Source: http://ingemics.es/pubs_18.html
Timestamp: 2019-04-24 03:18:50+00:00

Document:
de Lorenzo, V., Schmidt, M. (2018). Biological standards for the Knowledge-Based BioEconomy: What is at stake. N Biotechnol 40: 170-180. doi: 10.1016/j.nbt.2017.05.001.
Aparicio, T., de Lorenzo, V., Martinez-Garcia, E. (2018). CRISPR/Cas9-Based Counterselection Boosts Recombineering Efficiency in Pseudomonas putida. Biotechnol J 13: e1700161. doi: 10.1002/biot.201700161.
Ricaurte, D.E., Martinez-Garcia, E., Nyerges, A., Pal, C., de Lorenzo, V., Aparicio, T. (2018). A standardized workflow for surveying recombinases expands bacterial genome-editing capabilities. Microb Biotechnol 11: 176-188. doi: 10.1111/1751-7915.12846.
Freitas, A.R., Tedim, A.P., Novais, C., Coque, T.M., Peixe, L. (2018). Distribution of putative virulence markers in Enterococcus faecium: towards a safety profile review. J Antimicrob Chemother 73: 306-319. doi: 10.1093/jac/dkx387.
Freitas, A.R., Novais, C., Duarte, B., Pereira, A.P., Coque, T.M., Peixe, L. (2018). High rates of colonisation by ampicillin-resistant enterococci in residents of long-term care facilities in Porto, Portugal. Int J Antimicrob Agents 51: 503-507. doi: 10.1016/j.ijantimicag.2017.11.007.
Gil-Bona, A., Amador-Garcia, A., Gil, C., Monteoliva, L. (2018). The external face of Candida albicans: A proteomic view of the cell surface and the extracellular environment. J Proteomics 180: 70-79. doi: 10.1016/j.jprot.2017.12.002.
Alcalde-Rico, M., Martinez, J.L. (2018). Methods for Measuring the Production of Quorum Sensing Signal Molecules. Methods Mol Biol 1736: 1-15. doi: 10.1007/978-1-4939-7638-6_1.
Leonardi, I., Li, X., Semon, A., Li, D., Doron, I., Putzel, G., Bar, A., Prieto, D., Rescigno, M., McGovern, D.P.B., Pla, J., Iliev, I.D. (2018). CX3CR1(+) mononuclear phagocytes control immunity to intestinal fungi. Science 359: 232-236. doi: 10.1126/science.aao1503.
Lanza, V.F., Baquero, F., Martinez, J.L., Ramos-Ruiz, R., Gonzalez-Zorn, B., Andremont, A., Sanchez-Valenzuela, A., Ehrlich, S.D., Kennedy, S., Ruppe, E., van Schaik, W., Willems, R.J., de la Cruz, F., Coque, T.M. (2018). In-depth resistome analysis by targeted metagenomics. Microbiome 6: 11. doi: 10.1186/s40168-017-0387-y.
Martinez, J.L. (2018). Ecology and Evolution of Chromosomal Gene Transfer between Environmental Microorganisms and Pathogens. Microbiol Spectr 6. doi: 10.1128/microbiolspec.MTBP-0006-2016.
Nikel, P.I., de Lorenzo, V. (2018). Assessing Carbon Source-Dependent Phenotypic Variability in Pseudomonas putida. Methods Mol Biol 1745: 287-301. doi: 10.1007/978-1-4939-7680-5_16.
de Lorenzo, V. (2018). Environmental microbiology to the rescue of planet earth. Environ Microbiol. doi: 10.1111/1462-2920.14105.
de Lorenzo, V., Prather, K.L., Chen, G.Q., O'Day, E., von Kameke, C., Oyarzun, D.A., Hosta-Rigau, L., Alsafar, H., Cao, C., Ji, W., Okano, H., Roberts, R.J., Ronaghi, M., Yeung, K., Zhang, F., Lee, S.Y. (2018). The power of synthetic biology for bioproduction, remediation and pollution control: The UN's Sustainable Development Goals will inevitably require the application of molecular biology and biotechnology on a global scale. EMBO Rep 19. doi: 10.15252/embr.201745658.
Hernandez-Gonzalez, M., Bravo-Plaza, I., Pinar, M., de Los Rios, V., Arst, H.N., Jr., Penalva, M.A. (2018). Endocytic recycling via the TGN underlies the polarized hyphal mode of life. PLoS Genet 14: e1007291. doi: 10.1371/journal.pgen.1007291.
Sanchez, M.B., Martinez, J.L. (2018). Overexpression of the Efflux Pumps SmeVWX and SmeDEF Is a Major Cause of Resistance to Co-trimoxazole in Stenotrophomonas maltophilia. Antimicrob Agents Chemother 62. doi: 10.1128/aac.00301-18.
Baquero, F., Gutierrez-Fuentes, J.A. (2018). Sciences unite in Spain to promote research for advancing society. Nature 556: 31. doi: 10.1038/d41586-018-04052-0.
Baro, B., Jativa, S., Calabria, I., Vinaixa, J., Bech-Serra, J.J., de LaTorre, C., Rodrigues, J., Hernaez, M.L., Gil, C., Barcelo-Batllori, S., Larsen, M.R., Queralt, E. (2018). SILAC-based phosphoproteomics reveals new PP2A-Cdc55-regulated processes in budding yeast. Gigascience 7. doi: 10.1093/gigascience/giy047.
Mingo, J., Rodriguez-Escudero, I., Luna, S., Fernandez-Acero, T., Amo, L., Jonasson, A.R., Zori, R.T., Lopez, J.I., Molina, M., Cid, V.J., Pulido, R. (2018). A pathogenic role for germline PTEN variants which accumulate into the nucleus. Eur J Hum Genet. doi: 10.1038/s41431-018-0155-x.
Svenningsen, N.B., Martinez-Garcia, E., Nicolaisen, M.H., de Lorenzo, V., Nybroe, O. (2018). The biofilm matrix polysaccharides cellulose and alginate both protect Pseudomonas putida mt-2 against reactive oxygen species generated under matric stress and copper exposure. Microbiology 164: 883-888. doi: 10.1099/mic.0.000667.
Martinez-Garcia, L., Gonzalez-Alba, J.M., Baquero, F., Canton, R., Galan, J.C. (2018). Ceftazidime Is the Key Diversification and Selection Driver of VIM-Type Carbapenemases. MBio 9. doi: 10.1128/mBio.02109-17.
Zuniga, A., Fuente, F., Federici, F., Lionne, C., Bonnet, J., de Lorenzo, V., Gonzalez, B. (2018). An Engineered Device for Indoleacetic Acid Production under Quorum Sensing Signals Enables Cupriavidus pinatubonensis JMP134 To Stimulate Plant Growth. ACS Synth Biol 7: 1519-1527. doi: 10.1021/acssynbio.8b00002.
Goni-Moreno, A., de Lorenzo, V. (2018). Bio-Algorithmic Workflows for Standardized Synthetic Biology Constructs. Methods Mol Biol 1772: 363-372. doi: 10.1007/978-1-4939-7795-6_20.
Sanchez-Pascuala, A., Nikel, P.I., de Lorenzo, V. (2018). Re-Factoring Glycolytic Genes for Targeted Engineering of Catabolism in Gram-Negative Bacteria. Methods Mol Biol 1772: 3-24. doi: 10.1007/978-1-4939-7795-6_1.
Nikel, P.I., de Lorenzo, V. (2018). Pseudomonas putida as a functional chassis for industrial biocatalysis: From native biochemistry to trans-metabolism. Metab Eng. doi: 10.1016/j.ymben.2018.05.005.
Rodriguez-Escudero, I., Fernandez-Acero, T., Cid, V.J., Molina, M. (2018). Heterologous mammalian Akt disrupts plasma membrane homeostasis by taking over TORC2 signaling in Saccharomyces cerevisiae. Sci Rep 8: 7732. doi: 10.1038/s41598-018-25717-w.
Morales-Menchen, A., Navarro-Garcia, F., Guirao-Abad, J.P., Roman, E., Prieto, D., Coman, I.V., Pla, J., Alonso-Monge, R. (2018). Non-canonical Activities of Hog1 Control Sensitivity of Candida albicans to Killer Toxins From Debaryomyces hansenii. Front Cell Infect Microbiol 8: 135. doi: 10.3389/fcimb.2018.00135.
O'Day, E., Hosta-Rigau, L., Oyarzun, D.A., Okano, H., de Lorenzo, V., von Kameke, C., Alsafar, H., Cao, C., Chen, G.Q., Ji, W., Roberts, R.J., Ronaghi, M., Yeung, K., Zhang, F., Lee, S.Y. (2018). Are We There Yet? How and When Specific Biotechnologies Will Improve Human Health. Biotechnol J: e1800195. doi: 10.1002/biot.201800195.
Dvorak, P., de Lorenzo, V. (2018). Refactoring the upper sugar metabolism of Pseudomonas putida for co-utilization of cellobiose, xylose, and glucose. Metab Eng 48: 94-108. doi: 10.1016/j.ymben.2018.05.019.
Marin, E., Haesaert, A., Padilla, L., Adan, J., Hernaez, M.L., Monteoliva, L., Gil, C. (2018). Unraveling Gardnerella vaginalis Surface Proteins Using Cell Shaving Proteomics. Front Microbiol 9: 975. doi: 10.3389/fmicb.2018.00975.
Oravcova, V., Peixe, L., Coque, T.M., Novais, C., Francia, M.V., Literak, I., Freitas, A.R. (2018). Wild corvid birds colonized with vancomycin-resistant Enterococcus faecium of human origin harbor epidemic vanA plasmids. Environ Int 118: 125-133. doi: 10.1016/j.envint.2018.05.039.
Pantazopoulou, A., Galmarini, C.M., Penalva, M.A. (2018). Molecular basis of resistance to the microtubule-depolymerizing antitumor compound plocabulin. Sci Rep 8: 8616. doi: 10.1038/s41598-018-26736-3.
Roman, E., Huertas, B., Prieto, D., Diez-Orejas, R., Pla, J. (2018). TUP1-mediated filamentation in Candida albicans leads to inability to colonize the mouse gut. Future Microbiol 13: 857-867. doi: 10.2217/fmb-2018-0012.
Narciso-da-Rocha, C., Rocha, J., Vaz-Moreira, I., Lira, F., Tamames, J., Henriques, I., Martinez, J.L., Manaia, C.M. (2018). Bacterial lineages putatively associated with the dissemination of antibiotic resistance genes in a full-scale urban wastewater treatment plant. Environ Int 118: 179-188. doi: 10.1016/j.envint.2018.05.040.
Clemente, L.F., Hernaez, M.L., Ramos-Fernandez, A., Ligero, G., Gil, C., Corrales, F.J., Marcilla, M. (2018). Identification of the Missing Protein Hyaluronan Synthase 1 in Human Mesenchymal Stem Cells Derived from Adipose Tissue or Umbilical Cord. J Proteome Res. doi: 10.1021/acs.jproteome.8b00384.
Valderrama, M.J., Gonzalez-Zorn, B., de Pablo, P.C., Diez-Orejas, R., Fernandez-Acero, T., Gil-Serna, J., de Juan, L., Martin, H., Molina, M., Navarro-Garcia, F., Patino, B., Pla, J., Prieto, D., Rodriguez, C., Roman, E., Sanz-Santamaria, A.B., de Siloniz, M.I., Suarez, M., Vazquez, C., Cid, V.J. (2018). Educating in antimicrobial resistance awareness: adaptation of the Small World Initiative program to service-learning. FEMS Microbiol Lett. doi: 10.1093/femsle/fny161.
Zhang, X., Zou, Q., Rodriguez-Paton, A., Zeng, X. (2019). Meta-Path Methods for Prioritizing Candidate Disease miRNAs. IEEE/ACM Trans Comput Biol Bioinform 16: 283-291. doi: 10.1109/tcbb.2017.2776280.
Hernandez-Gonzalez, M., Pantazopoulou, A., Spanoudakis, D., Seegers, C.L.C., Penalva, M.A. (2018). Genetic dissection of the secretory route followed by a fungal extracellular glycosyl hydrolase. Mol Microbiol. doi: 10.1111/mmi.14073.
Novais, C., Campos, J., Freitas, A.R., Barros, M., Silveira, E., Coque, T.M., Antunes, P., Peixe, L. (2018). Water supply and feed as sources of antimicrobial-resistant Enterococcus spp. in aquacultures of rainbow trout (Oncorhyncus mykiss), Portugal. Sci Total Environ 625: 1102-1112. doi: 10.1016/j.scitotenv.2017.12.265.
Russo, N., Caggia, C., Pino, A., Coque, T.M., Arioli, S., Randazzo, C.L. (2018). Enterococcus spp. in Ragusano PDO and Pecorino Siciliano cheese types: A snapshot of their antibiotic resistance distribution. Food Chem Toxicol 120: 277-286. doi: 10.1016/j.fct.2018.07.023.
Chavarria, M., de Lorenzo, V. (2018). The imbroglio of the physiological Cra effector clarified at last. Mol Microbiol 109: 273-277. doi: 10.1111/mmi.14080.
Angers-Loustau, A., Petrillo, M., Bengtsson-Palme, J., Berendonk, T., Blais, B., Chan, K.G., Coque, T.M., Hammer, P., Hess, S., Kagkli, D.M., Krumbiegel, C., Lanza, V.F., Madec, J.Y., Naas, T., O'Grady, J., Paracchini, V., Rossen, J.W.A., Ruppe, E., Vamathevan, J., Venturi, V., Van den Eede, G. (2018). The challenges of designing a benchmark strategy for bioinformatics pipelines in the identification of antimicrobial resistance determinants using next generation sequencing technologies. F1000Res 7: 459. doi: 10.12688/f1000research.14509.1.
Torres, C., Alonso, C.A., Ruiz-Ripa, L., Leon-Sampedro, R., Del Campo, R., Coque, T.M. (2018). Antimicrobial Resistance in Enterococcus spp. of animal origin. Microbiol Spectr 6. doi: 10.1128/microbiolspec.ARBA-0032-2018.
Viegas, S.C., Apura, P., Martinez-Garcia, E., de Lorenzo, V., Arraiano, C.M. (2018). Modulating Heterologous Gene Expression with Portable mRNA-Stabilizing 5'-UTR Sequences. ACS Synth Biol 7: 2177-2188. doi: 10.1021/acssynbio.8b00191.
Sanz-Garcia, F., Hernando-Amado, S., Martinez, J.L. (2018). Mutation-Driven Evolution of Pseudomonas aeruginosa in the Presence of either Ceftazidime or Ceftazidime-Avibactam. Antimicrob Agents Chemother 62. doi: 10.1128/aac.01379-18.
Fernandez, S., Rodriguez, S., Martinez, J.L., Borrell, Y.J., Ardura, A., Garcia-Vazquez, E. (2018). Evaluating freshwater macroinvertebrates from eDNA metabarcoding: A river Nalon case study. PLoS One 13: e0201741. doi: 10.1371/journal.pone.0201741.
de Lorenzo, V. (2018). Evolutionary tinkering vs. rational engineering in the times of synthetic biology. Life Sci Soc Policy 14: 18. doi: 10.1186/s40504-018-0086-x.
Blanco, P., Corona, F., Martinez, J.L. (2018). Biolog Phenotype Microarray Is a Tool for the Identification of Multidrug Resistance Efflux Pump Inducers. Antimicrob Agents Chemother 62. doi: 10.1128/aac.01263-18.
Espeso, D.R., Martinez-Garcia, E., Carpio, A., de Lorenzo, V. (2018). Dynamics of Pseudomonas putida biofilms in an upscale experimental framework. J Ind Microbiol Biotechnol 45: 899-911. doi: 10.1007/s10295-018-2070-0.
Akkaya, O., Perez-Pantoja, D.R., Calles, B., Nikel, P.I., de Lorenzo, V. (2018). The Metabolic Redox Regime of Pseudomonas putida Tunes Its Evolvability toward Novel Xenobiotic Substrates. MBio 9. doi: 10.1128/mBio.01512-18.
Di Tocco, A., Robledo, S.N., Osuna, Y., Sandoval-Cortez, J., Granero, A.M., Vettorazzi, N.R., Martinez, J.L., Segura, E.P., Ilina, A., Zon, M.A., Arevalo, F.J., Fernandez, H. (2018). Development of an electrochemical biosensor for the determination of triglycerides in serum samples based on a lipase/magnetite-chitosan/copper oxide nanoparticles/multiwalled carbon nanotubes/pectin composite. Talanta 190: 30-37. doi: 10.1016/j.talanta.2018.07.028.
Hernandez-Garcia, M., Leon-Sampedro, R., Perez-Viso, B., Morosini, M.I., Lopez-Fresnena, N., Diaz-Agero, C., Coque, T.M., Ruiz-Garbajosa, P., Canton, R. (2018). First Report of an OXA-48- and CTX-M-213-Producing Kluyvera Species Clone Recovered from Patients Admitted in a University Hospital in Madrid, Spain. Antimicrob Agents Chemother 62. doi: 10.1128/aac.01238-18.
Baquero, F. (2018). Causality in Biological Transmission: Forces and Energies. Microbiol Spectr 6. doi: 10.1128/microbiolspec.MTBP-0018-2016.
Blanco, P., Sanz-Garcia, F., Hernando-Amado, S., Martinez, J.L., Alcalde-Rico, M. (2018). The development of efflux pump inhibitors to treat Gram-negative infections. Expert Opin Drug Discov 13: 919-931. doi: 10.1080/17460441.2018.1514386.
Perez-Pantoja, D., Kim, J., Platero, R., de Lorenzo, V. (2018). The interplay of EIIA(Ntr) with C-source regulation of the Pu promoter of Pseudomonas putida mt-2. Environ Microbiol. doi: 10.1111/1462-2920.14410.
Bernardini, A., Cuesta, T., Tomas, A., Bengoechea, J.A., Martinez, J.L., Sanchez, M.B. (2019). The intrinsic resistome of Klebsiella pneumoniae. Int J Antimicrob Agents 53: 29-33. doi: 10.1016/j.ijantimicag.2018.09.012.
Song, T., Zeng, X., Zheng, P., Jiang, M., Rodriguez-Paton, A. (2018). A Parallel Workflow Pattern Modeling Using Spiking Neural P Systems With Colored Spikes. IEEE Trans Nanobioscience 17: 474-484. doi: 10.1109/tnb.2018.2873221.
Durante-Rodriguez, G., de Lorenzo, V., Nikel, P.I. (2018). A Post-translational Metabolic Switch Enables Complete Decoupling of Bacterial Growth from Biopolymer Production in Engineered Escherichia coli. ACS Synth Biol 7: 2686-2697. doi: 10.1021/acssynbio.8b00345.
Sanz, A.B., Garcia, R., Rodriguez-Pena, J.M., Nombela, C., Arroyo, J. (2018). Slt2 MAPK association with chromatin is required for transcriptional activation of Rlm1 dependent genes upon cell wall stress. Biochim Biophys Acta Gene Regul Mech 1861: 1029-1039. doi: 10.1016/j.bbagrm.2018.09.005.
de Lorenzo, V., Marliere, P. (2019). The Synthetic Microbiology Caucus: a fresh channel for exploring new ideas, challenging conventional wisdom and fostering community projects. Microb Biotechnol 12: 3-4. doi: 10.1111/1751-7915.13331.
Akkaya, O., Nikel, P.I., Perez-Pantoja, D., de Lorenzo, V. (2019). Evolving metabolism of 2,4-dinitrotoluene triggers SOS-independent diversification of host cells. Environ Microbiol 21: 314-326. doi: 10.1111/1462-2920.14459.
Pitarch, A., Nombela, C., Gil, C. (2018). Diagnosis of Invasive Candidiasis: From Gold Standard Methods to Promising Leading-edge Technologies. Curr Top Med Chem 18: 1375-1392. doi: 10.2174/1568026618666181025093146.
Sanz-Garcia, F., Hernando-Amado, S., Martinez, J.L. (2018). Mutational Evolution of Pseudomonas aeruginosa Resistance to Ribosome-Targeting Antibiotics. Front Genet 9: 451. doi: 10.3389/fgene.2018.00451.
Corona, F., Martinez, J.L., Nikel, P.I. (2018). The global regulator Crc orchestrates the metabolic robustness underlying oxidative stress resistance in Pseudomonas aeruginosa. Environ Microbiol. doi: 10.1111/1462-2920.14471.
Aparicio, T., de Lorenzo, V., Martinez-Garcia, E. (2019). Improved Thermotolerance of Genome-Reduced Pseudomonas putida EM42 Enables Effective Functioning of the PL /cI857 System. Biotechnol J 14: e1800483. doi: 10.1002/biot.201800483.
Corona, F., Reales-Calderon, J.A., Gil, C., Martinez, J.L. (2018). The development of a new parameter for tracking post-transcriptional regulation allows the detailed map of the Pseudomonas aeruginosa Crc regulon. Sci Rep 8: 16793. doi: 10.1038/s41598-018-34741-9.
Bender, J.K., Cattoir, V., Hegstad, K., Sadowy, E., Coque, T.M., Westh, H., Hammerum, A.M., Schaffer, K., Burns, K., Murchan, S., Novais, C., Freitas, A.R., Peixe, L., Del Grosso, M., Pantosti, A., Werner, G. (2018). Update on prevalence and mechanisms of resistance to linezolid, tigecycline and daptomycin in enterococci in Europe: Towards a common nomenclature. Drug Resist Updat 40: 25-39. doi: 10.1016/j.drup.2018.10.002.
Ruppe, E., Ghozlane, A., Tap, J., Pons, N., Alvarez, A.S., Maziers, N., Cuesta, T., Hernando-Amado, S., Clares, I., Martinez, J.L., Coque, T.M., Baquero, F., Lanza, V.F., Maiz, L., Goulenok, T., de Lastours, V., Amor, N., Fantin, B., Wieder, I., Andremont, A., van Schaik, W., Rogers, M., Zhang, X., Willems, R.J.L., de Brevern, A.G., Batto, J.M., Blottiere, H.M., Leonard, P., Lejard, V., Letur, A., Levenez, F., Weiszer, K., Haimet, F., Dore, J., Kennedy, S.P., Ehrlich, S.D. (2019). Prediction of the intestinal resistome by a three-dimensional structure-based method. Nat Microbiol 4: 112-123. doi: 10.1038/s41564-018-0292-6.
de Lorenzo, V., Couto, J. (2019). The important versus the exciting: reining contradictions in contemporary biotechnology. Microb Biotechnol 12: 32-34. doi: 10.1111/1751-7915.13348.
Alcalde-Rico, M., Olivares-Pacheco, J., Alvarez-Ortega, C., Camara, M., Martinez, J.L. (2018). Role of the Multidrug Resistance Efflux Pump MexCD-OprJ in the Pseudomonas aeruginosa Quorum Sensing Response. Front Microbiol 9: 2752. doi: 10.3389/fmicb.2018.02752.
Coronas-Serna, J.M., Fernandez-Acero, T., Molina, M., Cid, V.J. (2018). A humanized yeast-based toolkit for monitoring phosphatidylinositol 3-kinase activity at both single cell and population levels. Microb Cell 5: 545-554. doi: 10.15698/mic2018.12.660.
Hernandez-Gonzalez, M., Bravo-Plaza, I., de Los Rios, V., Pinar, M., Pantazopoulou, A., Penalva, M.A. (2019). COPI localizes to the early Golgi in Aspergillus nidulans. Fungal Genet Biol 123: 78-86. doi: 10.1016/j.fgb.2018.12.003.
Frost, A.T., Jacobsen, I.H., Worberg, A., Martinez, J.L. (2018). How Synthetic Biology and Metabolic Engineering Can Boost the Generation of Artificial Blood Using Microbial Production Hosts. Front Bioeng Biotechnol 6: 186. doi: 10.3389/fbioe.2018.00186.
Del Campo, R., Martinez-Garcia, L., Sanchez-Diaz, A.M., Baquero, F. (2019). Biology of Hand-to-Hand Bacterial Transmission. Microbiol Spectr 7. doi: 10.1128/microbiolspec.MTBP-0011-2016.
Amann, R.I., Baichoo, S., Blencowe, B.J., Bork, P., Borodovsky, M., Brooksbank, C., Chain, P.S.G., Colwell, R.R., Daffonchio, D.G., Danchin, A., de Lorenzo, V., Dorrestein, P.C., Finn, R.D., Fraser, C.M., Gilbert, J.A., Hallam, S.J., Hugenholtz, P., Ioannidis, J.P.A., Jansson, J.K., Kim, J.F., Klenk, H.P., Klotz, M.G., Knight, R., Konstantinidis, K.T., Kyrpides, N.C., Mason, C.E., McHardy, A.C., Meyer, F., Ouzounis, C.A., Patrinos, A.A.N., Podar, M., Pollard, K.S., Ravel, J., Munoz, A.R., Roberts, R.J., Rossello-Mora, R., Sansone, S.A., Schloss, P.D., Schriml, L.M., Setubal, J.C., Sorek, R., Stevens, R.L., Tiedje, J.M., Turjanski, A., Tyson, G.W., Ussery, D.W., Weinstock, G.M., White, O., Whitman, W.B., Xenarios, I. (2019). Toward unrestricted use of public genomic data. Science 363: 350-352. doi: 10.1126/science.aaw1280.
Kim, J., Goni-Moreno, A., Calles, B., de Lorenzo, V. (2019). Spatial organization of the gene expression hardware in Pseudomonas putida. Environ Microbiol. doi: 10.1111/1462-2920.14544.
Goni-Moreno, A., de la Cruz, F., Rodriguez-Paton, A., Amos, M. (2019). Dynamical Task Switching in Cellular Computers. Life (Basel) 9. doi: 10.3390/life9010014.
Campos, M., Capilla, R., Naya, F., Futami, R., Coque, T., Moya, A., Fernandez-Lanza, V., Canton, R., Sempere, J.M., Llorens, C., Baquero, F. (2019). Simulating Multilevel Dynamics of Antimicrobial Resistance in a Membrane Computing Model. MBio 10. doi: 10.1128/mBio.02460-18.
Martinez, J.L., Bosco-Garate, I., Souza-Gallardo, L.M., Mendez, J.D., Juarez-Oropeza, M.A., Roman-Ramos, R., Ferat-Osorio, E. (2019). Effect of Preoperative Administration of Oral Arginine and Glutamine in Patients with Enterocutaneous Fistula Submitted to Definitive Surgery: a Prospective Randomized Trial. J Gastrointest Surg. doi: 10.1007/s11605-018-04099-4.
Song, T., Pan, L., Wu, T., Zheng, P., Wong, M.L.D., Rodriguez-Paton, A. (2019). Spiking Neural P Systems with Learning Functions. IEEE Trans Nanobioscience. doi: 10.1109/tnb.2019.2896981.
Ishchuk, O.P., Martinez, J.L., Petranovic, D. (2019). Improving the Production of Cofactor-Containing Proteins: Production of Human Hemoglobin in Yeast. Methods Mol Biol 1923: 243-264. doi: 10.1007/978-1-4939-9024-5_11.
Liu, X., Hong, Z., Liu, J., Lin, Y., Rodriguez-Paton, A., Zou, Q., Zeng, X. (2019). Computational methods for identifying the critical nodes in biological networks. Brief Bioinform. doi: 10.1093/bib/bbz011.
Roman, E., Coman, I., Prieto, D., Alonso-Monge, R., Pla, J. (2019). Implementation of a CRISPR-Based System for Gene Regulation in Candida albicans. mSphere 4. doi: 10.1128/mSphere.00001-19.
Boel, G., Danot, O., de Lorenzo, V., Danchin, A. (2019). Omnipresent Maxwell's demons orchestrate information management in living cells. Microb Biotechnol 12: 210-242. doi: 10.1111/1751-7915.13378.
Flecha-Velazquez, K., Fahey, T.D., Martinez, J.L., Lopez-Taylor, J.R., Rivera, M.A. (2019). KCNA4 Gene Variant is Auxiliary in Endurance Running Performance Level. Int J Sports Med. doi: 10.1055/a-0824-5394.
Garcia, R., Pulido, V., Orellana-Munoz, S., Nombela, C., Vazquez de Aldana, C.R., Rodriguez-Pena, J.M., Arroyo, J. (2019). Signalling through the yeast MAPK Cell Wall Integrity pathway controls P-body assembly upon cell wall stress. Sci Rep 9: 3186. doi: 10.1038/s41598-019-40112-9.
Mahnert, A., Moissl-Eichinger, C., Zojer, M., Bogumil, D., Mizrahi, I., Rattei, T., Martinez, J.L., Berg, G. (2019). Man-made microbial resistances in built environments. Nat Commun 10: 968. doi: 10.1038/s41467-019-08864-0.
de Lorenzo, V., y Schmidt, M. (2018) Biological standards for the Knowledge-Based BioEconomy: What is at stake. N Biotechnol 40: 170-180. doi: 10.1016/j.nbt.2017.05.001.
Aparicio, T., de Lorenzo, V., y Martinez-Garcia, E. (2018) CRISPR/Cas9-based counterselection boosts recombineering efficiency in Pseudomonas putida. Biotechnol J 13: e1700161. doi: 10.1002/biot.201700161.
Ricaurte, D.E., Martinez-Garcia, E., Nyerges, A., Pal, C., de Lorenzo, V., y Aparicio, T. (2018) A standardized workflow for surveying recombinases expands bacterial genome-editing capabilities. Microb Biotechnol 11: 176-188. doi: 10.1111/1751-7915.12846.
Freitas, A.R., Tedim, A.P., Novais, C., Coque, T.M., y Peixe, L. (2018) Distribution of putative virulence markers in Enterococcus faecium: towards a safety profile review. J Antimicrob Chemother 73: 306-319. doi: 10.1093/jac/dkx387.
Freitas, A.R., Novais, C., Duarte, B., Pereira, A.P., Coque, T.M., y Peixe, L. (2018) High rates of colonisation by ampicillin-resistant enterococci in residents of long-term care facilities in Porto, Portugal. Int J Antimicrob Agents 51: 503-507. doi: 10.1016/j.ijantimicag.2017.11.007.
Gil-Bona, A., Amador-Garcia, A., Gil, C., y Monteoliva, L. (2018) The external face of Candida albicans: A proteomic view of the cell surface and the extracellular environment. J Proteomics 180: 70-79. doi: 10.1016/j.jprot.2017.12.002.
Alcalde-Rico, M., y Martinez, J.L. (2018) Methods for measuring the production of quorum sensing signal molecules. Methods Mol Biol 1736: 1-15. doi: 10.1007/978-1-4939-7638-6_1.
Leonardi, I., Li, X., Semon, A., Li, D., Doron, I., Putzel, G., Bar, A., Prieto, D., Rescigno, M., McGovern, D.P.B., Pla, J., y Iliev, I.D. (2018) CX3CR1(+) mononuclear phagocytes control immunity to intestinal fungi. Science 359: 232-236. doi: 10.1126/science.aao1503.
Lanza, V.F., Baquero, F., Martinez, J.L., Ramos-Ruiz, R., Gonzalez-Zorn, B., Andremont, A., Sanchez-Valenzuela, A., Ehrlich, S.D., Kennedy, S., Ruppe, E., van Schaik, W., Willems, R.J., de la Cruz, F., y Coque, T.M. (2018) In-depth resistome analysis by targeted metagenomics. Microbiome 6: 11. doi: 10.1186/s40168-017-0387-y.
Martinez, J.L. (2018) Ecology and evolution of chromosomal gene transfer between environmental microorganisms and pathogens. Microbiol Spectr 6. doi: 10.1128/microbiolspec.MTBP-0006-2016.
Nikel, P.I., y de Lorenzo, V. (2018) Assessing carbon source-dependent phenotypic variability in Pseudomonas putida. Methods Mol Biol 1745: 287-301. doi: 10.1007/978-1-4939-7680-5_16.
de Lorenzo, V. (2018) Environmental microbiology to the rescue of planet earth. Environ Microbiol doi: 10.1111/1462-2920.14105.
de Lorenzo, V., Prather, K.L., Chen, G.Q., O'Day, E., von Kameke, C., Oyarzun, D.A., Hosta-Rigau, L., Alsafar, H., Cao, C., Ji, W., Okano, H., Roberts, R.J., Ronaghi, M., Yeung, K., Zhang, F., y Lee, S.Y. (2018) The power of synthetic biology for bioproduction, remediation and pollution control: The UN's Sustainable Development Goals will inevitably require the application of molecular biology and biotechnology on a global scale. EMBO Rep 19. doi: 10.15252/embr.201745658.
Sanchez, M.B., y Martinez, J.L. (2018) Overexpression of the efflux pumps SmeVWX and SmeDEF is a major cause of resistance to co-trimoxazole in Stenotrophomonas maltophilia. Antimicrob Agents Chemother 62. doi: 10.1128/aac.00301-18.
Baquero, F., y Gutierrez-Fuentes, J.A. (2018) Sciences unite in Spain to promote research for advancing society. Nature 556: 31. doi: 10.1038/d41586-018-04052-0.
Baro, B., Jativa, S., Calabria, I., Vinaixa, J., Bech-Serra, J.J., de LaTorre, C., Rodrigues, J., Hernaez, M.L., Gil, C., Barcelo-Batllori, S., Larsen, M.R., y Queralt, E. (2018) SILAC-based phosphoproteomics reveals new PP2A-Cdc55-regulated processes in budding yeast. Gigascience 7. doi: 10.1093/gigascience/giy047.
Mingo, J., Rodriguez-Escudero, I., Luna, S., Fernandez-Acero, T., Amo, L., Jonasson, A.R., Zori, R.T., Lopez, J.I., Molina, M., Cid, V.J., y Pulido, R. (2018) A pathogenic role for germline PTEN variants which accumulate into the nucleus. Eur J Hum Genet doi: 10.1038/s41431-018-0155-x.
Svenningsen, N.B., Martinez-Garcia, E., Nicolaisen, M.H., de Lorenzo, V., y Nybroe, O. (2018) The biofilm matrix polysaccharides cellulose and alginate both protect Pseudomonas putida mt-2 against reactive oxygen species generated under matric stress and copper exposure. Microbiology 164: 883-888. doi: 10.1099/mic.0.000667.
Martinez-Garcia, L., Gonzalez-Alba, J.M., Baquero, F., Canton, R., y Galan, J.C. (2018) Ceftazidime is the key diversification and selection driver of VIM-type carbapenemases. MBio 9. doi: 10.1128/mBio.02109-17.
Zuniga, A., Fuente, F., Federici, F., Lionne, C., Bonnet, J., de Lorenzo, V., y Gonzalez, B. (2018) An engineered device for indoleacetic acid production under quorum sensing signals enables Cupriavidus pinatubonensis JMP134 to stimulate plant growth. ACS Synth Biol 7: 1519-1527. doi: 10.1021/acssynbio.8b00002.
Goni-Moreno, A., y de Lorenzo, V. (2018) Bio-algorithmic workflows for standardized synthetic biology constructs. Methods Mol Biol 1772: 363-372. doi: 10.1007/978-1-4939-7795-6_20.
Sanchez-Pascuala, A., Nikel, P.I., y de Lorenzo, V. (2018) Re-factoring glycolytic genes for targeted engineering of catabolism in Gram-negative bacteria. Methods Mol Biol 1772: 3-24. doi: 10.1007/978-1-4939-7795-6_1.
Nikel, P.I., y de Lorenzo, V. (2018) Pseudomonas putida as a functional chassis for industrial biocatalysis: From native biochemistry to trans-metabolism. Metab Eng doi: 10.1016/j.ymben.2018.05.005.
Rodriguez-Escudero, I., Fernandez-Acero, T., Cid, V.J., y Molina, M. (2018) Heterologous mammalian Akt disrupts plasma membrane homeostasis by taking over TORC2 signaling in Saccharomyces cerevisiae. Sci Rep 8: 7732. doi: 10.1038/s41598-018-25717-w.
Morales-Menchen, A., Navarro-Garcia, F., Guirao-Abad, J.P., Roman, E., Prieto, D., Coman, I.V., Pla, J., y Alonso-Monge, R. (2018) Non-canonical activities of Hog1 control sensitivity of Candida albicans to killer toxins from Debaryomyces hansenii. Front Cell Infect Microbiol 8: 135. doi: 10.3389/fcimb.2018.00135.
O'Day, E., Hosta-Rigau, L., Oyarzun, D.A., Okano, H., de Lorenzo, V., von Kameke, C., Alsafar, H., Cao, C., Chen, G.Q., Ji, W., Roberts, R.J., Ronaghi, M., Yeung, K., Zhang, F., y Lee, S.Y. (2018) Are we there yet? How and when specific biotechnologies will improve human health. Biotechnol J doi: 10.1002/biot.201800195.
Dvorak, P., y de Lorenzo, V. (2018) Refactoring the upper sugar metabolism of Pseudomonas putida for co-utilization of cellobiose, xylose, and glucose. Metab Eng 48: 94-108. doi: 10.1016/j.ymben.2018.05.019.
Marin, E., Haesaert, A., Padilla, L., Adan, J., Hernaez, M.L., Monteoliva, L., y Gil, C. (2018) Unraveling Gardnerella vaginalis surface proteins using cell shaving proteomics. Front Microbiol 9: 975. doi: 10.3389/fmicb.2018.00975.
Oravcova, V., Peixe, L., Coque, T.M., Novais, C., Francia, M.V., Literak, I., y Freitas, A.R. (2018) Wild corvid birds colonized with vancomycin-resistant Enterococcus faecium of human origin harbor epidemic vanA plasmids. Environ Int 118: 125-133. doi: 10.1016/j.envint.2018.05.039.
Roman, E., Huertas, B., Prieto, D., Diez-Orejas, R., y Pla, J. (2018) TUP1-mediated filamentation in Candida albicans leads to inability to colonize the mouse gut. Future Microbiol 13: 857-867. doi: 10.2217/fmb-2018-0012.
Narciso-da-Rocha, C., Rocha, J., Vaz-Moreira, I., Lira, F., Tamames, J., Henriques, I., Martinez, J.L., y Manaia, C.M. (2018) Bacterial lineages putatively associated with the dissemination of antibiotic resistance genes in a full-scale urban wastewater treatment plant. Environ Int 118: 179-188. doi: 10.1016/j.envint.2018.05.040.
Valderrama, M.J., Gonzalez-Zorn, B., de Pablo, P.C., Diez-Orejas, R., Fernandez-Acero, T., Gil-Serna, J., de Juan, L., Martin, H., Molina, M., Navarro-Garcia, F., Patino, B., Pla, J., Prieto, D., Rodriguez, C., Roman, E., Sanz-Santamaria, A.B., de Siloniz, M.I., Suarez, M., Vazquez, C., y Cid, V.J. (2018) Educating in antimicrobial resistance awareness: adaptation of the Small World Initiative program to service-learning. FEMS Microbiol Lett doi: 10.1093/femsle/fny161.
Hernandez-Gonzalez, M., Bravo-Plaza, I., Pinar, M., de Los Rios, V., Arst, H.N., Jr., y Peñalva, M.A. (2018) Endocytic recycling via the TGN underlies the polarized hyphal mode of life. PLoS Genet 14: e1007291. doi: 10.1371/journal.pgen.1007291.
Pantazopoulou, A., Galmarini, C.M., y Peñalva, M.A. (2018) Molecular basis of resistance to the microtubule-depolymerizing antitumor compound plocabulin. Sci Rep 8: 8616. doi: 10.1038/s41598-018-26736-3.
Clemente, L.F., Hernaez, M.L., Ramos-Fernandez, A., Ligero, G., Gil, C., Corrales, F.J., y Marcilla, M. (2018) Identification of the missing protein hyaluronan synthase 1 in human mesenchymal stem cells derived from adipose tissue or umbilical cord. J Proteome Res. doi: 10.1021/acs.jproteome.8b00384.
Hernandez-Gonzalez, M., Pantazopoulou, A., Spanoudakis, D., Seegers, C.L.C., y Peñalva, M.A. (2018) Genetic dissection of the secretory route followed by a fungal extracellular glycosyl hydrolase. Mol Microbiol. doi: 10.1111/mmi.14073.
Novais, C., Campos, J., Freitas, A.R., Barros, M., Silveira, E., Coque, T.M., Antunes, P., y Peixe, L. (2018) Water supply and feed as sources of antimicrobial-resistant Enterococcus spp. in aquacultures of rainbow trout (Oncorhyncus mykiss), Portugal. Sci Total Environ 625: 1102-1112. doi: 10.1016/j.scitotenv.2017.12.265.
Russo, N., Caggia, C., Pino, A., Coque, T.M., Arioli, S., y Randazzo, C.L. (2018) Enterococcus spp. in Ragusano PDO and Pecorino Siciliano cheese types: A snapshot of their antibiotic resistance distribution. Food Chem Toxicol 120: 277-286. doi: 10.1016/j.fct.2018.07.023.
Chavarria, M., y de Lorenzo, V. (2018) The imbroglio of the physiological Cra effector clarified at last. Mol Microbiol 109: 273-277. doi: 10.1111/mmi.14080.
Angers-Loustau, A., Petrillo, M., Bengtsson-Palme, J., Berendonk, T., Blais, B., Chan, K.G., Coque, T.M., Hammer, P., Hess, S., Kagkli, D.M., Krumbiegel, C., Lanza, V.F., Madec, J.Y., Naas, T., O'Grady, J., Paracchini, V., Rossen, J.W.A., Ruppe, E., Vamathevan, J., Venturi, V., y Van den Eede, G. (2018) The challenges of designing a benchmark strategy for bioinformatics pipelines in the identification of antimicrobial resistance determinants using next generation sequencing technologies. F1000Res 7: 459. doi: 10.12688/f1000research.14509.1.
Torres, C., Alonso, C.A., Ruiz-Ripa, L., Leon-Sampedro, R., Del Campo, R., y Coque, T.M. (2018) Antimicrobial resistance in Enterococcus spp. of animal origin. Microbiol Spectr 6. doi: 10.1128/microbiolspec.ARBA-0032-2018.
Viegas, S.C., Apura, P., Martinez-Garcia, E., de Lorenzo, V., y Arraiano, C.M. (2018) Modulating heterologous gene expression with portable mRNA-stabilizing 5'-UTR sequences. ACS Synth Biol 7: 2177-2188. doi: 10.1021/acssynbio.8b00191.
Sanz-Garcia, F., Hernando-Amado, S., y Martinez, J.L. (2018) Mutation-driven evolution of Pseudomonas aeruginosa in the presence of either ceftazidime or ceftazidime-avibactam. Antimicrob Agents Chemother 62. doi: 10.1128/aac.01379-18.
de Lorenzo, V. (2018) Evolutionary tinkering vs. rational engineering in the times of synthetic biology. Life Sci Soc Policy 14: 18. doi: 10.1186/s40504-018-0086-x.
Blanco, P., Corona, F., y Martinez, J.L. (2018) Biolog phenotype microarray: a tool for the identification of multidrug resistance efflux pumps inducers. Antimicrob Agents Chemother. doi: 10.1128/aac.01263-18.
Espeso, D.R., Martinez-Garcia, E., Carpio, A., y de Lorenzo, V. (2018) Dynamics of Pseudomonas putida biofilms in an upscale experimental framework. J Ind Microbiol Biotechnol 45: 899-911. doi: 10.1007/s10295-018-2070-0.
Akkaya, O., Perez-Pantoja, D.R., Calles, B., Nikel, P.I., y de Lorenzo, V. (2018) The metabolic redox regime of Pseudomonas putida tunes its evolvability toward novel xenobiotic substrates. MBio 9. doi: 10.1128/mBio.01512-18.
Baquero, F. (2018) Causality in biological transmission: Forces and energies. Microbiol Spectr 6. doi: 10.1128/microbiolspec.MTBP-0018-2016.
Blanco, P., Sanz-Garcia, F., Hernando-Amado, S., Martinez, J.L., y Alcalde-Rico, M. (2018) The development of efflux pump inhibitors to treat Gram-negative infections. Expert Opin Drug Discov: 1-13. doi: 10.1080/17460441.2018.1514386.
Perez-Pantoja, D., Kim, J., Platero, R., y de Lorenzo, V. (2018) The interplay of EIIA(Ntr) with C-source regulation of the Pu promoter of Pseudomonas putida mt-2. Environ Microbiol. doi: 10.1111/1462-2920.14410.
Bernardini, A., Cuesta, T., Tomas, A., Bengoechea, J.A., Martinez, J.L., y Sanchez, M.B. (2018) The intrinsic resistome of Klebsiella pneumoniae. Int J Antimicrob Agents. doi: 10.1016/j.ijantimicag.2018.09.012.
Ruppé, E., Ghozlane, A., Tap, J., Pons, N., Alvarez, A.-S., Maziers, N., Cuesta, T., Hernando-Amado, S., Clares, I., Martínez, J.L., Coque, T.M., Baquero, F., et al. (2018) Prediction of the intestinal resistome by a three-dimensional structure-based method. Nature Microbiology. doi: 10.1038/s41564-018-0292-6.

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