The metabolic response of P. putida KT2442 producing high levels of polyhydroxyalkanoate under single- and multiple-nutrient-limited growth: highlights from a multi-level omics app... von Poblete-Castro, Ignacio, Escapa, Isabel F, Jäger, Christian, Puchalka, Jacek, Lam, Carolyn Ming Chi, Schomburg, Dietmar, Prieto, María Auxiliadora, Martins dos Santos, Vítor A P

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Context matters: On the road to responsible biosafety technologies in synthetic biology von Kallergi, Amalia, Asin-Garcia, Enrique, Martins dos Santos, Vitor AP, Landeweerd, Laurens

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PortPred: Exploiting deep learning embeddings of amino acid sequences for the identification of transporter proteins and their substrates von Anteghini, Marco, Santos, Vitor Ap Martins Dos, Saccenti, Edoardo

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Ex vivo transcriptional profiling reveals a common set of genes important for the adaptation of Pseudomonas aeruginosa to chronically infected host sites von Bielecki, Piotr, Komor, Uliana, Bielecka, Agata, Müsken, Mathias, Puchałka, Jacek, Pletz, Mathias W., Ballmann, Manfred, Martins dos Santos, Vítor AP, Weiss, Siegfried, Häussler, Susanne

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Genome sequence of the ubiquitous hydrocarbon-degrading marine bacterium Alcanivorax borkumensis von dos Santos, Vítor AP Martins, Schneiker, Susanne, Bartels, Daniela, Bekel, Thomas, Brecht, Martina, Buhrmester, Jens, Chernikova, Tatyana N, Denaro, Renata, Ferrer, Manuel, Gertler, Christoph, Goesmann, Alexander, Golyshina, Olga V, Kaminski, Filip, Khachane, Amit N, Lang, Siegmund, Linke, Burkhard, McHardy, Alice C, Meyer, Folker, Nechitaylo, Taras, Pühler, Alfred, Regenhardt, Daniela, Rupp, Oliver, Sabirova, Julia S, Selbitschka, Werner, Yakimov, Michail M, Timmis, Kenneth N, Vorhölter, Frank-Jörg, Weidner, Stefan, Kaiser, Olaf, Golyshin, Peter N

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The revisited genome of Pseudomonas putida KT2440 enlightens its value as a robust metabolic chassis von Belda, Eugeni, van Heck, Ruben G. A., 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., de Lorenzo, Víctor, Danchin, Antoine, Médigue, Claudine

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Network analysis of temporal functionalities of the gut induced by perturbations in new-born piglets von Benis, Nirupama, Schokker, Dirkjan, Suarez-Diez, Maria, Martins Dos Santos, Vitor A P, Smidt, Hauke, Smits, Mari A

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RDF2Graph a tool to recover, understand and validate the ontology of an RDF resource von van Dam, Jesse Cj, Koehorst, Jasper J, Schaap, Peter J, Martins Dos Santos, Vitor Ap, Suarez-Diez, Maria

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Discriminatory plasma biomarkers predict specific clinical phenotypes of necrotizing soft-tissue infections von Medina, Laura M. Palma, Rath, Eivind, Jahagirdar, Sanjeevan, Bruun, Trond, Madsen, Martin B., Stralin, Kristoffer, Unge, Christian, Hansen, Marco Bo, Arnell, Per, Nekludov, Michael, Hyldegaard, Ole, Lourda, Magda, Santos, Vitor A. P. Martins dos, Saccenti, Edoardo, Skrede, Steinar, Svensson, Mattias, Norrby-Teglund, Anna

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Genome-Scale Metabolic Network Analysis of the Opportunistic Pathogen Pseudomonas aeruginosa PAO1 von Oberhardt, Matthew A, Puchalka, Jacek, Fryer, Kimberly E, Santos, Vitor A P Martins dos, Papin, Jason A

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Novel multi-omics deconfounding variational autoencoders can obtain meaningful disease subtyping von Li, Zuqi, Katz, Sonja, Saccenti, Edoardo, Fardo, David W, Claes, Peter, Martins dos Santos, Vitor A P, Van Steen, Kristel, Roshchupkin, Gennady V

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Gut microbiota disturbance during antibiotic therapy: A multi-omic approach von Ferrer, Manuel, Martins dos Santos, Vitor AP, Ott, Stephan J, Moya, Andrés

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Comprehensive insights into transcriptional adaptation of intracellular mycobacteria by microbe-enriched dual RNA sequencing von Rienksma, Rienk A, Suarez-Diez, Maria, Mollenkopf, Hans-Joachim, Dolganov, Gregory M, Dorhoi, Anca, Schoolnik, Gary K, Martins Dos Santos, Vitor Ap, Kaufmann, Stefan He, Schaap, Peter J, Gengenbacher, Martin

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Design and analysis of a tunable synchronized oscillator von Ryback, Brendan M, Odoni, Dorett I, van Heck, Ruben Ga, van Nuland, Youri, Hesselman, Matthijn C, Martins Dos Santos, Vítor Ap, van Passel, Mark Wj, Hugenholtz, Floor

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Microbial stratification in low pH oxic and suboxic macroscopic growths along an acid mine drainage von Méndez-García, Celia, Mesa, Victoria, Sprenger, Richard R, Richter, Michael, Diez, María Suárez, Solano, Jennifer, Bargiela, Rafael, Golyshina, Olga V, Manteca, Ángel, Ramos, Juan Luis, Gallego, José R, Llorente, Irene, Martins dos Santos, Vitor AP, Jensen, Ole N, Peláez, Ana I, Sánchez, Jesús, Ferrer, Manuel

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A navigation guide of synthetic biology tools for Pseudomonas putida von Martin-Pascual, Maria, Batianis, Christos, Bruinsma, Lyon, Asin-Garcia, Enrique, Garcia-Morales, Luis, Weusthuis, Ruud A., van Kranenburg, Richard, Martins dos Santos, Vitor A.P.

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Context matters von Kallergi, Amalia, Asin‐Garcia, Enrique, Martins dos Santos, Vitor AP, Landeweerd, Laurens

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From Innovation to Application: Bridging the Valley of Death in Industrial Biotechnology von Kampers, Linde F.C., Asin-Garcia, Enrique, Schaap, Peter J., Wagemakers, Annemarie, Martins dos Santos, Vitor A.P.

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Protoanemonin: a natural quorum sensing inhibitor that selectively activates iron starvation response von Bobadilla Fazzini, Roberto A., Skindersoe, Mette E., Bielecki, Piotr, Puchałka, Jacek, Givskov, Michael, Martins dos Santos, Vitor A. P.

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The missing link: Bordetella petrii is endowed with both the metabolic versatility of environmental bacteria and virulence traits of pathogenic Bordetellae von Gross, Roy, Guzman, Carlos A, Sebaihia, Mohammed, dos Santos, Vítor A P Martins, Pieper, Dietmar H, Koebnik, Ralf, Lechner, Melanie, Bartels, Daniela, Buhrmester, Jens, Choudhuri, Jomuna V, Ebensen, Thomas, Gaigalat, Lars, Herrmann, Stefanie, Khachane, Amit N, Larisch, Christof, Link, Stefanie, Linke, Burkhard, Meyer, Folker, Mormann, Sascha, Nakunst, Diana, Rückert, Christian, Schneiker-Bekel, Susanne, Schulze, Kai, Vorhölter, Frank-Jörg, Yevsa, Tetyana, Engle, Jacquelyn T, Goldman, William E, Pühler, Alfred, Göbel, Ulf B, Goesmann, Alexander, Blöcker, Helmut, Kaiser, Olaf, Martinez-Arias, Rosa

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