Cell-free systems

We are using cell-free systems for biosensing and bioproduction.  With biosensing we are funded by the ANR (French National Funding Agency) through contract ANR-18-CE44-0015 (https://anr.fr/Projet-ANR-18-CE44-0015). For bioproduction our project iCFree is the funded through one of the 5 grand challenges launched by the PIA program of the French government to date: Biomedicines: improving yields and controlling production costs. With iCFree we aim to develop and optimize cell-free protein synthesis systems (CFPSs) to produce therapeutic proteins which are difficult to synthesize in vivo.

Relevant publications

  1. Batista AC , Soudier P, Kushwaha M, Faulon JL. Optimising protein synthesis in cell‐free systems, a review, Engineering Biology 5 (1), 10-19, https://doi.org/10.1049/enb2.12004
  2. Soudier P, Faure L, Kushwaha M, Faulon JL. Cell-Free Biosensors and AI Integration. Methods Mol Biol. 2022, 2433:303-323. | DOI: 10.1007/978-1-0716-1998-8_19 | PMID: 34985753.
  3. Sabeti Azad M, Cardoso Batista A, Faulon JL, Beisel CL, Bonnet J, Kushwaha, M. Cell-Free Protein Synthesis from Exonuclease-Deficient Cellular Extracts Utilizing Linear DNA Templates. J. Vis. Exp. 2022, (186), e64236 | DOI: 10.3791/64236 | PMID: 36036615
  4. Pandi A, et al. A versatile active learning workflow for optimization of genetic and metabolic networks. Nat Commun., 2022, 13(1):3876. | DOI: 10.1038/s41467-022-31245-z | PMID: 35790733
  5. Borkowski O, Koch M, Zettor A, Pandi A, Cardoso Batista A, Soudier P & Faulon JL. Large scale active-learning-guided exploration for in vitro protein production optimization. Nature Communications, 11(1): 1872, 2020. | doi: 10.1038/s41467-020-15798-5 | PMID: 32312991
  6. Pandi A, Koch M, Voyvodic PL, Soudier P, Bonnet J, Kushwaha M, Faulon JL. Metabolic Perceptrons for Neural Computing in Biological Systems. Nature Communications, 10: 3880, 2019. | doi: 1038/s41467-019-11889-0
  7. Pandi A., Borkowski O., Faulon JL. (2020) Synthetic Biology at the Hand of Cell-Free Systems. In: Singh V. (eds) Advances in Synthetic Biology. Springer, Singapore | https://doi.org/10.1007/978-981-15-0081-7_2
  8. Pandi A, Grigoras I, Borkowski O, Faulon JL. Optimizing Cell-Free Biosensors to Monitor Enzymatic Production. ACS Synth Biol. 8(8):1952-1957, 2019 | doi: 10.1021/acssynbio.9b00160 | PMID: 31335131
  9. Voyvodic PL, Pandi A, Koch M, Conejero I, Valjent E, Courtet P, Renard E, Faulon JL*, Bonnet J*. Plug-and-play metabolic transducers expand the chemical detection space of cell-free biosensors. Nature Communications, 10(1):1697, 2019. | doi: 10.1038/s41467-019-09722-9 | PMID: 30979906