., et al. iGEM comes of age: trends in its research output. Nat Biotechnol. 2021;39:1599–1601. PubMed
Marova I., Obruca S., Prikryl R. Method of producing polyhydroxyalkanoates (PHA) from oil substrate. https://patents.google.com/patent/WO2014032633A1/en [Internet], [cited 2022 Oct 8]. Available from.
Hájek M., Holecová M., Smolová H., Jeřábek L., Frébort I. Current state and future directions of bioeconomy in the Czech Republic. N Biotech. 2021;61:1–8. PubMed
Navrátil V., Schimer J., Tykvart J., et al. DNA-linked Inhibitor Antibody Assay (DIANA) for sensitive and selective enzyme detection and inhibitor screening. Nucleic Acids Res. 2017;45 e10. PubMed PMC
Dvorak P., Bednar D., Vanacek P., et al. Computer-assisted engineering of hyperstable fibroblast growth factor 2. Biotechnol Bioeng. 2018;115:850–862. PubMed
The Public Opinion Research Centre The Public Opinion Research Centre. 2022 Oct 8. https://cvvm.soc.cas.cz/en/ [Internet], Available from.
GOV.UK. Synthetic Biology Leadership Council. https://www.gov.uk/government/groups/synthetic-biology-leadership-council [Internet], [cited 2022 Oct 8]. Available from.
The Research, Development and Innovation Council Innovation Strategy of the Czech Republic 2019-2030. https://www.vyzkum.cz/FrontClanek.aspx?idsekce=867922 [Internet], [cited 2022 Oct 8]. Available from.
Ministry of Industry and Trade RIS3 Strategy. 2022 Oct 8. https://www.mpo.cz/en/business/ris3-strategy/ris3-strategy--265275/ [Internet], Available from.
Czech Academy of Sciences Strategy AV21. 2022 Oct 8. https://strategie.avcr.cz/en [Internet], Available from.
Roudná M., et al., editors. Genetické modifikace v České republice a opatření k zajištění biologické bezpečnosti. Ministerstvo životního prostředí ČR; Praha: 2011.
Svoboda L., Hanáček J. GMO potraviny, energetika, odolná společnost. Témata pro české předsednictví. https://www.avcr.cz/cs/o-nas/aktuality/GMO-potraviny-energetika-odolna-spolecnost.-Temata-pro-ceske-predsednictvi/ [Internet], [cited 2022 Oct 8]. Available from.