Papers and articles

List of project publications

 

Environmental Performance of Pseudomonas putida with a Uracylated Genome.
Algar E, Al-Ramahi Y, de Lorenzo V, Martínez-García E.
Chembiochem : a European Journal of Chemical Biology. 2020 Nov;21(22):3255-3265.
DOI: 10.1002/cbic.202000330.

Surface Display of Designer Protein Scaffolds on Genome-Reduced Strains of Pseudomonas putida.
Dvořák P, Bayer EA, de Lorenzo V.
ACS Synthetic Biology. 2020 Oct; 9(10):2749-2764.
DOI: 10.1021/acssynbio.0c00276.

An automated DIY framework for experimental evolution of Pseudomonas putida.
Espeso DR, Dvořák P, Aparicio T, de Lorenzo V.
Microbial Biotechnology. 2020 Oct.
DOI: 10.1111/1751-7915.13678.

Repositioning microbial biotechnology against COVID‐19: the case of microbial production of flavonoids.
Tobias Goris, Álvaro Pérez‐Valero, Igor Martínez, Dong Yi, Luis Fernández‐Calleja, David San León, Uwe T. Bornscheuer, Patricia Magadán‐Corpas, Felipe Lombó, Juan Nogales.
Peer-review article in Microbial Biotechnology, 13.10.2020
Published by Society for Applied Microbiology and John Wiley & Sons Ltd., Hoboken, NJ, USA
https://doi.org/10.1111/1751-7915.13675

Quantitative assessment of morphological traits of planktonic bacterial aggregates.
Espeso DR, Martínez-García E, de Lorenzo V.
Water Research. 1 January 2021, Volume 188:116468. 2020 Sep;
DOI: 10.1016/j.watres.2020.116468.

Metabolic Modelling Approaches for Describing and Engineering Microbial Communities.
García-Jiménez B, Torres J, Nogales J.
Preprints.org; 2020. Preprint from Preprints.org, 23 Sep 2020
DOI: 10.20944/preprints202009.0548.v1.

Naked Bacterium: Emerging Properties of a Surfome-Streamlined Pseudomonas putida Strain.
Martínez-García E, Fraile S, Rodríguez Espeso D, et al.
ACS Synthetic Biology. 2020 Sep;9(9):2477-2492.
DOI: 10.1021/acssynbio.0c00272.

For the sake of the Bioeconomy: define what a Synthetic Biology Chassis is!
de Lorenzo V, Krasnogor N, Schmidt M. 
New Biotechnology. 2021 Jan; 02 Sep 2020, 60:44-51.
DOI: 10.1016/j.nbt.2020.08.004.

Targeted Depletion of Bacteria from Mixed Populations by Programmable Adhesion with Antagonistic Competitor Cells.
Ting SY, Martínez-García E, Huang S, et al.
Cell Host & Microbe. 2020 Aug;28(2)
313-321.e6. DOI: 10.1016/j.chom.2020.05.006.

The Wsp intermembrane complex mediates metabolic control of the swim-attach decision of Pseudomonas putida.
Hueso-Gil Á, Calles B, de Lorenzo V.
Environmental Microbiology. 2020 Aug;22(8):3535-3547.
DOI: 10.1111/1462-2920.15126.

A SsrA/NIa-based Strategy for Post-Translational Regulation of Protein Levels in Gram-negative Bacteria.
Durante-Rodríguez, G., Calles, B., Lorenzo, V. d. and Nikel, P. I. (2020). 
Bio-protocol 10(14): e3688. Vol 10, Iss 14, July 20, 2020
DOI: 10.21769/BioProtoc.3688.

Pseudomonas putida from oxidative damage caused by exposure to arsenic. Environmental Microbiology
Páez-Espino AD, Nikel PI, Chavarría M, de Lorenzo V.
ArsH protects . 2020 Jun;22(6):2230-2242.
DOI: 10.1111/1462-2920.14991.

Exploiting geometric similarity for statistical quantification of fluorescence spatial patterns in bacterial colonies.
Espeso DR, Algar E, Martínez-García E, de Lorenzo V.
BMC Bioinformatics. 2020 Jun;21(1):224.
DOI: 10.1186/s12859-020-3490-1.

Surface display of designer protein scaffolds on genome-reduced strains of Pseudomonas putida
Pavel Dvořák, Edward A. Bayer, Víctor de Lorenzo
ACS Synthetic Biology, May 2020
https://doi.org/10.1101/2020.05.13.093500

Biotransformation of d-xylose to d-xylonate coupled to medium-chain-length polyhydroxyalkanoate production in cellobiose-grown Pseudomonas putida EM42
Dvořák, P., Kováč, J., de Lorenzo, V.
Microbial Biotechnology, Vol.13, Iss. 4, 1751-7915, 03 May 2020
https://doi.org/10.1111/1751-7915.13574

Multifunctional SEVA shuttle vectors for actinomycetes and Gram-negative bacteria.
García-Gutiérrez C, Aparicio T, Torres-Sánchez L, Martínez-García E, de Lorenzo V, Villar CJ, Lombó F.
Microbiology Open. 14 March 2020
doi: 10.1002/mbo3.1024.

High-Efficiency Multi-site Genomic Editing of Pseudomonas putida through Thermoinducible ssDNA Recombineering
Tomas Aparicio, Akos Nyerges, Esteban Martínez-García, Víctor de Lorenzo
iScience, Issue 23/3, Feb 2020
DOI: 10.1016/j.isci.2020.100946

Multiple-Site Diversification of Regulatory Sequences Enables Interspecies Operability of Genetic Devices.
Hueso-Gil A, Nyerges Á, Pál C, Calles B, de Lorenzo V.
ACS Synthetic Biology. 2020 Jan;9(1):104-114.
DOI: 10.1021/acssynbio.9b00375.

Mismatch repair hierarchy of Pseudomonas putida revealed by mutagenic ssDNA recombineering of the pyrF gene
Tomas Aparicio, Akos Nyerges, István Nagy, Csaba Pal, Esteban Martínez‐García, Víctor Lorenzo
Peer-review article in Environmental Microbiology, Volume 22, Issue 1, January 2020.
Published by Wiley, Hoboken, NJ, USA
http://dx.doi.org/10.1111/1462-2920.14814

Rewiring carbon metabolism in yeast for high level production of aromatic chemicals.
Quanli Liu, Tao Yu, Xiaowei Li, Yu Chen, Kate Campbell, Jens Nielsen, Yun Chen
Nat Commun. 2019 Oct 31;10(1):4976.
doi: 10.1038/s41467-019-12961-5.

Multiple-Site Diversification of Regulatory Sequences Enables Interspecies Operability of Genetic Devices
Angeles Hueso-Gil, Ákos Nyerges, Csaba Pál, Belén Calles, Víctor de Lorenzo
Peer-review article in ACS Synthetic Biology, 18.12.2019.
Published by American Chemical Society (ACS), Washington, D.C., USA
http://dx.doi.org/10.1021/acssynbio.9b00375

Digitalizing heterologous gene expression in Gram‐negative bacteria with a portable ON/OFF module
Belén Calles, Ángel Goñi‐Moreno, Víctor Lorenzo
Peer-review article in Molecular Systems Biology, Volume 15, Issue 12, 1 December 2019.
Published by EMBO, Heidelberg, Germany
http://dx.doi.org/10.15252/msb.20188777

SEVA 3.0: an update of the Standard European Vector Architecture for enabling portability of genetic constructs among diverse bacterial hosts
Esteban Martínez-García, Angel Goñi-Moreno, Bryan Bartley, James McLaughlin, Lucas Sánchez-Sampedro, Héctor Pascual del Pozo, Clara Prieto Hernández, Ada Serena Marletta, Davide De Lucrezia, Guzmán Sánchez-Fernández, Sofía Fraile, Víctor de Lorenzo
Nucleic Acids Research, Issue 48/D1, Nov 2019
DOI: 10.1093/nar/gkz1024

Repositioning microbial biotechnology against COVID‐19: the case of microbial production of flavonoids.
Tobias Goris, Álvaro Pérez‐Valero, Igor Martínez, Dong Yi, Luis Fernández‐Calleja, David San León, Uwe T. Bornscheuer, Patricia Magadán‐Corpas, Felipe Lombó, Juan Nogales.
Peer-review article in Microbial Biotechnology, 13.10.2020
Published by Society for Applied Microbiology and John Wiley & Sons Ltd., Hoboken, NJ, USA
https://doi.org/10.1111/1751-7915.13675

Pseudomonas putida in the quest of programmable chemistry
Esteban Martínez-García, Víctor de Lorenzo
Current Opinion in Biotechnology, Issue 59, Oct 2019
DOI: 10.1016/j.copbio.2019.03.012

High‐quality genome‐scale metabolic modelling of Pseudomonas putida highlights its broad metabolic capabilities
Juan Nogales, Joshua Mueller, Steinn Gudmundsson, Francisco J. Canalejo, Estrella Duque, Jonathan Monk, Adam M. Feist, Juan Luis Ramos, Wei Niu, Bernhard O. Palsson
 Environmental Microbiology, Issue 22/1, Oct 2019
DOI: 10.1111/1462-2920.14843

A Broad Host Range Plasmid-Based Roadmap for ssDNA-Based Recombineering in Gram-Negative Bacteria
Tomás Aparicio, Víctor de Lorenzo, Esteban Martínez-García
Peer-review article in Horizontal Gene Transfer, 05.10.2019.
Published by Springer US, New York, USA
http://dx.doi.org/10.1007/978-1-4939-9877-7_27

Recombination-Independent Genome Editing through CRISPR/Cas9-Enhanced TargeTron Delivery
Elena Velázquez, Víctor de Lorenzo, and Yamal Al-Ramahi
ACS Synthetic Biology 2019 8 (9), 2186-2193
DOI: 10.1021/acssynbio.9b00293

Recombination-Independent Genome Editing through CRISPR/Cas9-Enhanced TargeTron Delivery
Elena Velázquez, Víctor de Lorenzo, Yamal Al-Ramahi
Peer-review article in ACS Synthetic Biology, 16.08.2019.
Published by American Chemical Society (ACS), Washington, D.C., USA
http://dx.doi.org/10.1021/acssynbio.9b00293

Functional implementation of a linear glycolysis for sugar catabolism in Pseudomonas putida
Alberto Sánchez-Pascuala, Lorena Fernández-Cabezón, Víctor de Lorenzo, Pablo I. Nikel
Peer-review article in Metabolic Engineering, Volume 54, July 2019.
Published by Elsevier BV, Amsterdam, The Netherlands
http://dx.doi.org/10.1016/j.ymben.2019.04.005

Assembly of a Custom-made Device to Study Spreading Patterns of Pseudomonas putida Biofilm
David Espeso, Esteban Martínez-García, Víctor Lorenzo
BIO-PROTOCOL, Issue 9/10, May 2019, ISSN 2331-8325
DOI: 10.21769/bioprotoc.3238