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Publications

  • Brödel, A.K., Jaramillo, A. & Isalan M. Directed evolution of orthogonal dual transcription factors for synthetic logic gates. Accepted in Nature Communications, Oct 18 2016. http://dx.doi.org/10.1038/ncomms13858
  • Martínez-García E, Aparicio T, de Lorenzo V, Nikel PI (2017) Engineering Gram-negative microbial cell factories using transposon vectors. Methods Mol Biol. 1498: 273-293.
  • Martínez García, E. and de Lorenzo, V. (2016) The quest for the minimal bacterial genome. Curr Op Biotechnol 42: 216-224.
  • Rodriguez-Espeso, D., Martínez García, E., de Lorenzo, V. and Goñi-Moreno (2016) Physical forces shape group identity of swimming Pseudomonas putida cells. Front Microbiol 7: 1437.
  • Goñi-Moreno, A., Carcajona, M., Kim, J., Martínez-García, E., Amos, M. and de Lorenzo V. (2016) An implementation-focussed bio/algorithmic workflow for synthetic biology. ACS Synth Biol 5: 1127-1135
  • Goñi-Moreno, A., Kim, J. and de Lorenzo, V. (2016). CellShape: a user-friendly image analysis tool for quantitative visualization of bacterial cell factories inside. Biotech J. (In Press)
  • Aparicio, T., Ingemann, S., Nielsen A., de Lorenzo V. and Martínez-García (2016) The Ssr protein (T1E_1405) from Pseudomonas putida DOT-T1E enables oligonucleotide-based recombineering in platform strain P. putida EM42. Biotechnol J 11: 1309-1319
  • Benedetti, I., V. de Lorenzo, and P. I. Nikel. "Genetic Programming of Catalytic Pseudomonas Putida Biofilms for Boosting Biodegradation of Haloalkanes." Metab Eng 33 (Jan 2016): 109-18. http://dx.doi.org/10.1016/j.ymben.2015.11.004.
  • Benedetti, I., Nikel, P.I. and de Lorenzo, V. (2016) Data on the standardization of a cyclohexanone-responsive expression system for Gram-negative bacteria. Data in Brief 6: 738-744
  • Benes, D., P. Sosik, and A. Rodriguez-Paton. "An Autonomous in Vivo Dual Selection Protocol for Boolean Genetic Circuits." Artif Life 21, no. 2 (Spring 2015): 247-60. http://dx.doi.org/10.1162/ARTL_a_00160.
  • de las Heras, A., E. Martinez-Garcia, M. R. Domingo-Sananes, and V. de Lorenzo. "Widening Functional Boundaries of the Sigma(54) Promoter Pu of Pseudomonas Putida by Defeating Extant Physiological Constraints." Mol Biosyst 11, no. 3 (Mar 2015): 734-42. http://dx.doi.org/10.1039/c4mb00557k.
  • Guantes, R., I. Benedetti, R. Silva-Rocha, and V. de Lorenzo. "Transcription Factor Levels Enable Metabolic Diversification of Single Cells of Environmental Bacteria." ISME J 10, no. 5 (May 2016): 1122-33. http://dx.doi.org/10.1038/ismej.2015.193.
  • Rodriguez-Espeso, D., Martínez-García, E., Carpio, A. and de Lorenzo, V. (2016). Stenosis triggers spread of helical Pseudomonas biofilms in cylindrical flow Systems. Sci Rep 6: 27170.
  • P. J. Kitson, S. Glatzel, W. Chen, C. -G. Lin, Y. -F. Song, L. Cronin, 3D printing of versatile reactionware for chemical synthesis, Nature Protocols 11 2016 920-936
  • S. Glatzel, M. Hezwani, P. J. Kitson, P. S. Gromski, S. Schürer, L. Cronin A Portable 3D Printer System for the Diagnosis and Treatment of Multidrug-Resistant Bacteria Chem 1 2016 494–504
  • Hassall, J., P. MacDonald, T. Cordero, W. Rostain, and A. Jaramillo. "Design and Characterization of Topological Small Rnas." Methods Mol Biol 1316 (2015): 149-67. http://dx.doi.org/10.1007/978-1-4939-2730-2_13.
  • Kim, J., D. Perez-Pantoja, R. Silva-Rocha, J. C. Oliveros, and V. de Lorenzo. "High-Resolution Analysis of the M-Xylene/Toluene Biodegradation Subtranscriptome of Pseudomonas Putida Mt-2." Environ Microbiol (Sep 16 2015). http://dx.doi.org/10.1111/1462-2920.13054.
  • Kushwaha, M., W. Rostain, S. Prakash, J. N. Duncan, and A. Jaramillo. "Using Rna as Molecular Code for Programming Cellular Function." ACS Synth Biol (Mar 29 2016). http://dx.doi.org/10.1021/acssynbio.5b00297.
  • Amos, M., I. M. Axmann, N. Bluthgen, F. de la Cruz, A. Jaramillo, A. Rodriguez-Paton, and F. Simmel. "Bacterial Computing with Engineered Populations." Philos Trans A Math Phys Eng Sci 373, no. 2046 (Jul 28 2015). http://dx.doi.org/10.1098/rsta.2014.0218.
  • Rodrigo, G., S. Prakash, T. Cordero, M. Kushwaha, and A. Jaramillo. "Functionalization of an Antisense Small Rna." J Mol Biol 428, no. 5 Pt B (Feb 27 2016): 889-92. http://dx.doi.org/10.1016/j.jmb.2015.12.022.
  • Sagona, A. P., A. M. Grigonyte, P. R. MacDonald, and A. Jaramillo. "Genetically Modified Bacteriophages." Integr Biol (Camb) 8, no. 4 (Apr 18 2016): 465-74. http://dx.doi.org/10.1039/c5ib00267b.
  • Aparicio, T., Ingemann, S., Nielsen A., de Lorenzo V. and Martínez-García (2016) The Ssr protein (T1E_1405) from Pseudomonas putida DOT-T1E enables oligonucleotide-based recombineering in platform strain P. putida EM42. Biotechnol J (In Press).
  • Vishal Gupta, Jesus Irimia, Ivan Pau, Alfonso Rodriguez-Paton. BioBlocks: Programming protocols in biology made easier. BioRxiv 2016. http://dx.doi.org/10.1101/081075
  • S. Tsuda, H. Jaffery, D. Doran, M. Hezwani, P. J. Robbins, M. Yoshida, L. Cronin, Customizable 3D Printed ‘Plug and Play’ Millifluidic Devices for Programmable Fluidics PLoS ONE , 2015 , 10 , e0141640
  • M. P. Lee, G. J. T. Cooper, T. Hinkley, G. M. Gibson, M. J. Padgett, L. Cronin, Development of a 3D printer using scanning projection stereolithography, Scientific Reports , 2015 , 5 , 9875