You are here: Home / RESEARCH - iSSB / Publications / 2017


  1. Jaramillo A.  Synthetic biology: Engineered stable ecosystems. Nat Microbiol. 2017,  2:17119-17120. doi: 10.1038/nmicrobiol.2017.119.
  2. Rodrigo G, Prakash S, Shen S, Majer E, Daròs J-A, Jaramillo A. Model-based design of RNA hybridization networks implemented in living cells. Nucleic Acids Research, 2017. 45(16):9797-9808.
  3. Banos DT, Trébulle P, Elati M. Integrating transcriptional activity in genome-scale models of metabolism. BMC Syst Biol. 2017, 11(Suppl 7):134. doi: 10.1186/s12918-017-0507-0.
  4. Koch M, Duigou T, Carbonell P, Faulon JL. Molecular structures enumeration and virtual screening in the chemical space with RetroPath2.0.  J Cheminform. 2017, 9(1):64. doi: 10.1186/s13321-017-0252-9.
  5. Trébulle P, Nicaud JM, Leplat C, Elati M. Inference and interrogation of a coregulatory network in the context of lipid accumulation in Yarrowia lipolyticaNPJ Syst Biol Appl. 2017, Aug 11;3:21. doi: 10.1038/s41540-017-0024-1. eCollection 2017.
  6. Brödel AK, Jaramillo A, Isalan M. Intracellular directed evolution of proteins from combinatorial libraries based on conditional phage replication. Nature Protocols 2017. 12(9):1830-1843. doi: 10.1038/nprot.2017.084.
  7. Paschalis V, Le Chatelier E, Green M, Képès F, Nouri H, Soultanas P, Jannière L. Interactions of the Bacillus subtilis DnaE polymerase with replisomal proteins modulate its activity and fidelity. Open Biology, 2017. Sep;7(9). pii: 170146. doi: 10.1098/rsob.170146
  8. Eremeeva E, Abramov M, Margamuljana L, Herdewijn P.  Base-Modified Nucleic Acids as a Powerful Tool for Synthetic Biology and Biotechnology.  Chemistry 2017, 23(40):9560-9576. doi: 10.1002/chem.201700679.
  9. Kuenzl T, Sroka M, Srivastava P, Herdewijn P, Marlière P, Panke S. Overcoming the membrane barrier: Recruitment of γ-glutamyl transferase for intracellular release of metabolic cargo from peptide vectors.  Metab Eng., 2017, 39:60-70. doi: 10.1016/j.ymben.2016.10.016.
  10. Singh V, Braddick D, Dhar PK. Exploring the potential of genome editing CRISPR-Cas9 technology. Gene, 2017, 599:1-18. doi: 10.1016/j.gene.2016.11.008. Review.
  11. Celińska E, Ledesma-Amaro R, Larroude M, Rossignol T, Pauthenier C, Nicaud JM. Golden Gate Assembly system dedicated to complex pathway manipulation in Yarrowia lipolytica.  Microb Biotechnol., 2017, 10(2):450-455. doi: 10.1111/1751-7915.12605.
  12. Bronchain OJ, Chesneau A, Monsoro-Burq AH, Jolivet P, Paillard E, Scanlan TS, Demeneix BA, Sachs LM, Pollet N. Implication of thyroid hormone signaling in neural crest cells migration: Evidence from thyroid hormone receptor beta knockdown and NH3 antagonist studies.  Mol Cell Endocrinol., 2017, 439:233-246. doi: 10.1016/j.mce.2016.09.007.
  13. Röthlisberger P, Levi-Acobas F, Sarac I, Marlière P, Herdewijn P, Hollenstein M.  On the enzymatic incorporation of an imidazole nucleotide into DNA.  Org Biomol Chem., 2017, 15(20):4449-4455. doi: 10.1039/c7ob00858a.
  14. Bouzon M, Perret A, Loreau O, Delmas V, Perchat N, Weissenbach J, Taran F, Marlière P.  A Synthetic Alternative to Canonical One-Carbon Metabolism. ACS Synth Biol. 2017, May 3. doi: 10.1021/acssynbio.7b00029.
  15. Swainston N, Batista-Navarro R, Carbonell P, Dobson PD, Dunstan M, Jervis AJ, Vinaixa M, Williams AR, Ananiadou S, Faulon JL, Mendes P, Kell DB, Scrutton NS, Breitling R.  biochem4j: Integrated and extensible biochemical knowledge through graph databases. PLoS One, 2017, 12(7):e0179130. doi: 10.1371/journal.pone.0179130
  16. Dhifli W, Da Costa N, Elati M.  An evolutionary schema for mining skyline clusters of attributed graph data.  Congress on Evolutionary Computation At Donostia - San Sebastián, Spain, IEEE, June 2017, pp. 2102-2109. doi: 10.1109/CEC.2017.7969559
  17. Bayer PE, Hurgobin B, Golicz AA, Chan CK, Yuan Y, Lee H, Renton M, Meng J, Li R, Long Y, Zou J, Bancroft I, Chalhoub B, King GJ, Batley J, Edwards D. Assembly and comparison of two closely related Brassica napus genomes.  Plant Biotechnol J. 2017 Apr 12. doi: 10.1111/pbi.12742.
  18. Brödel AK, Isalan M, Jaramillo A. Engineering of biomolecules by bacteriophage directed evolution.  Curr Opin Biotechnol. 2017, 51:32-38. doi: 10.1016/j.copbio.2017.11.004.
  19. Röthlisberger P, Levi-Acobas F, Sarac I, Baron B, England P, Marlière P, Herdewijn P, Hollenstein M. Facile immobilization of DNA using an enzymatic his-tag mimic.  Chem Commun (Camb). 2017, Nov 22. doi: 10.1039/c7cc07207d. 
  20. Röthlisberger P, Gasse C, Hollenstein M. Nucleic Acid Aptamers: Emerging Applications in Medical Imaging, Nanotechnology, Neurosciences, and Drug Delivery. Int J Mol Sci. 2017 Nov 16;18(11). pii: E2430. doi: 10.3390/ijms18112430.
  21. Hurgobin B, Golicz AA, Bayer PE, Chan CK, Tirnaz S, Dolatabadian A, Schiessl SV, Samans B, Montenegro JD, Parkin IAP, Pires JC, Chalhoub B, King GJ, Snowdon R, Batley J, Edwards D. Homoeologous exchange is a major cause of gene presence/ absence variation in the amphidiploid Brassica napus.  Plant Biotechnol J. 2017 Dec 4. doi: 10.1111/pbi.12867.

Book chapter
Carbonell P, Delépine B, Faulon JL. “Extended metabolic space modeling”, In: Synthetic metabolic pathways: Methods and Protocols, MK Jensen and JD Keasling Eds, Springer, in press, 2017. doi: 10.1007/978-1-4939-7295.


Location - contact


5 rue Henri Desbruères
Genopole Campus 1, Bât. 6

contact (at)

Phone: +33(0)1 69 47 44 30
Fax: +33(0)1 69 47 44 37


To visit us, please follow Genopole access indications.  Once on Genopole campus 1, iSSB is located on the first floor of Building 6, which is the first building to your left as you cross the pedestrian gate, or to your right as you cross the car gate.


Longitude: E 2° 27' 4''
Latitude: N 48° 37' 7''



   Congratulations to the iGEM-Evry 2018 team that was nominated for the "best composite part" price, and that won a Gold Medal at the final world iGEM jamboree. To follow their work, please visit their wiki.


 The annual spring School on advances in Systems and Synthetic Biology (aSSB) becomes an autumn School, on November 18-22, 2019.

 iSSB is pleased to announce the creation of the spin-off Synovance, founded by two former iSSB researchers.

 The spin-off of iSSB Inovactis, founded by two former mSSB students, won the national competition I-Lab 2017 organized each year by the Ministry of Higher Education and Research to encourage the most innovative technologies.

  Based on publications in synthetic biology, an independent study (Nov 2015) found that iSSB ranks 3rd lab in Europe and 9th in the world, despite a comparatively small size.