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Growth phase-dependent expression of the Pseudomonas putida KT2440 transcriptional machinery analysed with a genome-wide DNA microarray

Yuste, L. Hervás, A.B. Canosa, I. Tobes, R. Jiménez, J.I. Nogales, J. Pérez-Pérez, M.M. Santero, E. Díaz, E. Ramos, J.-L. De Lorenzo, V. Rojo, F.

Environmental Microbiology, 2006

https://doi.org/10.1111/j.1462-2920.2005.00890.x

Eduardo Santero

Santero Eduardo

ORCID: 0000-0002-6111-7160

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Genetic evidence of a high-affinity cyanuric acid transport system in Pseudomonas sp. ADP 10.1111/1574-6968.12392

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Redox proteins of hydroxylating bacterial dioxygenases establish a regulatory cascade that prevents gratuitous induction of tetralin biodegradation genes 10.1038/srep23848

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ThnY is a ferredoxin reductase-like iron-sulfur flavoprotein that has evolved to function as a regulator of tetralin biodegradation gene expression. 10.1074/jbc.a110.184648

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Distinct roles for NtrC and GlnK in nitrogen regulation of the Pseudomonas sp. strain ADP cyanuric acid utilization operon 10.1111/j.1574-6968.2009.01784.x

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Growth phase-dependent expression of the Pseudomonas putida KT2440 transcriptional machinery analysed with a genome-wide DNA microarray 10.1111/j.1462-2920.2005.00890.x

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The integration host factor stimulates interaction of RNA polymerase with NIFA, the transcriptional activator for nitrogen fixation operons http://dx.doi.org/10.1016/0092-8674(90)90284-l

Juan L. Ramos

Ramos Juan L.

ORCID: 0000-0002-8731-7435

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Preface 10.1007/978-1-4020-6097-7

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Leucines 193 and 194 at the N-terminal domain of the XylS protein, the positive transcriptional regulator of the TOL meta-cleavage pathway, are involved in dimerization 10.1128/JB.185.10.3036-3041.2003

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Gene expression in Pseudomonas 10.1007/BF00328031

XylS activator and RNA polymerase binding sites at the Pm promoter overlap 10.1016/S0014-5793(02)02730-8

The XyIS-dependent Pm promoter is transcribed in vivo by RNA polymerase with σ32 or σ38 depending on the growth phase 10.1046/j.1365-2958.1999.01249.x

Identification of a chemoreceptor for tricarboxylic acid cycle intermediates: Differential chemotactic response towards receptor ligands 10.1074/jbc.M110.110403

Single amino acids changes in the signal receptor domain of XylR resulted in mutants that stimulate transcription in the absence of effectors 10.1074/jbc.270.10.5144

Changes in myocardial electrical impedance in human heart graft rejection 10.1016/j.ejheart.2008.04.013

Physiological responses of Pseudomonas putida to formaldehyde during detoxification 10.1111/j.1751-7915.2007.00014.x

Pipelines for New Chemicals: A strategy to create new value chains and stimulate innovation-based economic revival in Southern European countries 10.1111/1462-2920.12337

The ttgGHI solvent efflux pump operon of Pseudomonas putida DOT-T1E is located on a large self-transmissible plasmid 10.1111/j.1462-2920.2007.01276.x

XylS domain interactions can be deduced from intraallelic dominance in double mutants of Pseudomonas putida 10.1007/BF00279387

Restoration of a Mediterranean forest after a fire: Bioremediation and rhizoremediation field-scale trial 10.1111/1751-7915.12138

A WbpL mutant of Pseudomonas putida DOT-T1E strain, which lacks the 0-antigenic side chain of lipopolysaccharides, is tolerant to organic solvent shocks 10.1007/s007920100176

Transcriptional control of the Pseudomonas TOL plasmid catabolic operons is achieved through an interplay of host factors and plasmid-encoded regulators 10.1146/annurev.micro.51.1.341

Toluene metabolism by the solvent-tolerant Pseudomonas putida DOT-T1 strain, and its role in solvent impermeabilization 10.1016/S0378-1119(99)00113-4

Pseudomonas aeruginosa strain RW41 mineralizes 4-chlorobenzenesulfonate, the major polar by-product from DDT manufacturing 10.1111/j.1462-2920.2008.01575.x

Exploiting environmental niches and the potential of environmental microbes 10.1111/j.1758-2229.2009.00072.x

Mutations in each of the tol genes of Pseudomonas putida reveal that they are critical for maintenance of outer membrane stability 10.1128/JB.182.17.4764-4772.2000

A bioluminescent derivative of Pseudomonas putida KT2440 for deliberate release into the environment 10.1016/S0168-6496(00)00089-1

Respiration of 2,4,6-trinitrotoluene by Pseudomonas sp. strain JLR11 10.1128/JB.182.5.1352-1355.2000

Responses of Pseudomonas to small toxic molecules by a mosaic of domains 10.1016/j.mib.2009.02.001

The IclR family of transcriptional activators and repressors can be defined by a single profile 10.1110/ps.051857206

Bactericidal and bacteriostatic antibiotics and the Fenton reaction 10.1111/1751-7915.12120

Characterization of the Pseudomonas putida mobile genetic element ISPpu10: An occupant of repetitive extragenic palindromic sequences 10.1128/JB.188.1.37-44.2006

Type II hydride transferases from different microorganisms yield nitrite and diarylamines from polynitroaromatic compounds 10.1128/AEM.00388-08

Microbial Biotechnology: Evolution of your premier journal 10.1111/1751-7915.12009

Effector-repressor interactions, binding of a single effector molecule to the operator-bound TtgR homodimer mediates derepression 10.1074/jbc.M511095200

Cell density-dependent gene contributes to efficient seed colonization by Pseudomonas putida KT2440 10.1128/AEM.70.9.5190-5198.2004

Physiological and transcriptomic characterization of a fliA mutant of Pseudomonas putida KT2440 10.1111/j.1758-2229.2009.00084.x

Using Genomics to Unveil Bacterial Determinants of Rhizosphere Life Style 10.1002/9781118297674.ch2

Analysis of the plant growth-promoting properties encoded by the genome of the rhizobacterium Pseudomonas putida BIRD-1 10.1111/1462-2920.12037

Involvement of the TonB system in tolerance to solvents and drugs in Pseudomonas putida DOT-T1E 10.1128/JB.183.18.5285-5292.2001

The TodS-TodT two-component regulatory system recognizes a wide range of effectors and works with DNA-bending proteins 10.1073/pnas.0602902103

Convergent peripheral pathways catalyze initial glucose catabolism in Pseudomonas putida: Genomic and flux analysis 10.1128/JB.00203-07

Evidence for in situ crude oil biodegradation after the Prestige oil spill 10.1111/j.1462-2920.2005.00742.x

Simultaneous catabolite repression between glucose and toluene metabolism in Pseudomonas putida is channeled through different signaling pathways 10.1128/JB.00679-07

Fatty acid biosynthesis is involved in solvent tolerance in Pseudomonas putida DOT-T1E 10.1111/j.1462-2920.2004.00578.x

Crystal Structures of Multidrug Binding Protein TtgR in Complex with Antibiotics and Plant Antimicrobials 10.1016/j.jmb.2007.03.062

Cross-regulation between a novel two-component signal transduction system for catabolism of toluene in pseudomonas mendocina and the TodST system from pseudomonas putida 10.1128/JB.184.24.7062-7067.2002

Catabolism of Phenylalanine by Pseudomonas putida: The NtrC-family PhhR Regulator Binds to Two Sites Upstream from the phhA Gene and Stimulates Transcription with σ70 10.1016/j.jmb.2006.12.008

A two-component regulatory system integrates redox state and population density sensing in Pseudomonas putida 10.1128/JB.00868-08

Tolerance to sudden organic solvent shocks by soil bacteria and characterization of Pseudomonas putida strains isolated from toluene polluted sites 10.1021/es991171a

The davDT operon of Pseudomonas putida, involved in lysine catabolism, is induced in response to the pathway intermediate δ-aminovaleric acid 10.1128/JB.186.11.3439-3446.2004

Broad-host range expression vectors containing manipulated meta-cleavage pathway regulatory elements of the TOL plasmid 10.1016/0014-5793(88)81431-5

Removal of organic toxic chemicals in the rhizosphere and phyllosphere of plants 10.1111/j.1751-7915.2009.00090_13.x

Functional analysis of aromatic biosynthetic pathways in Pseudomonas putida KT2440 10.1111/j.1751-7915.2008.00062.x

Interactions of the XylS regulators with the C-terminal domain of the RNA polymerase α subunit influence the expression level from the cognate Pm promoter 10.1016/S0014-5793(01)02192-5

Taxonomic and Functional Metagenomic Profiling of the Microbial Community in the Anoxic Sediment of a Sub-saline Shallow Lake (Laguna de Carrizo, Central Spain) 10.1007/s00248-011-9903-y

Multiple and interconnected pathways for l-lysine catabolism in Pseudomonas putida KT2440 10.1128/JB.187.21.7500-7510.2005

Mechanisms of resistance to chloramphenicol in Pseudomonas putida KT2440 10.1128/AAC.05398-11

Identification of conditionally essential genes for growth of Pseudomonas putida KT2440 on minimal medium through the screening of a genome-wide mutant library 10.1111/j.1462-2920.2010.02166.x

Subfunctionality of hydride transferases of the old yellow enzyme family of flavoproteins of Pseudomonas putida 10.1128/AEM.00386-08

TtgV Bound to a Complex Operator Site Represses Transcription of the Promoter for the Multidrug and Solvent Extrusion TtgGHI Pump 10.1128/JB.186.10.2921-2927.2004

Comparative genomics and functional analysis of niche-specific adaptation in Pseudomonas putida 10.1111/j.1574-6976.2010.00249.x

Sensing of environmental signals: Classification of chemoreceptors according to the size of their ligand binding regions 10.1111/j.1462-2920.2010.02325.x

The Prc and RseP proteases control bacterial cell-surface signalling activity 10.1111/1462-2920.12371

Removal of nitrate from industrial wastewaters in a pilot plant by nitrate-tolerant Klebsiella oxytoca CECT 4460 and Arthrobacter globiformis CECT 4500 10.1002/(SICI)1097-0290(19980605)58:5<510::AID-BIT7>3.0.CO;2-G

Corrigendum: In vivo role of FdhD and FdmE in formate metabolism in Pseudomonas putida: Redundancy and expression in the stationary phase 10.1111/j.1758-2229.2009.00062.x

Antibiotic resistance determinants in a Pseudomonas putida strain isolated from a hospital 10.1371/journal.pone.0081604

Genomic analysis reveals the major driving forces of bacterial life in the rhizosphere 10.1186/gb-2007-8-9-r179

Adaptive drug resistance mediated by root-nodulation-cell division efflux pumps 10.1111/j.1469-0691.2008.02693.x

First- and second-generation biochemicals from sugars: Biosynthesis of itaconic acid 10.1111/1751-7915.12333

Photosynthetic production of ammonia 10.1007/BF01944528

Bioremediation of 2,4,6-trinitrotoluene under field conditions 10.1021/es062165z

Preface 10.1007/978-1-4939-473_0

Cloning, structure and expression of a pea cDNA clone coding for a photosynthetic fructose-1,6-bisphosphatase with some features different from those of the leaf chloroplast enzyme 10.1007/BF02411553

Plant-bacteria interactions in the removal of pollutants 10.1016/j.copbio.2012.09.011

Identification of reciprocal adhesion genes in pathogenic and non-pathogenic Pseudomonas 10.1111/j.1462-2920.2012.02732.x

Mechanisms of solvent resistance mediated by interplay of cellular factors in Pseudomonas putida 10.1093/femsre/fuv006

Analysis of solvent tolerance in Pseudomonas putida DOT-T1E based on its genome sequence and a collection of mutants 10.1016/j.febslet.2012.07.031

Fate of Pseudomonas putida after release into lake water mesocosms: Different survival mechanisms in response to environmental conditions 10.1007/BF00165812

Field trial on removal of petroleum-hydrocarbon pollutants using a microbial consortium for bioremediation and rhizoremediation 10.1111/1758-2229.12174

Dual System to Reinforce Biological Containment of Recombinant Bacteria Designed for Rhizoremediation 10.1128/AEM.67.6.2649-2656.2001

Interspecies signalling: Pseudomonas putida efflux pump TtgGHI is activated by indole to increase antibiotic resistance 10.1111/1462-2920.12368

Growth phase-dependent expression of the Pseudomonas putida KT2440 transcriptional machinery analysed with a genome-wide DNA microarray 10.1111/j.1462-2920.2005.00890.x

Enhanced tolerance to naphthalene and enhanced rhizoremediation performance for Pseudomonas putida KT2440 via the NAH7 catabolic plasmid 10.1128/AEM.00619-12

Bacterial responses and interactions with plants during rhizoremediation 10.1111/j.1751-7915.2009.00113.x

In situ X-ray data collection from highly sensitive crystals of Pseudomonas putida PtxS in complex with DNA 10.1107/S1744309112028540

Critical nucleotides in the upstream region of the XylS-dependent TOL meta-cleavage pathway operon promoter as deduced from analysis of mutants 10.1074/jbc.274.4.2286

Transcriptional organization of the Pseudomonas putida tol-oprL genes 10.1128/JB.185.1.184-195.2003

Study of the TmoS/TmoT two-component system: Towards the functional characterization of the family of TodS/TodT like systems 10.1111/j.1751-7915.2011.00322.x

Biomonitoring of urinary metals in a population living in the vicinity of industrial sources: A comparison with the general population of Andalusia, Spain 10.1016/j.scitotenv.2008.08.041

Preface 10.1007/0-387-28881-3

Understanding butanol tolerance and assimilation in Pseudomonas putidaBIRD-1: An integrated omics approach 10.1111/1751-7915.12328

Solvent tolerance in Gram-negative bacteria 10.1016/j.copbio.2011.11.015

Mutational analysis of the highly conserved C-terminal residues of the XylS protein, a member of the AraC family of transcriptional regulators 10.1016/S0014-5793(00)01749-X

Redundancy of enzymes for formaldehyde detoxification in Pseudomonas putida 10.1128/JB.00076-09

Transcriptional control of the main aromatic hydrocarbon efflux pump in Pseudomonas 10.1111/j.1758-2229.2011.00255.x

RNA polymerase holoenzymes can share a single transcription start site for the Pm promoter: Critical nucleotides in the -7 to -18 region are needed to select between RNA polymerase with σ38 or σ32 10.1074/jbc.M505415200

Detection of multiple extracytoplasmic function (ECF) sigma factors in the genome of Pseudomonas putida KT2440 and their counterparts in Pseudomonas aeruginosa PA01 10.1046/j.1462-2920.2002.00371.x

Synergic role of the two ars operons in arsenic tolerance in Pseudomonas putida KT2440 10.1111/1758-2229.12167

Inhibition of growth and induction of apoptosis in human breast cancer by transfection of gef gene 10.1038/sj.bjc.6601064

Pseudomonas putida mutants in the exbBexbDtonB gene cluster are hypersensitive to environmental and chemical stressors 10.1111/j.1462-2920.2004.00595.x

Cyclic diguanylate turnover mediated by the sole GGDEF/EAL response regulator in Pseudomonas putida: Its role in the rhizosphere and an analysis of its target processes 10.1111/j.1462-2920.2011.02499.x

16S rDNA phylogeny and distribution of lin genes in novel hexachlorocyclohexane-degrading Sphingomonas strains 10.1111/j.1462-5822.2005.00820.x

Characterization of molecular interactions using isothermal titration calorimetry 10.1007/978-1-4939-0473-0_16

Towards a genome-wide mutant library of pseudomonas putida strain KT2440 10.1007/978-1-4020-6097-7_8

Control of expression of divergent pseudomonas putida put promoters for proline catabolism 10.1128/AEM.66.12.5221-5225.2000

Mechanisms of solvent tolerance in gram-negative bacteria 10.1146/annurev.micro.56.012302.161038

Limits in energy generation and biotechnology of primary and secondary products 10.1111/j.1751-7915.2008.00052.x

Crystal structure of TtgV in complex with its DNA operator reveals a general model for cooperative DNA binding of tetrameric gene regulators 10.1101/gad.603510

Survival of Pseudomonas putida KT2440 in soil and in the rhizosphere of plants under greenhouse and environmental conditions 10.1016/S0038-0717(99)00156-X

Short and direct science: Environmental Microbiology Reports 10.1111/j.1758-2229.2009.00048.x

Biological degradation of 2,4,6-trinitrotoluene 10.1128/MMBR.65.3.335-352.2001

Genetic analysis of functions involved in adhesion of Pseudomonas putida to seeds 10.1128/JB.182.9.2363-2369.2000

Assessing bacterial diversity in the rhizosphere of Thymus zygis growing in the Sierra Nevada National Park (Spain) through culture-dependent and independent approaches 10.1371/journal.pone.0146558

Diversity at its best: Bacterial taxis 10.1111/j.1462-2920.2010.02383.x

Microbial responses to xenobiotic compounds. Identification of genes that allow Pseudomonas putida KT2440 to cope with 2,4,6-trinitrotoluene 10.1111/j.1751-7915.2009.00085.x

TtgV represses two different promoters by recognizing different sequences 10.1128/JB.01504-08

Complexity in efflux pump control: Cross-regulation by the paralogues TtgV and TtgT 10.1111/j.1365-2958.2007.06004.x

Integration of signals through Crc and PtsN in catabolite repression of Pseudomonas putida TOL plasmid pWW0 10.1128/AEM.71.8.4191-4198.2005

Global regulation of food supply by Pseudomonas putida DOT-T1E 10.1128/JB.01129-09

Urinary levels of arsenic and heavy metals in children and adolescents living in the industrialised area of Ria of Huelva (SW Spain) 10.1016/j.envint.2010.04.012

Plasmolysis induced by toluene in a cyoB mutant of Pseudomonas putida 10.1111/j.1462-2920.2004.00621.x

Levels and chemical composition of PM in a city near a large Cu-smelter in Spain 10.1039/c0em00708k

Analysis of the pathogenic potential of nosocomial Pseudomonas putida strains 10.3389/fmicb.2015.00871

Identification of the initial steps in D-lysine catabolism in Pseudomonas putida 10.1128/JB.01538-06

Different modes of binding of mono- and biaromatic effectors to the transcriptional regulator TTGV: Role in differential derepression from its cognate operator 10.1074/jbc.M610032200

Catabolite repression of the TodS/TodT two-component system and effector-dependent transphosphorylation of TodT as the basis for toluene dioxygenase catabolic pathway control 10.1128/JB.00379-10

Involvement of the global crp regulator in cyclic amp-dependent utilization of aromatic amino acids by pseudomonas putida 10.1128/JB.06353-11

Compartmentalized glucose metabolism in Pseudomonas putida is controlled by the PtxS repressor 10.1128/JB.00520-10

Comparison of omega wave system and polar S810i to detect R-R intervals at rest 10.1055/s-0030-1248319

Microbial Biotechnology from medicine to bacterial population dynamics 10.1111/j.1751-7915.2009.00110.x

PnrA, a new nitroreductase-family enzyme in the TNT-degrading strain Pseudomonas putida JLR11 10.1111/j.1462-2920.2005.00801.x

Residues 137 and 153 at the N terminus of the XylS protein influence the effector profile of this transcriptional regulator and the σ factor used by RNA polymerase to stimulate transcription from its cognate promoter 10.1074/jbc.M110226200

Degradation of o-methoxybenzoate by a two-member consortium made up of a gram-positive Arthrobacter strain and a gram-negative Pantotea strain 10.1023/A:1026541518663

BacTregulators: A database of transcriptional regulators in bacteria and archaea 10.1093/bioinformatics/bth330

Transoesophageal electronic bioimpedance device for the study of post-transplant heart rejection 10.1007/978-3-540-89208-3_281

The pGRT1 plasmid of Pseudomonas putida DOT-T1E encodes functions relevant for survival under harsh conditions in the environment 10.1111/j.1462-2920.2011.02492.x

Molecular binding mechanism of TtgR repressor to antibiotics and antimicrobials 10.1371/journal.pone.0138469

A broad range of themes in Microbial Biotechnology 10.1111/j.1751-7915.2008.00076.x

Escherichia coli has multiple enzymes that attack TNT and release nitrogen for growth 10.1111/j.1462-2920.2007.01272.x

Signal-regulator interactions, genetic analysis of the effector binding site of xyls, the benzoate-activated positive regulator of Pseudomonas TOL plasmid meta-cleavage pathway operon 10.1016/0022-2836(90)90358-S

Mutations in genes involved in the flagellar export apparatus of the solvent-tolerant Pseudomonas putida DOT-T1E strain impair motility and lead to hypersensitivity to toluene shocks 10.1128/JB.183.14.4127-4133.2001

The cytotoxic activity of the phage E protein suppress the growth of murine B16 melanomas in vitro and in vivo 10.1007/s00109-009-0493-9

Transition from reversible to irreversible attachment during biofilm formation by Pseudomonas fluorescens WCS365 requires an ABC transporter and a large secreted protein 10.1046/j.1365-2958.2003.03615.x

Crystallization and crystallographic analysis of the ligand-binding domain of the Pseudomonas putida chemoreceptor McpS in complex with malate and succinate 10.1107/S1744309112004940

Antibiotic-dependent induction of Pseudomonas putida DOT-T1E TtgABC efflux pump is mediated by the drug binding repressor TtgR 10.1128/AAC.47.10.3067-3072.2003

Mechanisms for solvent tolerance in bacteria 10.1074/jbc.272.7.3887

Physical organization of the upper pathway operon promoter of the Pseudomonas TOL plasmid. Sequence and positional requirements for XylR-dependent activation of transcription 10.1007/BF00281629

Toluene tolerance systems in pseudomonas 10.1007/978-4-431-54520-0_11

Analysis of the core genome and pangenome of Pseudomonas putida 10.1111/1462-2920.13015

Pseudomonas putida KT2440 causes induced systemic resistance and changes in Arabidopsis root exudation 10.1111/j.1758-2229.2009.00091.x

Metabolic engineering, new antibiotics and biofilm viscoelasticity 10.1111/j.1751-7915.2009.00157.x

New molecular tools for enhancing methane production, explaining thermodynamically limited lifestyles and other important biotechnological issues 10.1111/j.1751-7915.2009.00134.x

Regulation of glucose metabolism in Pseudomonas. The phosphorylative branch and Entner-Doudoroff enzymes are regulated by a repressor containing a sugar isomerase domain 10.1074/jbc.M109.014555

Cold is cool, the human microbiota and taking multiple SIPs 10.1111/j.1751-7915.2011.00287.x

Analysis of the mRNA structure of the Pseudomonas putida TOL meta fission pathway operon around the transcription initiation point, the xylTE and the xylFJ regions 10.1016/0167-4781(93)90149-8

Compensatory role of the cis-trans-isomerase and cardiolipin synthase in the membrane fluidity of Pseudomonas putida DOT-T1E 10.1111/j.1462-2920.2007.01283.x

A Pseudomonas putida cardiolipin synthesis mutant exhibits increased sensitivity to drugs related to transport functionality 10.1111/j.1462-2920.2006.01236.x

Bacterial sensor kinases: Diversity in the recognition of environmental signals 10.1146/annurev.micro.112408.134054

Transcriptional Phase Variation at the flhB Gene of Pseudomonas putida DOT-T1E Is Involved in Response to Environmental Changes and Suggests the Participation of the Flagellar Export System in Solvent Tolerance 10.1128/JB.186.6.1905-1909.2004

Struggling to get a universal meningococcal vaccine and novel uses for bacterial toxins in cancer treatment 10.1111/j.1751-7915.2010.00195.x

Regulation of the cyclopropane synthase cfaB gene in Pseudomonas putida KT2440 10.1111/j.1574-6968.2011.02317.x

The Pseudomonas aeruginosa quinolone quorum sensing signal alters the multicellular behaviour of Pseudomonas putida KT2440 10.1016/j.resmic.2011.06.013

Chemical and microbiological characterization of atmospheric particulate matter during an intense african dust event in Southern Spain 10.1021/es3051235

Laboratory research aimed at closing the gaps in microbial bioremediation 10.1016/j.tibtech.2011.06.007

PhhR Binds to Target Sequences at Different Distances with Respect to RNA Polymerase in Order to Activate Transcription 10.1016/j.jmb.2009.09.045

Physiologically relevant divalent cations modulate citrate recognition by the McpS chemoreceptor 10.1002/jmr.1101

Bioremediation of polynitrated aromatic compounds: Plants and microbes put up a fight 10.1016/j.copbio.2005.03.010

Events in root colonization by pseudomonas putida 10.1007/978-94-017-9555-5_10

Jose Jimenez

Jimenez Jose

ORCID: 0000-0002-2700-9473

Dynamic allocation of orthogonal ribosomes facilitates uncoupling of co-expressed genes 10.1038/s41467-018-02898-6

Engineering Translational Resource Allocation Controllers: Mechanistic Models, Design Guidelines, and Potential Biological Implementations 10.1101/248948

Cooperation in microbial communities and their biotechnological applications 10.1111/1462-2920.13767

Dynamic Allocation Of Orthogonal Ribosomes Facilitates Uncoupling Of Co-Expressed Genes 10.1101/138362

Resource Competition Shapes the Response of Genetic Circuits 10.1021/acssynbio.6b00361

Shedding light on the black box models of the cell 10.1111/1751-7915.12489

Production of selenium nanoparticles in Pseudomonas putida KT2440 10.1038/srep37155

Properties of alternative microbial hosts used in synthetic biology: towards the design of a modular chassis. 10.1042/ebc20160015

Computational analysis of fitness landscapes and evolutionary networks from in vitro evolution experiments 10.1016/j.ymeth.2016.05.012

Isocost Lines Describe the Cellular Economy of Genetic Circuits 10.1016/j.bpj.2015.06.034

Phenotypic knockouts of selected metabolic pathways by targeting enzymes with camel-derived nanobodies (VHHS) 10.1016/j.ymben.2015.04.002

Genetic drift suppresses bacterial conjugation in spatially structured populations 10.1101/002980

Genetic Drift Suppresses Bacterial Conjugation in Spatially Structured Populations 10.1016/j.bpj.2014.01.012

Comprehensive experimental fitness landscape and evolutionary network for small RNA 10.1073/pnas.1307604110

A second chromosomal copy of the catA gene endows Pseudomonas putidamt-2 with an enzymatic safety valve for excess of catechol 10.1111/1462-2920.12361

NanoPad: An integrated platform for bacterial production of camel nanobodies aimed at detecting environmental biomarkers 10.1002/pmic.201300009

Aerobic degradation of aromatic compounds 10.1016/j.copbio.2012.10.010

A finely tuned regulatory circuit of the nicotinic acid degradation pathway in Pseudomonas putida 10.1111/j.1462-2920.2011.02471.x

Monitoring biodegradative enzymes with nanobodies raised in Camelus dromedarius with mixtures of catabolic proteins 10.1111/j.1462-2920.2010.02401.x

A preliminary crystallographic study of recombinant NicX, an Fe(2+)-dependent 2,5-dihydroxypyridine dioxygenase from Pseudomonas putida KT2440. 10.1107/s174430911001119x

Deciphering the genetic determinants for aerobic nicotinic acid degradation: The nic cluster from Pseudomonas putida KT2440 10.1073/pnas.0802273105

Growth phase-dependent expression of the Pseudomonas putida KT2440 transcriptional machinery analysed with a genome-wide DNA microarray 10.1111/j.1462-2920.2005.00890.x

Genes for a Circular and Sustainable Bio-PET Economy 10.20944/preprints201904.0284.v1

Microbial Genes for a Circular and Sustainable Bio-PET Economy 10.3390/genes10050373

A quantitative method for proteome reallocation using minimal regulatory interventions 10.1101/733592

The loss of the pyoverdine secondary receptor in Pseudomonas aeruginosa results in a fitter strain suitable for population invasion 10.1101/2020.05.08.085159

A quantitative method for proteome reallocation using minimal regulatory interventions 10.1038/s41589-020-0593-y

Author Correction: A quantitative method for proteome reallocation using minimal regulatory interventions 10.1038/s41589-020-00666-6

Genomic analysis of the aromatic catabolic pathways from Pseudomonas putida KT2440 10.1046/j.1462-2920.2002.00370.x

Trade-offs between gene expression, growth and phenotypic diversity in microbial populations 10.1016/j.copbio.2019.08.004

Synthetic Tunable Amplifying Buffer Circuit in E. coli 10.1021/sb5002533

Inhibition of Bacterial Conjugation by Phage M13 and Its Protein g3p: Quantitative Analysis and Model 10.1371/journal.pone.0019991

Loss of a pyoverdine secondary receptor in Pseudomonas aeruginosa results in a fitter strain suitable for population invasion 10.1038/s41396-020-00853-2

Genome analysis of the metabolically versatile Pseudomonas umsongensis GO16: the genetic basis for PET monomer upcycling into polyhydroxyalkanoates 10.1111/1751-7915.13712

The interplay between growth rate and nutrient quality defines gene expression capacity 10.1101/2021.04.02.438188

Regulatory perturbations of ribosome allocation results in a trade-off between fast growth and adaptation capacity 10.1101/2021.08.01.454633

Eduardo Diaz

Diaz Eduardo

ORCID: 0000-0002-9731-6524

Biochemical characterization of the transcriptional regulator BzdR from Azoarcus sp. CIB 10.1074/jbc.M110.143503

Molecular characterization of the gallate dioxygenase from Pseudomonas putida KT2440: The prototype of a new subgroup of extradiol dioxygenases 10.1074/jbc.M502585200

Functional analysis of the small component of the 4-hydroxyphenylacetate 3-monooxygenase of Escherichia coli W: A prototype of a new flavin:NAD(P)H reductase subfamily 10.1128/JB.182.3.627-636.2000

Engineering synthetic bacterial consortia for enhanced desulfurization and revalorization of oil sulfur compounds 10.1016/j.ymben.2016.01.005

Antifungal monoterpene production in elicited cell suspension cultures of Piqueria trinervia 10.1016/S0031-9422(00)00211-9

Catabolism of phenylacetic acid in Escherichia coli: Characterization of a new aerobic hybrid pathway 10.1074/jbc.273.40.25974

Anaerobic catabolism of aromatic compounds: A genetic and genomic view 10.1128/MMBR.00021-08

Bacterial promoters triggering biodegradation of aromatic pollutants 10.1016/S0958-1669(00)00126-9

A gene containment strategy based on a restriction-modification system 10.1046/j.1462-2920.2000.00138.x

Molecular characterization of PadA, a phenylacetaldehyde dehydrogenase from Escherichia coli 10.1016/S0014-5793(97)00228-7

Iron-reducing bacteria unravel novel strategies for the anaerobic catabolism of aromatic compounds 10.1111/j.1365-2958.2005.04937.x

Characterization of the last step of the aerobic phenylacetic acid degradation pathway 10.1099/mic.0.2006/002444-0

Analysis of dibenzothiophene desulfurization in a recombinant pseudomonas putida strain 10.1128/AEM.01682-08

The evolutionary relationship of biphenyl dioxygenase from Gram-positive Rhodococcus globerulus P6 to multicomponent dioxygenases from Gram-negative bacteria 10.1016/0378-1119(94)00530-6

3-hydroxyphenylpropionate and phenylpropionate are synergistic activators of the MhpR transcriptional regulator from Escherichia coli 10.1074/jbc.M109.008243

AccR Is a Master Regulator Involved in Carbon Catabolite Repression of the Anaerobic Catabolism of Aromatic Compounds in Azoarcus sp CIB 10.1074/jbc.M113.517714

Refactoring the λ phage lytic/lysogenic decision with a synthetic regulator 10.1002/mbo3.352

Genetic characterization of the phenylacetyl-coenzyme A oxygenase from the aerobic phenylacetic acid degradation pathway of Escherichia coli 10.1128/AEM.01550-06

The bzd gene cluster, coding for anaerobic benzoate catabolism, in Azoarcus sp strain CIB 10.1128/JB.186.17.5762-5774.2004

Aerobic degradation of aromatic compounds 10.1016/j.copbio.2012.10.010

Identification of the Geobacter metallireducens BamVW Two-Component System, Involved in Transcriptional Regulation of Aromatic Degradation 10.1128/AEM.02255-09

Coregulation by phenylacetyl-coenzyme A-responsive PaaX integrates control of the upper and lower pathways for catabolism of styrene by Pseudomonas sp strain Y2 10.1128/JB.00176-06

Molecular characterization of the phenylacetic acid catabolic pathway in Pseudomonas putida U: The phenylacetyl-CoA catabolon 10.1073/pnas.95.11.6419

Characterization of the mbd cluster encoding the anaerobic 3-methylbenzoyl-CoA central pathway 10.1111/j.1462-2920.2012.02818.x

Unravelling the gallic acid degradation pathway in bacteria: The gal cluster from Pseudomonas putida 10.1111/j.1365-2958.2010.07448.x

A preliminary crystallographic study of recombinant NicX, an Fe 2+-dependent 2,5-dihydroxypyridine dioxygenase from Pseudomonas putida KT2440 10.1107/S174430911001119X

Insights on the regulation of the phenylacetate degradation pathway from Escherichia coli 10.1111/1758-2229.12117

Bacterial Degradation of Benzoate CROSS-REGULATION BETWEEN AEROBIC AND ANAEROBIC PATHWAYS 10.1074/jbc.M111.309005

Construction of a broad-host-range pneumococcal promoter-probe plasmid 10.1016/0378-1119(90)90455-Z

Genomic analysis of the aromatic catabolic pathways from Pseudomonas putida KT2440 10.1046/j.1462-2920.2002.00370.x

Restricting the dispersal of recombinant DNA: Design of a contained biological catalyst 10.1038/nbt0296-189

Liver retinol transporter and receptor for serum retinol-binding protein (RBP4) 10.1074/jbc.M112.369132

A finely tuned regulatory circuit of the nicotinic acid degradation pathway in Pseudomonas putida 10.1111/j.1462-2920.2011.02471.x

Azoarcus sp CIB, an Anaerobic Biodegrader of Aromatic Compounds Shows an Endophytic Lifestyle 10.1371/journal.pone.0110771

Whole-genome analysis of Azoarcus sp strain CIB provides genetic insights to its different lifestyles and predicts novel metabolic features 10.1016/j.syapm.2015.07.002

New insights into the BzdR-mediated transcriptional regulation of the anaerobic catabolism of benzoate in Azoarcus sp CIB 10.1099/mic.0.2007/011361-0

Design of catabolic cassettes for styrene biodegradation 10.1023/A:1024432929423

Transcriptional regulation of the divergent paa catabolic operons for phenylacetic acid degradation in Escherichia coli 10.1074/jbc.275.16.12214

Reply to Behrman: "N-Formylmaleamic acid: An intermediate in nicotinic acid metabolism" 10.1073/pnas.0809517105

Plasmids as tools for containment 10.1128/microbiolspec.PLAS-0011-2013

BzdR, a repressor that controls the anaerobic catabolism of benzoate in Azoarcus sp CIB, is the first member of a new subfamily of transcriptional regulators 10.1074/jbc.M412259200

Oxygen-dependent regulation of the central pathway for the anaerobic catabolism of aromatic compounds in Azoarcus sp strain CIB 10.1128/JB.188.7.2343-2354.2006

Aromatic metabolism versus carbon availability: The regulatory network that controls catabolism of less-preferred carbon sources in Escherichia coli 10.1016/j.femsre.2004.04.004

The homogentisate pathway: A central catabolic pathway involved in the degradation of L-phenylalanine, L-tyrosine, and 3-hydroxyphenylacetate in Pseudomonas putida 10.1128/JB.186.15.5062-5077.2004

Genetic characterization of the styrene lower catabolic pathway of Pseudomonas sp strain Y2 10.1016/S0378-1119(03)00794-7

Enhancing desulphurization by engineering a flavin reductase-encoding gene cassette in recombinant biocatalysts 10.1046/j.1462-2920.2000.00151.x

A second chromosomal copy of the catA gene endows Pseudomonas putida mt-2 with an enzymatic safety valve for excess of catechol 10.1111/1462-2920.12361

Identification and analysis of a glutaryl-CoA dehydrogenase-encoding gene and its cognate transcriptional regulator from Azoarcus sp CIB 10.1111/j.1462-2920.2007.01468.x

The structure of new cis and trans 3′-phenyl-3′,3a′, 4′,5′,6′,7a′-hexahydro-2,1-benzisoxazole-7a′- spiro-2-(3-phenylaziridine) 10.1002/jhet.5570300117

Deciphering the genetic determinants for aerobic nicotinic acid degradation: The nic cluster from Pseudomonas putida KT2440 10.1073/pnas.0802273105

Regulation of the mhp cluster responsible for 3-(3-hydroxyphenyl)propionic acid degradation in Escherichia coli 10.1074/jbc.M303245200

Growth phase-dependent expression of the Pseudomonas putida KT2440 transcriptional machinery analysed with a genome-wide DNA microarray 10.1111/j.1462-2920.2005.00890.x

New challenges for syngas fermentation: Towards production of biopolymers 10.1002/jctb.4721

Identification of a Missing Link in the Evolution of an Enzyme into a Transcriptional Regulator 10.1371/journal.pone.0057518

Characterization of the transcription unit encoding the major pneumococcal autolysin 10.1016/0378-1119(90)90454-Y

Biodegradation of aromatic compounds by Escherichia coli 10.1128/MMBR.65.4.523-569.2001

Genome Sequence of Pseudomonas azelaica Strain Aramco J. 10.1128/genomeA.00037-15

Unraveling the Specific Regulation of the Central Pathway for Anaerobic Degradation of 3-Methylbenzoate 10.1074/jbc.M115.637074

Genome Sequence of Pseudomonas azelaica HBP1, Which Catabolizes 2-Hydroxybiphenyl Fungicide. 10.1128/genomeA.01248-13

Genome mining in Azoarcus spp. CIB: a model bacterium to engineer biocatalysts for anaerobic removal of aromatic compounds 10.1016/j.nbt.2009.06.685

Genetic clues on the evolution of anaerobic catabolism of aromatic compounds 10.1099/mic.0.27186-0

Expanding the current knowledge and biotechnological applications of the oxygen‐independent ortho ‐phthalate degradation pathway 10.1111/1462-2920.15119

Elevated c‐di‐GMP levels promote biofilm formation and biodesulfurization capacity of Rhodococcus erythropolis 10.1111/1751-7915.13689

Raquel Tobes

Tobes Raquel

ORCID: 0000-0001-7032-8720

Pre-clinical development of Listeria-based nanovaccines as immunotherapies for solid tumours: insights from melanoma. 10.1080/2162402x.2018.1541534

Complete Genome Sequences of Isolates of Enterococcus faecium Sequence Type 117, a Globally Disseminated Multidrug-Resistant Clone. 10.1128/genomeA.01553-16

Expression of Early Growth Response Gene-2 and Regulated Cytokines Correlates with Recovery from Guillain-Barré Syndrome. 10.4049/jimmunol.1502100

Integrated Metabolomics, Transcriptomics and Proteomics Identifies Metabolic Pathways Affected by Anaplasma phagocytophilum Infection in Tick Cells. 10.1074/mcp.M115.051938

Comparative Genomics of Field Isolates of Mycobacterium bovis and M. caprae Provides Evidence for Possible Correlates with Bacterial Viability and Virulence. 10.1371/journal.pntd.0004232

Identification and characterisation of T-cell epitopes for incorporation into dendritic cell-delivered Listeria vaccines. 10.1016/j.jim.2015.05.009

Metagenomic Analysis of Milk of Healthy and Mastitis-Suffering Women. 10.1177/0890334415585078

Complete Genome Sequences of Field Isolates of Mycobacterium bovis and Mycobacterium caprae. 10.1128/genomeA.00247-15

Response to "In vivo attenuation and genetic evolution of a ST247-SCCmecI MRSA clone after 13 years of pathogenic bronchopulmonary colonization in a patient with cystic fibrosis: implications of the innate immune response". 10.1038/mi.2015.10

In vivo attenuation and genetic evolution of a ST247-SCCmecI MRSA clone after 13 years of pathogenic bronchopulmonary colonization in a patient with cystic fibrosis: implications of the innate immune response. 10.1038/mi.2014.73

Complete Genome Sequence of Ehrlichia mineirensis, a Novel Organism Closely Related to Ehrlichia canis with a New Host Association. 10.1128/genomeA.01450-14

Gene calling and bacterial genome annotation with BG7. 10.1007/978-1-4939-1720-4_12

Genomic resources notes accepted 1 April 2014 - 31 May 2014. 10.1111/1755-0998.12298

Genomic analysis of the emergence and evolution of multidrug resistance during a Klebsiella pneumoniae outbreak including carbapenem and colistin resistance. 10.1093/jac/dkt419

A systems biology approach to the characterization of stress response in Dermacentor reticulatus tick unfed larvae. 10.1371/journal.pone.0089564

Noncontiguous Finished Genome Sequence of Staphylococcus aureus KLT6, a Staphylococcal Enterotoxin B-Positive Strain Involved in a Food Poisoning Outbreak in Switzerland. 10.1128/genomeA.00214-13

Bloody coli: a gene cocktail in Escherichia coli O104:H4. 10.1128/mBio.00066-13

Genome Sequence of Klebsiella pneumoniae KpQ3, a DHA-1 β-Lactamase-Producing Nosocomial Isolate. 10.1128/genomeA.00167-12

Phagosomes induced by cytokines function as anti-Listeria vaccines: novel role for functional compartmentalization of STAT-1 protein and cathepsin-D. 10.1074/jbc.M112.348615

BG7: a new approach for bacterial genome annotation designed for next generation sequencing data. 10.1371/journal.pone.0049239

The innate immunity role of cathepsin-D is linked to Trp-491 and Trp-492 residues of listeriolysin O. 10.1111/j.1365-2958.2009.06673.x

Characterization of a Listeria monocytogenes protein interfering with Rab5a. 10.1111/j.1600-0854.2007.00683.x

Cutting edge: natural DNA repetitive extragenic sequences from gram-negative pathogens strongly stimulate TLR9. 10.4049/jimmunol.179.1.31

Bacterial repetitive extragenic palindromic sequences are DNA targets for Insertion Sequence elements. 10.1186/1471-2164-7-62

ExtraTrain: a database of Extragenic regions and Transcriptional information in prokaryotic organisms. 10.1186/1471-2180-6-29

Growth phase-dependent expression of the Pseudomonas putida KT2440 transcriptional machinery analysed with a genome-wide DNA microarray. 10.1111/j.1462-2920.2005.00890.x

The TetR family of transcriptional repressors. 10.1128/MMBR.69.2.326-356.2005

Repetitive extragenic palindromic sequences in the Pseudomonas syringae pv. tomato DC3000 genome: extragenic signals for genome reannotation. 10.1016/j.resmic.2004.10.014

REP code: defining bacterial identity in extragenic space. 10.1111/j.1462-2920.2004.00704.x

BacTregulators: a database of transcriptional regulators in bacteria and archaea. 10.1093/bioinformatics/bth330

Detection of multiple extracytoplasmic function (ECF) sigma factors in the genome of Pseudomonas putida KT2440 and their counterparts in Pseudomonas aeruginosa PA01. 10.1046/j.1462-2920.2002.00371.x

Species-specific repetitive extragenic palindromic (REP) sequences in Pseudomonas putida. 10.1093/nar/30.8.1826

AraC-XylS database: a family of positive transcriptional regulators in bacteria. 10.1093/nar/30.1.318

Two classes of MHC class II interactions with the TCR. 10.1016/s0167-5699(97)01244-9

The tetramer model: a new view of class II MHC molecules in antigenic presentation to T cells. 10.1111/j.1399-0039.1997.tb02896.x

Allele walking: a new and highly accurate approach to HLA-DRB1 typing. Application to DRB1*04 alleles. 10.1111/j.1399-0039.1997.tb02728.x

Are thymocytes positively selecting thymocytes? 10.1016/0167-5699(96)80794-8

Bacterial sequences detected in 99 out of 99 serum samples from Ebola patients 10.1101/039107

Biographika: rich interactive data visualizations on the web for the research community 10.1101/021063

Bio4j: a high-performance cloud-enabled graph-based data platform 10.1101/016758

MG7: Configurable and scalable 16S metagenomics data analysis 10.1101/027714

Amplicon Analysis I 10.20944/preprints201909.0171.v1

ARSA-16S: A New and Conceptually Different Approach for 16S-based Taxonomic Profiling 10.20944/preprints201909.0170.v1

Glyceraldehyde-3-phosphate Dehydrogenase Common Peptides of Listeria monocytogenes, Mycobacterium marinum and Streptococcus pneumoniae as Universal Vaccines 10.3390/vaccines9030269

Inés Canosa Pérez-Fragero

Canosa Pérez-Fragero Inés

ORCID: 0000-0002-5883-9728

Hierarchical management of carbon sources is regulated similarly by the CbrA/B systems in Pseudomonas aeruginosa and Pseudomonas putida 10.1099/mic.0.078873-0

Transcriptional activation of the CrcZ and CrcY regulatory RNAs by the CbrB response regulator in Pseudomonas putida 10.1111/mmi.12270

Regulation of glutamate dehydrogenase expression in Pseudomonas putida results from its direct repression by NtrC under nitrogen-limiting conditions 10.1111/j.1365-2958.2010.07329.x

Lack of CbrB in Pseudomonas putida affects not only amino acids metabolism but also different stress responses and biofilm development 10.1111/j.1462-2920.2010.02254.x

Distinct roles for NtrC and GlnK in nitrogen regulation of the Pseudomonas sp. strain ADP cyanuric acid utilization operon 10.1111/j.1574-6968.2009.01784.x

NtrC-dependent regulatory network for nitrogen assimilation in Pseudomonas putida 10.1128/JB.00744-09

Transcriptome analysis of Pseudomonas putida in response to nitrogen availability 10.1128/JB.01230-07

Growth phase-dependent expression of the Pseudomonas putida KT2440 transcriptional machinery analysed with a genome-wide DNA microarray 10.1111/j.1462-2920.2005.00890.x

Synapsis and strand exchange in the resolution and DNA inversion reactions catalysed by the β recombinase 10.1093/nar/gkg166

A positive feedback mechanism controls expression of AlkS, the transcriptional regulator of the Pseudomonas oleovorans alkane degradation pathway 10.1046/j.1365-2958.2000.01751.x

β Recombinase catalyzes inversion and resolution between two inversely oriented six sites on a supercoiled DNA substrate and only inversion on relaxed or linear substrates 10.1074/jbc.273.22.13886

Mutational analysis of a site-specific recombinase: Characterization of the catalytic and dimerization domains of the β recombinase of pSM19035 10.1007/s004380050519

Site-specific recombination in Gram-positive theta-replicating plasmids 10.1016/0378-1097(96)00234-0

Site-specific recombination by the β protein from the streptococcal plasmid pSM19035: Minimal recombination sequences and crossing over site 10.1093/nar/24.14.2712

Development of genetic tools for the manipulation of the planctomycetes 10.3389/fmicb.2016.00914

A Pseudomonas putida cbrB transposon insertion mutant displays a biofilm hyperproducing phenotype that is resistant to dispersal 10.1111/1758-2229.12414

The CbrB Regulon: Promoter dissection reveals novel insights into the CbrAB expression network in Pseudomonas putida 10.1371/journal.pone.0209191

Unraveling the role of the CbrA histidine kinase in the signal transduction of the CbrAB two-component system in Pseudomonas putida 10.1038/s41598-019-45554-9

Victor de Lorenzo

de Lorenzo Victor

ORCID: 0000-0002-6041-2731

http://www.cnb.csic.es/~synbio

Standardization of Inducer-Activated Broad Host Range Expression Modules: Debugging and Refactoring an Alkane-Responsive AlkS/PalkB Device 10.1093/synbio/ysab030

Robustness of Pseudomonas putida KT2440 as a host for ethanol biosynthesis 10.1016/j.nbt.2014.02.006

Volatilization of Arsenic from Polluted Soil by Pseudomonas putida Engineered for Expression of the arsM Arsenic(III) S-Adenosine Methyltransferase Gene. 10.1021/es502230b

Chemical reactivity drives spatiotemporal organisation of bacterial metabolism 10.1111/1574-6976.12089

From the phosphoenolpyruvate phosphotransferase system to selfish metabolism: A story retraced in Pseudomonas putida 10.1111/1574-6968.12459

A second chromosomal copy of the catA gene endows Pseudomonas putida mt-2 with an enzymatic safety valve for excess of catechol 10.1111/1462-2920.12361

Biotechnological domestication of pseudomonads using synthetic biology 10.1038/nrmicro3253

Engineering multicellular logic in bacteria with metabolic wires 10.1021/sb400064y

Freeing Pseudomonas putida KT2440 of its proviral load strengthens endurance to environmental stresses 10.1111/1462-2920.12492

The differential response of the Pben promoter of Pseudomonas putidamt-2 to BenR and XylS prevents metabolic conflicts in m-xylene biodegradation 10.1111/1462-2920.12443

Functional coexistence of twin arsenic resistance systems in Pseudomonas putida KT2440 10.1111/1462-2920.12464

The private life of environmental bacteria: Pollutant biodegradation at the single cell level 10.1111/1462-2920.12360

From the selfish gene to selfish metabolism: Revisiting the central dogma 10.1002/bies.201300153

Metabolic and regulatory rearrangements underlying glycerol metabolism in Pseudomonas putidaKT2440 10.1111/1462-2920.12224

Pipelines for New Chemicals: A strategy to create new value chains and stimulate innovation-based economic revival in Southern European countries 10.1111/1462-2920.12337

The metabolic cost of flagellar motion in Pseudomonas putidaKT2440 10.1111/1462-2920.12309

Promoter fusions with optical outputs in individual cells and in populations 10.1007/978-1-4939-0473-0_44

The standard European vector architecture (SEVA) plasmid toolkit 10.1007/978-1-4939-0473-0_36

Chromosomal integration of transcriptional fusions 10.1007/978-1-4939-0473-0_37

Fructose 1-phosphate is the one and only physiological effector of the Cra (FruR) regulator of Pseudomonas putida 10.1016/j.fob.2014.03.013

Transcriptomic fingerprinting of Pseudomonas putida under alternative physiological regimes 10.1111/1758-2229.12090

Towards functional orthogonalisation of protein complexes: Individualisation of GroEL monomers leads to distinct quasihomogeneous single rings 10.1002/cbic.201300332

Expanding the boolean logic of the prokaryotic transcription factor XylR by functionalization of permissive sites with a protease-target sequence. 10.1021/sb400050k

NanoPad: An integrated platform for bacterial production of camel nanobodies aimed at detecting environmental biomarkers 10.1002/pmic.201300009

Endogenous Stress Caused by Faulty Oxidation Reactions Fosters Evolution of 2,4-Dinitrotoluene-Degrading Bacteria 10.1371/journal.pgen.1003764

Engineering the soil bacterium Pseudomonas putida for arsenic methylation 10.1128/AEM.01133-13

The Entner-Doudoroff pathway empowers Pseudomonas putidaKT2440 with a high tolerance to oxidative stress 10.1111/1462-2920.12069

Why are chlorinated pollutants so difficult to degrade aerobically? redox stress limits 1,3-dichloprop-1-ene metabolism by Pseudomonas pavonaceae 10.1098/rstb.2012.0377

Decoding the genetic networks of environmental bacteria: Regulatory moonlighting of the TOL system of Pseudomonas putida mt-2 10.1038/ismej.2012.98

The IHF regulon of exponentially growing Pseudomonas putida cells 10.1111/j.1462-2920.2012.02750.x

The TOL network of Pseudomonas putida mt-2 processes multiple environmental inputs into a narrow response space 10.1111/1462-2920.12014

Engineering an anaerobic metabolic regime in Pseudomonas putida KT2440 for the anoxic biodegradation of 1,3-dichloroprop-1-ene 10.1016/j.ymben.2012.09.006

Cra regulates the cross-talk between the two branches of the phosphoenolpyruvate: Phosphotransferase system of Pseudomonas putida 10.1111/j.1462-2920.2012.02808.x

The Standard European Vector Architecture (SEVA): A coherent platform for the analysis and deployment of complex prokaryotic phenotypes 10.1093/nar/gks1119

From the test tube to the environment-and back 10.1111/j.1462-2920.2012.02896.x

Implantation of unmarked regulatory and metabolic modules in Gram-negative bacteria with specialised mini-transposon delivery vectors 10.1016/j.jbiotec.2012.05.002

Accumulation of inorganic polyphosphate enables stress endurance and catalytic vigour in Pseudomonas putida KT2440 10.1186/1475-2859-12-50

Towards a global biotechnology scenario 10.1016/j.copbio.2012.10.007

Stochasticity of TOL plasmid catabolic promoters sets a bimodal expression regime in Pseudomonas putida mt-2 exposed to m-xylene 10.1111/j.1365-2958.2012.08184.x

Broadening the signal specificity of prokaryotic promoters by modifying cis-regulatory elements associated with a single transcription factor 10.1039/c2mb25030f

Synthetic constructs in/for the environment: Managing the interplay between natural and engineered Biology 10.1016/j.febslet.2012.02.022

Production and characterization of a recombinant single-chain antibody (scFv) for tracing the σ54 factor of Pseudomonas putida 10.1016/j.jbiotec.2011.12.011

COVER: A priori estimation of coverage for metagenomic sequencing 10.1111/j.1758-2229.2012.00338.x

Random and cyclical deletion of large DNA segments in the genome of Pseudomonas putida 10.1111/j.1462-2920.2012.02730.x

The Crp regulator of Pseudomonas putida: Evidence of an unusually high affinity for its physiological effector, cAMP 10.1111/j.1462-2920.2011.02622.x

Streamlining of a pseudomonas putida genome using a combinatorial deletion method based on minitransposon insertion and the Flp-FRT recombination system 10.1007/978-1-61779-412-4_15

Engineering whole-cell biosensors with no antibiotic markers for monitoring aromatic compounds in the environment 10.1007/978-1-61779-483-4_17

Increasing Signal Specificity of the TOL Network of Pseudomonas putida mt-2 by Rewiring the Connectivity of the Master Regulator XylR 10.1371/journal.pgen.1002963

A GFP-lacz bicistronic reporter system for promoter analysis in environmental gram-negative bacteria 10.1371/journal.pone.0034675

Regulatory tasks of the phosphoenolpyruvate-phosphotransferase system of Pseudomonas putida in central carbon metabolism 10.1128/mBio.00028-12

Quantitative, Non-Disruptive Monitoring of Transcription in Single Cells with a Broad-Host Range GFP-luxCDABE Dual Reporter System 10.1371/journal.pone.0052000

Modeling and analysis of flux distributions in the two branches of the phosphotransferase system in Pseudomonas putida. 10.1186/1752-0509-6-149

Transposon-based and plasmid-based genetic tools for editing genomes of gram-negative bacteria 10.1007/978-1-61779-412-4_16

A composite feed-forward loop I4-FFL involving IHF and Crc stabilizes expression of the XylR regulator of Pseudomonas putida mt-2 from growth phase perturbations 10.1039/c1mb05264k

Functional analysis of the integration host factor site of the σ 54Pu promoter of Pseudomonas putida by in vivo UV imprinting 10.1111/j.1365-2958.2011.07835.x

Association of dnt genes of Burkholderia sp. DNT with the substrate-blind regulator DntR draws the evolutionary itinerary of 2,4-dinitrotoluene biodegradation 10.1111/j.1365-2958.2011.07825.x

The interplay of the EIIA(Ntr) component of the nitrogen-related phosphotransferase system (PTS(Ntr)) of Pseudomonas putida with pyruvate dehydrogenase. 10.1016/j.bbagen.2011.01.002

Engineering multiple genomic deletions in Gram-negative bacteria: Analysis of the multi-resistant antibiotic profile of Pseudomonas putida KT2440 10.1111/j.1462-2920.2011.02538.x

The logicome of environmental bacteria: Merging catabolic and regulatory events with Boolean formalisms 10.1111/j.1462-2920.2011.02455.x

Implementing an OR-NOT (ORN) logic gate with components of the SOS regulatory network of Escherichia coli 10.1039/c1mb05094j

Linking genes to microbial growth kinetics-An integrated biochemical systems engineering approach 10.1016/j.ymben.2011.02.001

The ten grand challenges of synthetic life 10.1007/s11693-011-9084-5

In situ detection of aromatic compounds with biosensor Pseudomonas putida cells preserved and delivered to soil in water-soluble gelatin capsules 10.1007/s00216-010-4558-y

Monitoring biodegradative enzymes with nanobodies raised in Camelus dromedarius with mixtures of catabolic proteins 10.1111/j.1462-2920.2010.02401.x

Cooperative amino acid changes shift the response of the σ⁵⁴-dependent regulator XylR from natural m-xylene towards xenobiotic 2,4-dinitrotoluene. 10.1111/j.1365-2958.2010.07518.x

Fructose 1-phosphate is the preferred effector of the metabolic regulator Cra of Pseudomonas putida 10.1074/jbc.M110.187583

Regulatory exaptation of the catabolite repression protein (Crp)-cAMP system in Pseudomonas putida 10.1111/j.1462-2920.2010.02331.x

Genes that move the window of viability of life: Lessons from bacteria thriving at the cold extreme: Mesophiles can be turned into extremophiles by substituting essential genes 10.1002/bies.201000101

Beware of metaphors: chasses and orthogonality in synthetic biology. 10.4161/bbug.2.1.13388

The logic layout of the TOL network of Pseudomonas putida pWW0 plasmid stems from a metabolic amplifier motif (MAM) that optimizes biodegradation of m-xylene 10.1186/1752-0509-5-191

PBAM1: An all-synthetic genetic tool for analysis and construction of complex bacterial phenotypes 10.1186/1471-2180-11-38

Beautiful is not (necessarily) right: Overcoming the Phryne's trial syndrome 10.1002/bies.201000100

An electro-optical device from a biofilm structure created by bacterial activity 10.1002/adma.201001986

Environmental biosafety in the age of synthetic biology: do we really need a radical new approach? Environmental fates of microorganisms bearing synthetic genomes could be predicted from previous data on traditionally engineered bacteria for in situ bioremediation. 10.1002/bies.201000099

Engineering input/output nodes in prokaryotic regulatory circuits 10.1111/j.1574-6976.2010.00238.x

Synthetic biology gains momentum in Europe 10.1007/s11693-010-9065-0

The regulatory logic of m-xylene biodegradation by Pseudomonas putida mt-2 exposed by dynamic modelling of the principal node Ps/Pr of the TOL plasmid 10.1111/j.1462-2920.2010.02245.x

Synthetic biology: something old, something new... 10.1002/bies.200900194

EnvMine: A text-mining system for the automatic extraction of contextual information 10.1186/1471-2105-11-294

Noise and robustness in prokaryotic regulatory networks 10.1146/annurev.micro.091208.073229

Microbial responses to environmental arsenic 10.1007/s10534-008-9195-y

Microbial systems biology: Bottom up and top down 10.1111/j.1574-6976.2008.00147.x

Stable implantation of orthogonal sensor circuits in Gram-negative bacteria for environmental release 10.1111/j.1462-2920.2008.01722.x

Systems biology approaches to bioremediation 10.1016/j.copbio.2008.10.004

Synthetic biology: discovering new worlds and new words. 10.1038/embor.2008.159

Transcriptional wiring of the TOL plasmid regulatory network to its host involves the submission of the σ54-promoter Pu to the response regulator PprA 10.1111/j.1365-2958.2008.06321.x

Evidence of in vivo cross talk between the nitrogen-related and fructose-related branches of the carbohydrate phosphotransferase system of Pseudomonas putida 10.1128/JB.02002-07

Tracing explosives in soil with transcriptional regulators of Pseudomonas putida evolved for responding to nitrotoluenes 10.1111/j.1751-7915.2008.00027.x

Mining logic gates in prokaryotic transcriptional regulation networks 10.1016/j.febslet.2008.01.060

Non-disruptive release of Pseudomonas putida proteins by in situ electric breakdown of intact cells 10.1016/j.mimet.2007.08.004

Osmotic stress limits arsenic hypertolerance in Aspergillus sp. P37 10.1111/j.1574-6941.2007.00344.x

Sinorhizobium meliloti fur-like (Mur) protein binds a fur box-like sequence present in the mntA promoter in a manganese-responsive manner 10.1128/AEM.00686-07

Emergence of novel functions in transcriptional regulators by regression to stem protein types 10.1111/j.1365-2958.2007.05832.x

Growth-dependent phosphorylation of the PtsN (EIINtr) protein of Pseudomonas putida 10.1074/jbc.M611110200

The phosphotransferase system formed by PtsP, PtsO, and PtsN proteins controls production of polyhydroxyalkanoates in Pseudomonas putida 10.1128/JB.00033-07

The environmental fate of organic pollutants through the global microbial metabolism 10.1038/msb4100156

The ancestral role of the phosphoenolpyruvate-carbohydrate phosphotransferase system (PTS) as exposed by comparative genomics 10.1016/j.resmic.2007.08.002

Uncoupling of choline-O-sulphate utilization from osmoprotection in Pseudomonas putida 10.1111/j.1365-2958.2006.05488.x

Blueprint of an oil-eating bacterium 10.1038/nbt0806-952

In vivo drafting of single-chain antibodies for regulatory duty on the σ54-promoter Pu of the TOL plasmid 10.1111/j.1365-2958.2006.05183.x

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A Post-translational Metabolic Switch Enables Complete Decoupling of Bacterial Growth from Biopolymer Production in Engineered Escherichia coli 10.1021/acssynbio.8b00345

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Recombination-Independent Genome Editing through CRISPR/Cas9-Enhanced TargeTron Delivery 10.1021/acssynbio.9b00293

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Synthetic Biology for Terraformation Lessons from Mars, Earth, and the Microbiome 10.3390/life10020014

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Exploiting geometric similarity for statistical quantification of fluorescence spatial patterns in bacterial colonies 10.1186/s12859-020-3490-1

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Naked Bacterium: Emerging Properties of a Surfome-Streamlined Pseudomonas putida Strain 10.1021/acssynbio.0c00272

The subcellular architecture of the xyl gene expression flow of the TOL catabolic plasmid of Pseudomonas putida mt-2 10.1101/2020.08.30.273938

Surface Display of Designer Protein Scaffolds on Genome-Reduced Strains of Pseudomonas putida 10.1021/acssynbio.0c00276

Quantitative assessment of morphological traits of planktonic bacterial aggregates 10.1016/j.watres.2020.116468

An automated DIY framework for experimental evolution of Pseudomonas putida 10.1111/1751-7915.13678

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A Standardized Inverter Package Borne by Broad Host Range Plasmids for Genetic Circuit Design in Gram-Negative Bacteria 10.1021/acssynbio.0c00529

In vivo diversification of target genomic sites using processive base deaminase fusions blocked by dCas9 10.1038/s41467-020-20230-z

Standardization of inducer-activated broad host range expression modules: Debugging and refactoring an alkane-responsive AlkS/PalkB device 10.1101/2020.12.26.424440

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Reconfiguration of metabolic fluxes in Pseudomonas putida as a response to sub-lethal oxidative stress 10.1038/s41396-020-00884-9

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An updated structural model of the A domain of the Pseudomonas putida XylR regulator exposes a distinct interplay with aromatic effectors 10.1101/2021.01.17.427014

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Low CyaA expression and anti‐cooperative binding of cAMP to CRP frames the scope of the cognate regulon of Pseudomonas putida 10.1111/1462-2920.15422

Subcellular Architecture of the xyl Gene Expression Flow of the TOL Catabolic Plasmid of Pseudomonas putida mt-2 10.1128/mBio.03685-20

Transcriptional control of 2,4‐dinitrotoluene degradation in Burkholderia sp . R34 bears a regulatory patch that eases pathway evolution 10.1111/1462-2920.15472

Refactoring the Conjugation Machinery of Promiscuous Plasmid RP4 into a Device for Conversion of Gram-Negative Isolates to Hfr Strains 10.1021/acssynbio.0c00611

Targetron-assisted delivery of exogenous DNA sequences into Pseudomonas putida through CRISPR-aided counterselection 10.1101/2021.05.01.442236

An updated structural model of the A domain of the Pseudomonas putida XylR regulator poses an atypical interplay with aromatic effectors 10.1111/1462-2920.15628

Identification of a self‐sufficient cytochrome P450 monooxygenase from Cupriavidus pinatubonensis JMP134 involved in 2‐hydroxyphenylacetic acid catabolism, via homogentisate pathway 10.1111/1751-7915.13865

Engineering Tropism of Pseudomonas putida toward Target Surfaces through Ectopic Display of Recombinant Nanobodies 10.1021/acssynbio.1c00227

Automated Design and Implementation of a NOR Gate in Pseudomonas Putida 10.1093/synbio/ysab024

Fernando Rojo

Rojo Fernando

ORCID: 0000-0003-1848-7745

The Crc protein inhibits the production of polyhydroxyalkanoates in Pseudomonas putida under balanced carbon/nitrogen growth conditions 10.1111/1462-2920.12303

Deep Eutectic Solvent-Assisted Synthesis of Biodegradable Polyesters with Antibacterial Properties 10.1021/la401353r

Nanocomposites of silver nanoparticles embedded in glass nanofibres obtained by laser spinning 10.1039/c3nr00638g

Pseudomonas putida growing at low temperature shows increased levels of CrcZ and CrcY sRNAs, leading to reduced Crc-dependent catabolite repression 10.1111/j.1462-2920.2012.02708.x

The contribution of proteomics to the unveiling of the survival strategies used by Pseudomonas putida in changing and hostile environments 10.1002/pmic.201200503

The Pseudomonas putida HskA hybrid sensor kinase controls the composition of the electron transport chain 10.1111/1758-2229.12017

The Pseudomonas putidaHskA hybrid sensor kinase responds to redox signals and contributes to the adaptation of the electron transport chain composition in response to oxygen availability 10.1111/1758-2229.12083

The translational repressor Crc controls the Pseudomonas putida benzoate and alkane catabolic pathways using a multi-tier regulation strategy 10.1111/j.1462-2920.2012.02863.x

Glass-(nAg, nCu) Biocide Coatings on Ceramic Oxide Substrates 10.1371/journal.pone.0033135

Mechanism of calcium lixiviation in soda-lime glasses with a strong biocide activity 10.1016/j.matlet.2011.11.104

Overproduction of the multidrug efflux pump MexEF-OprN does not impair Pseudomonas aeruginosa fitness in competition tests, but produces specific changes in bacterial regulatory networks 10.1111/j.1462-2920.2012.02727.x

Two small RNAs, CrcY and CrcZ, act in concert to sequester the Crc global regulator in Pseudomonas putida, modulating catabolite repression 10.1111/j.1365-2958.2011.07912.x

Are nonlethal targets useful for developing novel antimicrobials? 10.2217/FMB.11.47

Growth of Pseudomonas putida at low temperature: global transcriptomic and proteomic analyses 10.1111/j.1758-2229.2010.00229.x

Metabolic regulation of antibiotic resistance 10.1111/j.1574-6976.2011.00282.x

Population Structure of Pseudomonas aeruginosa from Five Mediterranean Countries: Evidence for Frequent Recombination and Epidemic Occurrence of CC235 10.1371/journal.pone.0025617

Taxonomic and Functional Metagenomic Profiling of the Microbial Community in the Anoxic Sediment of a Sub-saline Shallow Lake (Laguna de Carrizo, Central Spain) 10.1007/s00248-011-9903-y

Bacteria Incorporation in Deep-eutectic Solvents through Freeze-Drying 10.1002/anie.200905212

Carbon catabolite repression in Pseudomonas: optimizing metabolic versatility and interactions with the environment 10.1111/j.1574-6976.2010.00218.x

The Crc Global Regulator Inhibits the Pseudomonas putida pWW0 Toluene/Xylene Assimilation Pathway by Repressing the Translation of Regulatory and Structural Genes 10.1074/jbc.M110.126615

The global regulator Crc modulates metabolism, susceptibility to antibiotics and virulence in Pseudomonas aeruginosa 10.1111/j.1462-2920.2010.02292.x

Controlled formation of the anhydrous polymorph of ciprofloxacin crystals embedded within chitosan scaffolds: study of the kinetic release dependence on crystal size 10.1039/b813156b

Degradation of alkanes by bacteria 10.1111/j.1462-2920.2009.01948.x

Structural and Functional Analysis of SmeT, the Repressor of the Stenotrophomonas maltophilia Multidrug Efflux Pump SmeDEF 10.1074/jbc.M809221200

The Crc global regulator binds to an unpaired A-rich motif at the Pseudomonas putida alkS mRNA coding sequence and inhibits translation initiation 10.1093/nar/gkp825

The Pseudomonas putida Crc global regulator controls the hierarchical assimilation of amino acids in a complete medium: Evidence from proteomic and genomic analyses 10.1002/pmic.200800918

Biofuels from microbes: a comprehensive view 10.1111/j.1751-7915.2008.00024.x

Genomic analysis of the role of RNase R in the turnover of Pseudomonas putida mRNAs 10.1128/JB.00630-08

The coordinate regulation of multiple terminal oxidases by the Pseudomonas putida ANR global regulator 10.1111/j.1462-2920.2008.01586.x

The target for the Pseudomonas putida Crc global regulator in the benzoate degradation pathway is the BenR transcriptional regulator 10.1128/JB.01604-07

Differential expression of the components of the two alkane hydroxylases from Pseudomonas aeruginosa 10.1128/JB.185.10.3232-3237.2003

A Complex Genetic Switch Involving Overlapping Divergent Promoters and DNA Looping Regulates Expression of Conjugation Genes of a Gram-positive Plasmid 10.1371/journal.pgen.1004733

Features of pseudomonads growing at low temperatures: another facet of their versatility 10.1111/1758-2229.12150

The role of environmental biotechnology in exploring, exploiting, monitoring, preserving, protecting and decontaminating the marine environment 10.1016/j.nbt.2014.03.007

The Crc and Hfq proteins of Pseudomonas putida cooperate in catabolite repression and formation of ribonucleic acid complexes with specific target motifs 10.1111/1462-2920.12499

Transcriptional and translational control through the 5′-leader region of the dmpR master regulatory gene of phenol metabolism 10.1111/1462-2920.12511

Cohabitation of two different lexA regulons in Pseudomonas putida 10.1128/JB.01213-07

Poly(vinyl alcohol) scaffolds with tailored morphologies for drug delivery and controlled release 10.1002/adfm.200700093

Biocompatible MWCNT scaffolds for immobilization and proliferation of E. coli 10.1039/b707504a

The Pseudomonas putida Crc global regulator is an RNA binding protein that inhibits translation of the AlkS transcriptional regulator 10.1111/j.1365-2958.2007.05685.x

Hydrogel scaffolds with immobilized bacteria for 3D cultures 10.1021/cm062882s

Inactivation of the Pseudomonas putida cytochrome o ubiquinol oxidase leads to a significant change in the transcriptome and to increased expression of the CIO and cbb3-1 terminal oxidases 10.1111/j.1462-2920.2006.01061.x

Bacteria viability in sol-gel materials revisited: Cryo-SEM as a suitable tool to study the structural integrity of encapsulated bacteria 10.1021/cm0522275

Growth phase-dependent expression of the Pseudomonas putida KT2440 transcriptional machinery analysed with a genome-wide DNA microarray 10.1111/j.1462-2920.2005.00890.x

Levels and activity of the Pseudomonas putida global regulatory protein Crc vary according to growth conditions 10.1128/JB.187.11.3678-3686.2005

Overexpression of the multidrug efflux pumps MexCD-OprJ and MexEF-OprN is associated with a reduction of type III secretion in Pseudomonas aeruginosa 10.1128/JB.187.4.1384-1391.2005

Specificity at the end of the tunnel: Understanding substrate length discrimination by the AlkB Alkane hydroxylase 10.1128/JB.187.1.19-22.2005

Complex regulation of the synthesis of the compatible solute ectoine in the halophilic bacterium Chromohalobacter salexigens DSM 3043T 10.1099/mic.0.27122-0

Structure of Pseudomonas aeruginosa populations analyzed by single nucleotide polymorphism and pulsed-field gel electrophoresis genotyping 10.1128/JB.186.13.4228-4237.2004

The Pseudomonas putida Crc Global Regulator Controls the Expression of Genes from Several Chromosomal Catabolic Pathways for Aromatic Compounds 10.1128/JB.186.5.1337-1344.2004

Characterization of two alkane hydroxylase genes from the marine hydrocarbonoclastic bacterium Alcanivorax borkumensis 10.1111/j.1462-2920.2004.00567.x

Biocompatible sol-gel route for encapsulation of living bacteria in organically modified silica matrixes 10.1021/cm034372t

Expression of the Pseudomonas putida OCT plasmid alkane degradation pathway is modulated by two different global control signals: Evidence from continuous cultures 10.1128/JB.185.16.4772-4778.2003

Synapsis and strand exchange in the resolution and DNA inversion reactions catalysed by the β recombinase 10.1093/nar/gkg166

The φ29 transcriptional regulator contacts the nucleoid protein p6 to organize a repression complex 10.1093/emboj/cdf623

Inactivation of cytochrome o ubiquinol oxidase relieves catabolic repression of the Pseudomonas putida GPo1 alkane degradation pathway 10.1128/JB.184.14.3785-3793.2002

Transcriptional regulation of mexR, the repressor of Pseudomonas aeruginosa mexAB-oprM multidrug efflux pump 10.1016/S0378-1097(01)00562-6

Role of the crc gene in catabolic repression of the Pseudomonas putida GPo1 alkane degradation pathway 10.1128/JB.183.21.6197-6206.2001

Analysis of early promoters of the Bacillus bacteriophage GA-1 10.1128/JB.183.23.6965-6970.2001

The alkane hydroxylase gene of Burkholderia cepacia RR10 is under catabolite repression control 10.1128/JB.183.14.4202-4209.2001

Mechanisms of transcriptional repression 10.1016/S1369-5274(00)00180-6

A mutation in the C-terminal domain of the RNA polymerase alpha subunit that destabilizes the open complexes formed at the phage φ29 late A3 promoter 10.1006/jmbi.2001.4511

Characterization of bacterial strains able to grow on high molecular mass residues from crude oil processing 10.1016/S0168-6496(00)00015-5

A positive feedback mechanism controls expression of AlkS, the transcriptional regulator of the Pseudomonas oleovorans alkane degradation pathway 10.1046/j.1365-2958.2000.01751.x

The switch from early to late transcription in phage GA-1: Characterization of the regulatory protein p4(G) 10.1006/jmbi.1999.2932

The prokaryotic β-recombinase catalyzes site-specific recombination in mammalian cells 10.1074/jbc.274.10.6634

Binding of phage Φ29 protein p4 to the early A2c promoter: Recruitment of a repressor by the RNA polymerase 10.1006/jmbi.1998.2084

β Recombinase catalyzes inversion and resolution between two inversely oriented six sites on a supercoiled DNA substrate and only inversion on relaxed or linear substrates 10.1074/jbc.273.22.13886

Substitution of the C-terminal domain of the Escherichia coli RNA polymerase α subunit by that from Bacillus subtilis makes the enzyme responsive to a Bacillus subtilis transcriptional activator 10.1006/jmbi.1997.1463

Mutational analysis of a site-specific recombinase: Characterization of the catalytic and dimerization domains of the β recombinase of pSM19035 10.1007/s004380050519

The Bacillus subtilis chromatin-associated protein Hbsu is involved in DNA repair and recombination 10.1046/j.1365-2958.1997.3061670.x

Site-specific recombination in Gram-positive theta-replicating plasmids 10.1016/0378-1097(96)00234-0

Site-specific recombination by the β protein from the streptococcal plasmid pSM19035: Minimal recombination sequences and crossing over site 10.1093/nar/24.14.2712

Transcription activation by phage Φ29 protein p4 is mediated by interaction with the α subunit of Bacillus subtilis RNA polymerase 10.1073/pnas.93.13.6616

Transcriptional activator of phage Φ29 late promoter: Mapping of residues involved in interaction with RNA polymerase and in DNA bending 10.1111/j.1365-2958.1996.tb02616.x

The Mfd protein of Bacillus subtilis 168 is involved in both transcription-coupled DNA repair and DNA recombination 10.1006/jmbi.1996.0087

[23] Transcriptional regulators: Protein-DNA complexes and regulatory mechanisms 10.1016/S1067-2389(06)80026-9

Plasmid rolling circle replication and its control 10.1016/0378-1097(95)00194-A

Transcription regulation in Bacillus subtilis phage Φ29: Expression of the viral promoters throughout the infection cycle 10.1006/viro.1995.1048

The Bacillus subtilis histone-like protein Hbsu is required for DNA resolution and DNA inversion mediated by the β recombinase of plasmid pSM19035 10.1074/jbc.270.7.2938

A novel site-specific recombinase encoded by the streptococcus pyogenes plasmid pSM19035 10.1006/jmbi.1994.1278

Requirement for an A-tract structure at the binding site of phage ∅29 transcriptional activator 10.1006/jmbi.1994.1219

Purification of the β product encoded by the Streptococcus pyogenes plasmid pSM19035. A putative DNA recombinase required to resolve plasmid oligomers 10.1016/0014-5793(93)80987-6

Residues of the Bacillus subtilis phage Φ transcriptional activator required both to interact with RNA polymerase and to activate transcription 10.1006/jmbi.1993.1546

Phage φ29 regulatory protein p4 stabilizes the binding of the RNA polymerase to the late promoter in a process involving direct protein-protein contacts 10.1073/pnas.89.23.11401

Transcription regulation in Bacillus subtilis phage Φ29 10.1016/0923-2508(91)90054-E

Short N-terminal deletions in the phage φ29 transcriptional activator protein impair its DNA-binding ability 10.1016/0378-1119(90)90343-P

Penicillin-binding proteins in the cyanelles of Cyanophora paradoxa, a eukaryotic photoautotroph sensitive to β-lactam antibiotics 10.1016/0014-5793(87)80492-1

Marine hydrocarbonoclastic bacteria as whole-cell biosensors for n-alkanes. 10.1111/1751-7915.12286

The Crc/CrcZ-CrcY global regulatory system helps the integration of gluconeogenic and glycolytic metabolism inPseudomonas putida 10.1111/1462-2920.12812

Influence of the Crc regulator on the hierarchical use of carbon sources from a complete medium in P seudomonas 10.1111/1462-2920.13126

Green Synthesis of Hierarchically Structured Silver-Polymer Nanocomposites with Antibacterial Activity 10.3390/nano6080137

Traits allowing resistance to organic solvents in Pseudomonas 10.1111/1462-2920.13631

Effect of Crc and Hfq proteins on the transcription, processing, and stability of the Pseudomonas putida CrcZ sRNA 10.1261/rna.058313.116

Glucose uptake in Azotobacter vinelandii occurs through a GluP transporter that is under the control of the CbrA/CbrB and Hfq-Crc systems 10.1038/s41598-017-00980-5

Differential expression of the three Alcanivorax borkumensis SK2 genes coding for the P450 cytochromes involved in the assimilation of hydrocarbons 10.1111/1758-2229.12598

Influence of the Hfq and Crc global regulators on the control of iron homeostasis in Pseudomonas putida 10.1111/1462-2920.14263

Novel regulatory mechanism of establishment genes of conjugative plasmids. 10.1093/nar/gky996

Pseudomonas putida KT2440 metabolism undergoes sequential modifications during exponential growth in a complete medium as compounds are gradually consumed 10.1111/1462-2920.14622

Combining electrokinetic transport and bioremediation for enhanced removal of crude oil from contaminated marine sediments: Results of a long-term, mesocosm-scale experiment 10.1016/j.watres.2019.03.094

Vortex ring processes allowing shape control and entrapment of antibacterial agents in GO-based particles 10.1016/j.carbon.2019.03.024

Influence of the Crc global regulator on substrate uptake rates and the distribution of metabolic fluxes in Pseudomonas putida KT2440 growing in a complete medium 10.1111/1462-2920.14812

A new global regulator that facilitates the co‐metabolization of polyaromatic hydrocarbons and other nutrients in Novosphingobium 10.1111/1462-2920.15527

Expression of the ISPpu9 transposase of Pseudomonas putida KT2440 is regulated by two small RNAs and the secondary structure of the mRNA 5′-untranslated region 10.1093/nar/gkab672

Ana Hervás Veguillas

Hervás Veguillas Ana

ORCID: 0000-0002-1135-386X

Glutamate Dehydrogenases: Enzymology, Physiological Role and Biotechnological Relevance 10.5772/47767

Rapid turnover of DnaA at replication origin regions contributes to initiation control of DNA replication. 10.1371/journal.pgen.1006561

Distinct roles for NtrC and GlnK in nitrogen regulation of the Pseudomonas sp. strain ADP cyanuric acid utilization operon. 10.1111/j.1574-6968.2009.01784.x

Regulation of glutamate dehydrogenase expression in Pseudomonas putida results from its direct repression by NtrC under nitrogen-limiting conditions. 10.1111/j.1365-2958.2010.07329.x

Growth phase-dependent expression of the Pseudomonas putida KT2440 transcriptional machinery analysed with a genome-wide DNA microarray. 10.1111/j.1462-2920.2005.00890.x

NtrC-dependent regulatory network for nitrogen assimilation in Pseudomonas putida. 10.1128/JB.00744-09

Transcriptome analysis of Pseudomonas putida in response to nitrogen availability. 10.1128/JB.01230-07

Super Resolution Fluorescence Microscopy and Tracking of Bacterial Flotillin (Reggie) Paralogs Provide Evidence for Defined-Sized Protein Microdomains within the Bacterial Membrane but Absence of Clusters Containing Detergent-Resistant Proteins. 10.1371/journal.pgen.1006116