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Rebecca M Demming, Max-Philipp Fischer, Jens Schmid and Bernhard Hauer, (De)hydratases — recent developments and future perspectives, Current Opinion in Chemical Biology 2018, 43–50

de Lorenzo, V. (2018) Biodegradation and Bioremediation: An Introduction. In Handbook of Hydrocarbon and Lipid Microbiology (Ed. K.N. Timmis) Springer-Verlag Berlin Heidelberg. Vol. Consequences of Microbial Interaction with Hydrocarbons, Oils and Lipids: Biodegradation and Bioremediation (In Press).

de Lorenzo, V. (2018) Environmental microbiology to the rescue of planet Earth. Environ Microbiol DOI: 10.1111/1462-2920.14105



Maximilian Ole Bahls, Tsvetan Kardashliev, Sven Panke, Novel Sensors for Engineering Microbiology, Consequences of Microbial Interactions with Hydrocarbons, Oils, and Lipids: Production of Fuels and Chemicals, Part of the series Handbook of Hydrocarbon and Lipid Microbiology, September 2017, pp 1-27

Rebecca M. Demming, Konrad B. Otte, Bettina M. Nestl, and Bernhard Hauer, Optimized Reaction Conditions Enable the Hydration of Non-natural Substrates by the Oleate Hydratase from Elizabethkingia meningoseptica, ChemCatChem 2017, 9, 758 – 766

Dvořák P, Nikel PI, Damborský J, de Lorenzo V., Bioremediation 3.0: Engineering pollutant-removing bacteria in the times of systemic biology. Biotechnol Adv. 2017 Aug 5. pii: S0734-9750(17)30089-7. doi: 10.1016/j.biotechadv.2017.08.001. [Epub ahead of print] Review. PMID:28789939. https://www.ncbi.nlm.nih.gov/pubmed/28789939

Goñi-Moreno Á, Benedetti I, Kim J, de Lorenzo V. Deconvolution of Gene Expression Noise into Spatial Dynamics of Transcription Factor-Promoter Interplay. ACS Synth Biol. 2017 Jul 21;6(7):1359-1369. doi: 10.1021/acssynbio.6b00397. Epub 2017 Apr 17. PMID:28355056. https://www.ncbi.nlm.nih.gov/pubmed/28355056

de Lorenzo V, Schmidt M. Biological standards for the Knowledge-Based BioEconomy: What is at stake. N Biotechnol. 2017 May 4. pii: S1871-6784(16)32621-8. doi: 10.1016/j.nbt.2017.05.001. [Epub ahead of print] Review.
PMID: 28479235. https://www.ncbi.nlm.nih.gov/pubmed/28479235

Martínez-García E, de Lorenzo V., Molecular tools and emerging strategies for deep genetic/genomic refactoring of Pseudomonas. Curr Opin Biotechnol. 2017 Jul 21;47:120-132. doi: 10.1016/j.copbio.2017.06.013. [Epub ahead of print] Review. PMID:28738232. https://www.ncbi.nlm.nih.gov/pubmed/28738232

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. DOI: 10.1007/978-1-4939-6472-7_18 http://hdl.handle.net/10261/146960

Ricaurte DE, Martínez-García E, Nyerges Á, Pál C, de Lorenzo V, Aparicio T.A. (2017) An standardized workflow for surveying recombinases expands bacterial genome-editing capabilities. Microb Biotechnol. doi: 10.1111/1751-7915.12846.

Sánchez-Pascuala A, de Lorenzo V, Nikel PI., Refactoring the Embden-Meyerhof-Parnas Pathway as a Whole of Portable GlucoBricks for Implantation of Glycolytic Modules in Gram-Negative Bacteria. ACS Synth Biol. 2017 May 19;6(5):793-805. doi: 10.1021/acssynbio.6b00230. Epub 2017 Feb 9. PMID:28121421. https://www.ncbi.nlm.nih.gov/pubmed/28121421


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 http://dx.doi.org/10.1002/biot.201600317

Arce-Rodríguez, A., Calles, B., Nikel, P-I. and de Lorenzo, V. (2016) The RNA chaperone Hfq enables the environmental stress tolerance super-phenotype of Pseudomonas putida. Env Microbiol. 18(10):3309-3326. http://dx.doi.org/10.1111/1462-2920.13052

Belda, Eugeni , Heck, Ruben G.A. van , José Lopez-Sanchez, Maria , Cruveiller, Stéphane , Barbe, Valérie , Fraser, Claire, Klenk, Hans Peter , Petersen, Jörn , Morgat, Anne , Nikel, Pablo I. , Vallenet, David , Rouy, Zoé , Sekowska, Agnieszka , Martins dos Santos, Vitor A.P. , Lorenzo, Víctor de , Danchin, The revisited genome of Pseudomonas putida KT2440 enlightens its value as a robust metabolic chassis. Environmental Microbiology 18 (2016)10.

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(2016)738–744 http://dx.doi.org/10.1016/j.dib.2016.01.022

Rebecca M. Demming, Konrad B. Otte, Bettina M. Nestl, and Bernhard Hauer: " Optimized reaction conditions enable the hydration of non-natural substrates by the oleate hydratase from Elizabethkingia meningoseptica", Chemical catalysis catalytical chemistry (ChemCatChem) 2016, in press.

van Heck Ruben G. A., Ganter Mathias, Martins dos Santos Vitor A. P., Stelling Joerg, Efficient Reconstruction of Predictive Consensus Metabolic Network Models. August 26, 2016 http://dx.doi.org/10.1371/journal.pcbi.1005085

van Heck, Ruben G.A., Ganter, Mathias, Martins dos Santos Vitor A.P. , Stelling, Joerg (2016) Efficient Reconstruction of Predictive Consensus Metabolic Network Models. PLoS Computational Biology 12 (2016)8.

de las Heras, A., Martinez-Garcia, E., Domingo-Sananes, M.R., Fraile, S. and de Lorenzo, V. (2016) Rationally rewiring the connectivity of the XylR/Pu regulatory node of the m-xylene degradation pathway in Pseudomonas putida Integr Biol. V 8. 571 - 76 http://dx.doi.org/10.1039/c5ib00310e

Kim, J., Pérez-Pantoja, D., Silva-Rocha, R., Oliveros, J.C. and de Lorenzo, V. (2016) High-resolution analysis of the m-xylene/toluene biodegradation subtranscriptome of Pseudomonas putida mt-2. Env Microbiol. 18(10):3327-3341. http://dx.doi.org/10.1111/1462-2920.13054

Koehorsty Jasper J, van Dam Jesse CJ, van Heck Ruben GA, Saccenti Edoardo, Martins dos Santos Vitor AP, Suarez-Diez Maria, Schaap Peter J, Comparison of 432 Pseudomonas strains through integration of genomic, functional, metabolic and expression data.  Scientific reports (Accepted, not published).

Koehorst, J.J. , Saccenti, E. , Schaap, P.J. , Martins dos Santos, V.A.P. , Suarez-Diez, M. (2016) Protein domain architectures provide a fast, efficient and scalable alternative to sequence-based methods for comparative functional genomics. F1000 Research 5 (2016).

de Lorenzo, V., Marlière, P. and Solé, R. (2016) Bioremediation at a global scale: from the test tube to planet Earth. Microb Biotech 9: 618-625 http://dx.doi.org/10.1111/1751-7915.12399

Martínez-García E, Aparicio T, de Lorenzo V, Nikel PI (2016) Engineering Gram-negative microbial cell factories using transposon vectors. Methods Mol Biol. 1498: 273-293. http://dx.doi.org/10.1007/978-1-4939-6472-7_18

Martínez-García, E. and de Lorenzo V. (2016) The quest for the minimal bacterial genome. Curr Op Biotechnol 42: 216-224. http://dx.doi.org/10.1016/j.copbio.2016.09.001

Nikel, P.I., Pérez-Pantoja and de Lorenzo V. (2016) Pyridine nucleotide transhydrogenases enable redox balance of Pseudomonas putida during biodegradation of aromatic compounds. Environ Microbiol.(2016) 6, http://dx.doi.org/10.1111/1462-2920.13434

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. http://dx.doi.org/10.3389/fmicb.2016.01437

Schmidt M. and de Lorenzo, V. (2016). Synthetic bugs on the loose: containment options for deeply engineered (micro)organisms. Curr Op Biotechnol. Volume 38, April 01, 2016, Pages 90-96  http://dx.doi.org/10.1016/j.copbio.2016.01.006


Benedetti, I., de Lorenzo, V. and Nikel, P.I. (2015) Genetic programming of catalytic Pseudomonas putida biofilms for boosting biodegradation of haloalkanes. Metab. Eng. 33:109-18 http://dx.doi.org/10.1016/j.ymben.2015.11.004

Calles, B., de Lorenzo V. (2015) Knock-In-Leave-Behind (KILB): genetic grafting of protease-cleaving sequences into permissive sites of proteins with a Tn5-based transposition system McGenity et al. (eds.), Springer-Verlag. Hydrocarbon and Lipid Microbiology Protocols. http://dx.doi.org/10.1007/8623_2015_114

Guantes, R., Benedetti, I., Silva-Rocha, R., and de Lorenzo, V. (2015) Transcription factor levels enable metabolic diversification of single cells of environmental bacteria. ISME Journal (2015), 1–12ISME Journal, 1–12 http://dx.doi.org/10.1038/ismej.2015.193

de Lorenzo, V. (2015) Introduction to Genetic, Genomic and Systemic analyses for pure cultures. McGenity et al. (eds.), Springer-Verlag. Hydrocarbon and Lipid Microbiology Protocols. http://dx.doi.org/10.1007/8623_2016_192

de Lorenzo, V. (2015) Introduction to Systems and Synthetic Biology in Hydrocarbon Microbiology: Applications. McGenity et al. (eds.), Springer-Verlag. Hydrocarbon and Lipid Microbiology Protocols. http://dx.doi.org/10.1007/8623_2016_196



April, 2018

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This project has received funding from the European Union’s Horizon 2020

research and innovation programme under grant agreement No 635536.

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