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For: Fraile S, Roncal F, Fernández LA, de Lorenzo V. Monitoring intracellular levels of XylR in Pseudomonas putida with a single-chain antibody specific for aromatic-responsive enhancer-binding proteins. J Bacteriol 2001;183:5571-9. [PMID: 11544219 PMCID: PMC95448 DOI: 10.1128/jb.183.19.5571-5579.2001] [Citation(s) in RCA: 33] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]  Open
Number Cited by Other Article(s)
1
de Las Heras A, Martínez-García E, Domingo-Sananes MR, Fraile S, de Lorenzo V. Rationally rewiring the connectivity of the XylR/Pu regulatory node of the m-xylene degradation pathway in Pseudomonas putida. Integr Biol (Camb) 2016;8:571-6. [PMID: 26961967 DOI: 10.1039/c5ib00310e] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
2
Transcription factor levels enable metabolic diversification of single cells of environmental bacteria. ISME JOURNAL 2015;10:1122-33. [PMID: 26636554 DOI: 10.1038/ismej.2015.193] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/01/2015] [Revised: 08/27/2015] [Accepted: 09/22/2015] [Indexed: 12/19/2022]
3
de las Heras A, Martínez-García E, Domingo-Sananes MR, de Lorenzo V. Widening functional boundaries of the σ(54) promoter Pu of Pseudomonas putida by defeating extant physiological constraints. MOLECULAR BIOSYSTEMS 2015;11:734-42. [PMID: 25560994 DOI: 10.1039/c4mb00557k] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
4
Calles B, Lorenzo VD. Expanding the boolean logic of the prokaryotic transcription factor XylR by functionalization of permissive sites with a protease-target sequence. ACS Synth Biol 2013;2:594-603. [PMID: 23875967 DOI: 10.1021/sb400050k] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
5
Fraile S, Jiménez JI, Gutiérrez C, de Lorenzo V. NanoPad: An integrated platform for bacterial production of camel nanobodies aimed at detecting environmental biomarkers. Proteomics 2013;13:2766-75. [DOI: 10.1002/pmic.201300009] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2013] [Revised: 02/11/2013] [Accepted: 03/26/2013] [Indexed: 11/11/2022]
6
Silva-Rocha R, de Lorenzo V. The TOL network ofPseudomonas putidamt-2 processes multiple environmental inputs into a narrowresponse space. Environ Microbiol 2012;15:271-86. [DOI: 10.1111/1462-2920.12014] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2012] [Revised: 09/23/2012] [Accepted: 09/27/2012] [Indexed: 11/30/2022]
7
de las Heras A, Fraile S, de Lorenzo V. Increasing signal specificity of the TOL network of Pseudomonas putida mt-2 by rewiring the connectivity of the master regulator XylR. PLoS Genet 2012;8:e1002963. [PMID: 23071444 PMCID: PMC3469447 DOI: 10.1371/journal.pgen.1002963] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2012] [Accepted: 08/07/2012] [Indexed: 11/28/2022]  Open
8
Silva-Rocha R, de Lorenzo V. Stochasticity of TOL plasmid catabolic promoters sets a bimodal expression regime inPseudomonas putidamt-2 exposed tom-xylene. Mol Microbiol 2012;86:199-211. [DOI: 10.1111/j.1365-2958.2012.08184.x] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
9
Silva-Rocha R, Pérez-Pantoja D, de Lorenzo V. Decoding the genetic networks of environmental bacteria: regulatory moonlighting of the TOL system of Pseudomonas putida mt-2. ISME JOURNAL 2012;7:229-32. [PMID: 22895160 DOI: 10.1038/ismej.2012.98] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
10
Jurado P, Fernández LA, de Lorenzo V. Production and characterization of a recombinant single-chain antibody (scFv) for tracing the σ54 factor of Pseudomonas putida. J Biotechnol 2012;160:33-41. [PMID: 22206981 DOI: 10.1016/j.jbiotec.2011.12.011] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2011] [Revised: 12/08/2011] [Accepted: 12/13/2011] [Indexed: 11/26/2022]
11
Silva-Rocha R, de Jong H, Tamames J, de Lorenzo V. 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. BMC SYSTEMS BIOLOGY 2011;5:191. [PMID: 22078029 PMCID: PMC3253710 DOI: 10.1186/1752-0509-5-191] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/09/2011] [Accepted: 11/11/2011] [Indexed: 12/13/2022]
12
Silva-Rocha R, de Lorenzo V. 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. MOLECULAR BIOSYSTEMS 2011;7:2982-90. [PMID: 21853168 DOI: 10.1039/c1mb05264k] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
13
Vogne C, Bisht H, Arias S, Fraile S, Lal R, van der Meer JR. Characterisation of the putative effector interaction site of the regulatory HbpR protein from Pseudomonas azelaica by site-directed mutagenesis. PLoS One 2011;6:e16539. [PMID: 21379585 PMCID: PMC3040749 DOI: 10.1371/journal.pone.0016539] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2010] [Accepted: 12/29/2010] [Indexed: 11/18/2022]  Open
14
Zafra O, Fraile S, Gutiérrez C, Haro A, Páez-Espino AD, Jiménez JI, de Lorenzo V. Monitoring biodegradative enzymes with nanobodies raised in Camelus dromedarius with mixtures of catabolic proteins. Environ Microbiol 2011;13:960-74. [DOI: 10.1111/j.1462-2920.2010.02401.x] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
15
de las Heras A, de Lorenzo V. Cooperative amino acid changes shift the response of the σ54-dependent regulator XylR from natural m-xylene towards xenobiotic 2,4-dinitrotoluene. Mol Microbiol 2011;79:1248-59. [DOI: 10.1111/j.1365-2958.2010.07518.x] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
16
Moreno R, Fonseca P, Rojo F. The Crc global regulator inhibits the Pseudomonas putida pWW0 toluene/xylene assimilation pathway by repressing the translation of regulatory and structural genes. J Biol Chem 2010;285:24412-9. [PMID: 20529863 PMCID: PMC2915677 DOI: 10.1074/jbc.m110.126615] [Citation(s) in RCA: 49] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2010] [Revised: 05/13/2010] [Indexed: 11/06/2022]  Open
17
Bernardo LMD, Johansson LUM, Skärfstad E, Shingler V. sigma54-promoter discrimination and regulation by ppGpp and DksA. J Biol Chem 2008;284:828-38. [PMID: 19008221 DOI: 10.1074/jbc.m807707200] [Citation(s) in RCA: 28] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]  Open
18
Jones J, Studholme DJ, Knight CG, Preston GM. Integrated bioinformatic and phenotypic analysis of RpoN-dependent traits in the plant growth-promoting bacterium Pseudomonas fluorescens SBW25. Environ Microbiol 2007;9:3046-64. [DOI: 10.1111/j.1462-2920.2007.01416.x] [Citation(s) in RCA: 26] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
19
Garcillán-Barcia MP, Jurado P, González-Pérez B, Moncalián G, Fernández LA, de la Cruz F. Conjugative transfer can be inhibited by blocking relaxase activity within recipient cells with intrabodies. Mol Microbiol 2006;63:404-16. [PMID: 17163977 DOI: 10.1111/j.1365-2958.2006.05523.x] [Citation(s) in RCA: 57] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
20
Imai S, Mukai Y, Nagano K, Shibata H, Sugita T, Abe Y, Nomura T, Tsutsumi Y, Kamada H, Nakagawa S, Tsunoda SI. Quality enhancement of the non-immune phage scFv library to isolate effective antibodies. Biol Pharm Bull 2006;29:1325-30. [PMID: 16819162 DOI: 10.1248/bpb.29.1325] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
21
Jurado P, Fernández LA, de Lorenzo V. In vivo drafting of single-chain antibodies for regulatory duty on the sigma54-promoter Pu of the TOL plasmid. Mol Microbiol 2006;60:1218-27. [PMID: 16689797 DOI: 10.1111/j.1365-2958.2006.05183.x] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
22
Velázquez F, Fernández S, de Lorenzo V. The upstream-activating sequences of the sigma54 promoter Pu of Pseudomonas putida filter transcription readthrough from upstream genes. J Biol Chem 2006;281:11940-8. [PMID: 16510445 DOI: 10.1074/jbc.m511782200] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]  Open
23
Jurado P, de Lorenzo V, Fernández LA. Thioredoxin fusions increase folding of single chain Fv antibodies in the cytoplasm of Escherichia coli: evidence that chaperone activity is the prime effect of thioredoxin. J Mol Biol 2006;357:49-61. [PMID: 16427080 DOI: 10.1016/j.jmb.2005.12.058] [Citation(s) in RCA: 67] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2005] [Revised: 12/14/2005] [Accepted: 12/16/2005] [Indexed: 11/21/2022]
24
Solera D, Arenghi FLG, Woelk T, Galli E, Barbieri P. TouR-mediated effector-independent growth phase-dependent activation of the sigma54 Ptou promoter of Pseudomonas stutzeri OX1. J Bacteriol 2004;186:7353-63. [PMID: 15489447 PMCID: PMC523194 DOI: 10.1128/jb.186.21.7353-7363.2004] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]  Open
25
Tropel D, van der Meer JR. Bacterial transcriptional regulators for degradation pathways of aromatic compounds. Microbiol Mol Biol Rev 2004;68:474-500, table of contents. [PMID: 15353566 PMCID: PMC515250 DOI: 10.1128/mmbr.68.3.474-500.2004] [Citation(s) in RCA: 295] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]  Open
26
Fraile S, Muñoz A, de Lorenzo V, Fernández LA. Secretion of proteins with dimerization capacity by the haemolysin type I transport system of Escherichia coli. Mol Microbiol 2004;53:1109-21. [PMID: 15306015 DOI: 10.1111/j.1365-2958.2004.04205.x] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
27
Valls M, de Lorenzo V. Transient XylR binding to the UAS of the Pseudomonas putida sigma54 promoter Pu revealed with high intensity UV footprinting in vivo. Nucleic Acids Res 2003;31:6926-34. [PMID: 14627825 PMCID: PMC290279 DOI: 10.1093/nar/gkg912] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/11/2003] [Revised: 10/16/2003] [Accepted: 10/16/2003] [Indexed: 11/12/2022]  Open
28
Van Dien SJ, de Lorenzo V. Deciphering environmental signal integration in sigma54-dependent promoters with a simple mathematical model. J Theor Biol 2003;224:437-49. [PMID: 12957116 DOI: 10.1016/s0022-5193(03)00191-7] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
29
Jurado P, Ritz D, Beckwith J, de Lorenzo V, Fernández LA. Production of functional single-chain Fv antibodies in the cytoplasm of Escherichia coli. J Mol Biol 2002;320:1-10. [PMID: 12079330 DOI: 10.1016/s0022-2836(02)00405-9] [Citation(s) in RCA: 127] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
30
Garmendia J, Devos D, Valencia A, de Lorenzo V. A la carte transcriptional regulators: unlocking responses of the prokaryotic enhancer-binding protein XylR to non-natural effectors. Mol Microbiol 2001;42:47-59. [PMID: 11679066 DOI: 10.1046/j.1365-2958.2001.02633.x] [Citation(s) in RCA: 70] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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