-
1
-
-
0019805971
-
Specific purpose plasmid cloning vectors. II. Broad host range, high copy number, RSF1010derived vectors, and a host-vector system for gene cloning in Pseudomonas
-
Bagdasarian M, Lurz R, Rückert B, Franklin FCH, Bagdasarian MM, Frey J, Timmis KN (1981) Specific purpose plasmid cloning vectors. II. Broad host range, high copy number, RSF1010derived vectors, and a host-vector system for gene cloning in Pseudomonas. Gene 16:237–247
-
(1981)
Gene
, vol.16
, pp. 237-247
-
-
Bagdasarian, M.1
Lurz, R.2
Rückert, B.3
Franklin, F.C.H.4
Bagdasarian, M.M.5
Frey, J.6
Timmis, K.N.7
-
2
-
-
84964771581
-
The revisited genome of Pseudomonas putida KT2440 enlightens its value as a robust metabolic chassis
-
Belda E, van Heck RGA, López-Sánchez MJ, Cruveiller S, Barbe V, Fraser C, Klenk HP, Petersen J, Morgat A, Nikel PI, Vallenet D, Rouy Z, Sekowska A, Martins dos Santos VAP, de Lorenzo V, Danchin A, Médigue C (2016) The revisited genome of Pseudomonas putida KT2440 enlightens its value as a robust metabolic chassis. Environ Microbiol 18:3403–3424
-
(2016)
Environ Microbiol
, vol.18
, pp. 3403-3424
-
-
Belda, E.1
van Heck, R.G.A.2
López-Sánchez, M.J.3
Cruveiller, S.4
Barbe, V.5
Fraser, C.6
Klenk, H.P.7
Petersen, J.8
Morgat, A.9
Nikel, P.I.10
Vallenet, D.11
Rouy, Z.12
Sekowska, A.13
Martins Dos Santos, V.A.P.14
de Lorenzo, V.15
Danchin, A.16
Médigue, C.17
-
3
-
-
0034152767
-
Oxidative stress in bacteria and protein damage by reactive oxygen species
-
Cabiscol E, Tamarit J, Ros J (2000) Oxidative stress in bacteria and protein damage by reactive oxygen species. Int Microbiol 3:3–8
-
(2000)
Int Microbiol
, vol.3
, pp. 3-8
-
-
Cabiscol, E.1
Tamarit, J.2
Ros, J.3
-
4
-
-
85194384049
-
-
Chavarría M, Kleijn RJ, Sauer U, Pflüger-Grau K, de Lorenzo V (2012) Regulatory tasks of the phosphoenolpyruvate-phosphotransferase system of Pseudomonas putida in central carbon metabolism. mBio 3:e00012–e00028
-
(2012)
Regulatory Tasks of the Phosphoenolpyruvate-Phosphotransferase System of Pseudomonas Putida in Central Carbon Metabolism. Mbio
, vol.3
, pp. e00012-e00028
-
-
Chavarría, M.1
Kleijn, R.J.2
Sauer, U.3
Pflüger-Grau, K.4
de Lorenzo, V.5
-
5
-
-
84878639396
-
The Entner-Doudoroff pathway empowers Pseudomonas putida KT2440 with a high tolerance to oxidative stress
-
Chavarría M, Nikel PI, Pérez-Pantoja D, de Lorenzo V (2013) The Entner-Doudoroff pathway empowers Pseudomonas putida KT2440 with a high tolerance to oxidative stress. Environ Microbiol 15:1772–1785
-
(2013)
Environ Microbiol
, vol.15
, pp. 1772-1785
-
-
Chavarría, M.1
Nikel, P.I.2
Pérez-Pantoja, D.3
de Lorenzo, V.4
-
6
-
-
33749531431
-
Mini-Tn7 insertion in bacteria with single attTn7 sites: Example Pseudomonas aeruginosa
-
Choi KH, Schweizer HP (2006) Mini-Tn7 insertion in bacteria with single attTn7 sites: example Pseudomonas aeruginosa. Nat Protoc 1:153–161
-
(2006)
Nat Protoc
, vol.1
, pp. 153-161
-
-
Choi, K.H.1
Schweizer, H.P.2
-
7
-
-
0019995020
-
The metabolic versatility of pseudomonads
-
Clarke PH (1982) The metabolic versatility of pseudomonads. Antonie van Leeuwenhoek 48:105–130
-
(1982)
Antonie Van Leeuwenhoek
, vol.48
, pp. 105-130
-
-
Clarke, P.H.1
-
8
-
-
0026913168
-
The Entner-Doudoroff pathway: History, physiology and molecular biology
-
Conway T (1992) The Entner-Doudoroff pathway: history, physiology and molecular biology. FEMS Microbiol Rev 103:1–27
-
(1992)
FEMS Microbiol Rev
, vol.103
, pp. 1-27
-
-
Conway, T.1
-
9
-
-
84863608607
-
Scaling up synthetic biology: Do not forget the chassis
-
Danchin A (2012) Scaling up synthetic biology: do not forget the chassis. FEBS Lett 586:2129–2137
-
(2012)
FEBS Lett
, vol.586
, pp. 2129-2137
-
-
Danchin, A.1
-
10
-
-
2942576144
-
The soil metagenome–a rich resource for the discovery of novel natural products
-
Daniel R (2004) The soil metagenome–a rich resource for the discovery of novel natural products. Curr Opin Biotechnol 15:199–204
-
(2004)
Curr Opin Biotechnol
, vol.15
, pp. 199-204
-
-
Daniel, R.1
-
11
-
-
77950660661
-
Global regulation of food supply by Pseudomonas putida DOT-T1E
-
Daniels C, Godoy P, Duque E, Molina-Henares MA, de la Torre J, del Arco JM, Herrera C, Segura A, Guazzaroni ME, Ferrer M, Ramos JL (2010) Global regulation of food supply by Pseudomonas putida DOT-T1E. J Bacteriol 192:2169–2181
-
(2010)
J Bacteriol
, vol.192
, pp. 2169-2181
-
-
Daniels, C.1
Godoy, P.2
Duque, E.3
Molina-Henares, M.A.4
de la Torre, J.5
Del Arco, J.M.6
Herrera, C.7
Segura, A.8
Guazzaroni, M.E.9
Ferrer, M.10
Ramos, J.L.11
-
12
-
-
57049091573
-
Systems biology approaches to bioremediation
-
de Lorenzo V (2008) Systems biology approaches to bioremediation. Curr Opin Biotechnol 19:579–589
-
(2008)
Curr Opin Biotechnol
, vol.19
, pp. 579-589
-
-
de Lorenzo, V.1
-
13
-
-
51049084395
-
Synthetic biology: Discovering new worlds and new words
-
de Lorenzo V, Danchin A (2008) Synthetic biology: discovering new worlds and new words. EMBO Rep 9:822–827
-
(2008)
EMBO Rep
, vol.9
, pp. 822-827
-
-
de Lorenzo, V.1
Danchin, A.2
-
14
-
-
0028358260
-
Analysis and construction of stable phenotypes in gram-negative bacteria with Tn5-and Tn10-derived minitransposons
-
de Lorenzo V, Timmis KN (1994) Analysis and construction of stable phenotypes in gram-negative bacteria with Tn5-and Tn10-derived minitransposons. Methods Enzymol 235:386–405
-
(1994)
Methods Enzymol
, vol.235
, pp. 386-405
-
-
de Lorenzo, V.1
Timmis, K.N.2
-
15
-
-
0025195680
-
Mini-Tn5 transposon derivatives for insertion mutagenesis, promoter probing, and chromosomal insertion of cloned DNA in Gramnegative eubacteria
-
de Lorenzo V, Herrero M, Jakubzik U, Timmis KN (1990) Mini-Tn5 transposon derivatives for insertion mutagenesis, promoter probing, and chromosomal insertion of cloned DNA in Gramnegative eubacteria. J Bacteriol 172:6568–6572
-
(1990)
J Bacteriol
, vol.172
, pp. 6568-6572
-
-
de Lorenzo, V.1
Herrero, M.2
Jakubzik, U.3
Timmis, K.N.4
-
16
-
-
0027390501
-
Analysis of Pseudomonas gene products using lacIq/Ptrp-lac plasmids and transposons that confer conditional phenotypes
-
de Lorenzo V, Eltis L, Kessler B, Timmis KN (1993a) Analysis of Pseudomonas gene products using lacIq/Ptrp-lac plasmids and transposons that confer conditional phenotypes. Gene 123:17–24
-
(1993)
Gene
, vol.123
, pp. 17-24
-
-
de Lorenzo, V.1
Eltis, L.2
Kessler, B.3
Timmis, K.N.4
-
17
-
-
0027171096
-
Engineering of alkyl-and haloaromatic-responsive gene expression with mini-transposons containing regulated promoters of biodegradative pathways of Pseudomonas
-
de Lorenzo V, Fernández S, Herrero M, Jakubzik U, Timmis KN (1993b) Engineering of alkyl-and haloaromatic-responsive gene expression with mini-transposons containing regulated promoters of biodegradative pathways of Pseudomonas. Gene 130:41–46
-
(1993)
Gene
, vol.130
, pp. 41-46
-
-
de Lorenzo, V.1
Fernández, S.2
Herrero, M.3
Jakubzik, U.4
Timmis, K.N.5
-
18
-
-
34447522100
-
Convergent peripheral pathways catalyze initial glucose catabolism in Pseudomonas putida: Genomic and flux analysis
-
del Castillo T, Ramos JL, Rodríguez-Herva JJ, Fuhrer T, Sauer U, Duque E (2007) Convergent peripheral pathways catalyze initial glucose catabolism in Pseudomonas putida: genomic and flux analysis. J Bacteriol 189:5142–5152
-
(2007)
J Bacteriol
, vol.189
, pp. 5142-5152
-
-
Del Castillo, T.1
Ramos, J.L.2
Rodríguez-Herva, J.J.3
Fuhrer, T.4
Sauer, U.5
Duque, E.6
-
19
-
-
0003571208
-
Bijdrage Tot de Kennis van het Mineralisatieproces
-
Rotterdam, The Netherlands
-
den Dooren de Jong LE (1926) Bijdrage Tot de Kennis van het Mineralisatieproces, Thesis, Rotterdam, The Netherlands
-
(1926)
Thesis
-
-
-
20
-
-
33744951971
-
Transcriptional tradeoff between metabolic and stress-response programs in Pseudomonas putida KT2440 cells exposed to toluene
-
Domínguez-Cuevas P, González-Pastor JE, Marqués S, Ramos JL, de Lorenzo V (2006) Transcriptional tradeoff between metabolic and stress-response programs in Pseudomonas putida KT2440 cells exposed to toluene. J Biol Chem 281:11981–11991
-
(2006)
J Biol Chem
, vol.281
, pp. 11981-11991
-
-
Domínguez-Cuevas, P.1
González-Pastor, J.E.2
Marqués, S.3
Ramos, J.L.4
de Lorenzo, V.5
-
22
-
-
80052787409
-
Response of Pseudomonas putida KT2440 to increased NADH and ATP demand
-
Ebert BE, Kurth F, Grund M, Blank LM, Schmid A (2011) Response of Pseudomonas putida KT2440 to increased NADH and ATP demand. Appl Environ Microbiol 77:6597–6605
-
(2011)
Appl Environ Microbiol
, vol.77
, pp. 6597-6605
-
-
Ebert, B.E.1
Kurth, F.2
Grund, M.3
Blank, L.M.4
Schmid, A.5
-
23
-
-
28544451327
-
Foundations for engineering biology
-
Endy D (2005) Foundations for engineering biology. Nature 438:449–453
-
(2005)
Nature
, vol.438
, pp. 449-453
-
-
Endy, D.1
-
24
-
-
84859432691
-
The polyhydroxyalkanoate metabolism controls carbon and energy spillage in Pseudomonas putida
-
Escapa IF, García JL, Bühler B, Blank LM, Prieto MA (2012) The polyhydroxyalkanoate metabolism controls carbon and energy spillage in Pseudomonas putida. Environ Microbiol 14:1049–1063
-
(2012)
Environ Microbiol
, vol.14
, pp. 1049-1063
-
-
Escapa, I.F.1
García, J.L.2
Bühler, B.3
Blank, L.M.4
Prieto, M.A.5
-
25
-
-
84875292233
-
New insights on the reorganization of gene transcription in Pseudomonas putida KT2440 at elevated pressure
-
Follonier S, Escapa IF, Fonseca PM, Henes B, Panke S, Zinn M, Prieto MA (2013) New insights on the reorganization of gene transcription in Pseudomonas putida KT2440 at elevated pressure. Microb Cell Fact 12:30
-
(2013)
Microb Cell Fact
, vol.12
-
-
Follonier, S.1
Escapa, I.F.2
Fonseca, P.M.3
Henes, B.4
Panke, S.5
Zinn, M.6
Prieto, M.A.7
-
26
-
-
79955945455
-
Growth of Pseudomonas putida at low temperature: Global transcriptomic and proteomic analyses
-
Fonseca P, Moreno R, Rojo F (2011) Growth of Pseudomonas putida at low temperature: global transcriptomic and proteomic analyses. Environ Microbiol Rep 3:329–339
-
(2011)
Environ Microbiol Rep
, vol.3
, pp. 329-339
-
-
Fonseca, P.1
Moreno, R.2
Rojo, F.3
-
27
-
-
79955017837
-
Pseudomonas putida KT2440 genome update by cDNA sequencing and microarray transcriptomics
-
Frank S, Klockgether J, Hagendorf P, Geffers R, Schöck U, Pohl T, Davenport CF, Tümmler B (2011) Pseudomonas putida KT2440 genome update by cDNA sequencing and microarray transcriptomics. Environ Microbiol 13:1309–1326
-
(2011)
Environ Microbiol
, vol.13
, pp. 1309-1326
-
-
Frank, S.1
Klockgether, J.2
Hagendorf, P.3
Geffers, R.4
Schöck, U.5
Pohl, T.6
Davenport, C.F.7
Tümmler, B.8
-
29
-
-
0346936145
-
Proteome reference map of Pseudomonas putida strain KT2440 for genome expression profiling: Distinct responses of KT2440 and Pseudomonas aeruginosa strain PAO1 to iron deprivation and a new form of superoxide dismutase
-
Heim S, Ferrer M, Heuer H, Regenhardt D, Nimtz M, Timmis KN (2003) Proteome reference map of Pseudomonas putida strain KT2440 for genome expression profiling: distinct responses of KT2440 and Pseudomonas aeruginosa strain PAO1 to iron deprivation and a new form of superoxide dismutase. Environ Microbiol 5:1257–1269
-
(2003)
Environ Microbiol
, vol.5
, pp. 1257-1269
-
-
Heim, S.1
Ferrer, M.2
Heuer, H.3
Regenhardt, D.4
Nimtz, M.5
Timmis, K.N.6
-
30
-
-
84941741529
-
Label-free quantification reveals major proteomic changes in Pseudomonas putida F1 during the exponential growth phase
-
Herbst FA, Danielsen HN, Wimmer R, Nielsen PH, Dueholm MS (2015) Label-free quantification reveals major proteomic changes in Pseudomonas putida F1 during the exponential growth phase. Proteomics 15:3244–3252
-
(2015)
Proteomics
, vol.15
, pp. 3244-3252
-
-
Herbst, F.A.1
Danielsen, H.N.2
Wimmer, R.3
Nielsen, P.H.4
Dueholm, M.S.5
-
31
-
-
37549056553
-
Transcriptome analysis of Pseudomonas putida in response to nitrogen availability
-
Hervás AB, Canosa I, Santero E (2008) Transcriptome analysis of Pseudomonas putida in response to nitrogen availability. J Bacteriol 190:416–420
-
(2008)
J Bacteriol
, vol.190
, pp. 416-420
-
-
Hervás, A.B.1
Canosa, I.2
Santero, E.3
-
32
-
-
65549156552
-
Polyhydroxyalkanoate granules are complex subcellular organelles (carbonosomes)
-
Jendrossek D (2009) Polyhydroxyalkanoate granules are complex subcellular organelles (carbonosomes). J Bacteriol 191:3195–3202
-
(2009)
J Bacteriol
, vol.191
, pp. 3195-3202
-
-
Jendrossek, D.1
-
33
-
-
84877258311
-
A survey of enabling technologies in synthetic biology
-
Kahl LJ, Endy D (2013) A survey of enabling technologies in synthetic biology. J Biol Eng 7:13
-
(2013)
J Biol Eng
, vol.7
, pp. 13
-
-
Kahl, L.J.1
Endy, D.2
-
34
-
-
84905965348
-
Oxidative stress response in Pseudomonas putida
-
Kim J, Park W (2014) Oxidative stress response in Pseudomonas putida. Appl Microbiol Biotechnol 98:6933–6946
-
(2014)
Appl Microbiol Biotechnol
, vol.98
, pp. 6933-6946
-
-
Kim, J.1
Park, W.2
-
35
-
-
84887648944
-
Transcriptomic fingerprinting of Pseudomonas putida under alternative physiological regimes
-
Kim J, Oliveros JC, Nikel PI, de Lorenzo V, Silva-Rocha R (2013) Transcriptomic fingerprinting of Pseudomonas putida under alternative physiological regimes. Environ Microbiol Rep 5:883–891
-
(2013)
Environ Microbiol Rep
, vol.5
, pp. 883-891
-
-
Kim, J.1
Oliveros, J.C.2
Nikel, P.I.3
de Lorenzo, V.4
Silva-Rocha, R.5
-
36
-
-
84991457495
-
High-resolution analysis of the m-xylene/toluene biodegradation subtranscriptome of Pseudomonas putida mt-2
-
Kim J, Pérez-Pantoja D, Silva-Rocha R, Oliveros JC, de Lorenzo V (2015) High-resolution analysis of the m-xylene/toluene biodegradation subtranscriptome of Pseudomonas putida mt-2. Environ Microbiol 18:3327–3341
-
(2015)
Environ Microbiol
, vol.18
, pp. 3327-3341
-
-
Kim, J.1
Pérez-Pantoja, D.2
Silva-Rocha, R.3
Oliveros, J.C.4
de Lorenzo, V.5
-
37
-
-
84940972994
-
The Crc/CrcZ-CrcY global regulatory system helps the integration of gluconeogenic and glycolytic metabolism in Pseudomonas putida
-
La Rosa R, Nogales J, Rojo F (2015) The Crc/CrcZ-CrcY global regulatory system helps the integration of gluconeogenic and glycolytic metabolism in Pseudomonas putida. Environ Microbiol 17:3362–3378
-
(2015)
Environ Microbiol
, vol.17
, pp. 3362-3378
-
-
la Rosa, R.1
Nogales, J.2
Rojo, F.3
-
39
-
-
47349109869
-
Physiological states and energetic adaptation during growth of Pseudomonas putida mt-2 on glucose
-
Latrach-Tlemçani L, Corroler D, Barillier D, Mosrati R (2008) Physiological states and energetic adaptation during growth of Pseudomonas putida mt-2 on glucose. Arch Microbiol 190:141–150
-
(2008)
Arch Microbiol
, vol.190
, pp. 141-150
-
-
Latrach-Tlemçani, L.1
Corroler, D.2
Barillier, D.3
Mosrati, R.4
-
40
-
-
0021195969
-
Enzyme recruitment in vitro: Use of cloned genes to extend the range of haloaromatics degraded by Pseudomonas sp. strain B13
-
Lehrbach PR, Zeyer J, Reineke W, Knackmuss HJ, Timmis KN (1984) Enzyme recruitment in vitro: use of cloned genes to extend the range of haloaromatics degraded by Pseudomonas sp. strain B13. J Bacteriol 158:1025–1032
-
(1984)
J Bacteriol
, vol.158
, pp. 1025-1032
-
-
Lehrbach, P.R.1
Zeyer, J.2
Reineke, W.3
Knackmuss, H.J.4
Timmis, K.N.5
-
41
-
-
0021119496
-
Alternative pathways of carbohydrate utilization in pseudomonads
-
Lessie TG, Phibbs PV (1984) Alternative pathways of carbohydrate utilization in pseudomonads. Annu Rev Microbiol 38:359–388
-
(1984)
Annu Rev Microbiol
, vol.38
, pp. 359-388
-
-
Lessie, T.G.1
Phibbs, P.V.2
-
42
-
-
84933532138
-
Quantitative analysis of cellular proteome alterations of Pseudomonas putida to naphthalene-induced stress
-
Li SS, Hu X, Zhao H, Li YX, Zhang L, Gong LJ, Guo J, Zhao HB (2015) Quantitative analysis of cellular proteome alterations of Pseudomonas putida to naphthalene-induced stress. Biotechnol Lett 37:1645–1654
-
(2015)
Biotechnol Lett
, vol.37
, pp. 1645-1654
-
-
Li, S.S.1
Hu, X.2
Zhao, H.3
Li, Y.X.4
Zhang, L.5
Gong, L.J.6
Guo, J.7
Zhao, H.B.8
-
43
-
-
84937630490
-
Pseudomonas putida–a versatile host for the production of natural products
-
Loeschcke A, Thies S (2015) Pseudomonas putida–a versatile host for the production of natural products. Appl Microbiol Biotechnol 99:6197–6214
-
(2015)
Appl Microbiol Biotechnol
, vol.99
, pp. 6197-6214
-
-
Loeschcke, A.1
Thies, S.2
-
45
-
-
84871430133
-
Microbial bioremediation of chemical pollutants: How bacteria cope with multi-stress environmental scenarios
-
Storz G, Hengge R, ASM Press, Washington, DC
-
Loza-Tavera H, de Lorenzo V (2011) Microbial bioremediation of chemical pollutants: how bacteria cope with multi-stress environmental scenarios. In: Storz G, Hengge R (eds) Bacterial stress responses. ASM Press, Washington, DC, pp 481–492
-
(2011)
Bacterial Stress Responses
, pp. 481-492
-
-
Loza-Tavera, H.1
de Lorenzo, V.2
-
46
-
-
84892366219
-
The thioredoxin antioxidant system
-
Lu J, Holmgren A (2014) The thioredoxin antioxidant system. Free Radic Biol Med 66:75–87
-
(2014)
Free Radic Biol Med
, vol.66
, pp. 75-87
-
-
Lu, J.1
Holmgren, A.2
-
47
-
-
84864592893
-
Pseudomonas putida response to cadmium: Changes in membrane and cytosolic proteomes
-
Manara A, DalCorso G, Baliardini C, Farinati S, Cecconi D, Furini A (2012) Pseudomonas putida response to cadmium: changes in membrane and cytosolic proteomes. J Proteome Res 11:4169–4179
-
(2012)
J Proteome Res
, vol.11
, pp. 4169-4179
-
-
Manara, A.1
Dalcorso, G.2
Baliardini, C.3
Farinati, S.4
Cecconi, D.5
Furini, A.6
-
48
-
-
82355181976
-
Transposon-based and plasmid-based genetic tools for editing genomes of gram-negative bacteria
-
Martínez-García E, de Lorenzo V (2012) Transposon-based and plasmid-based genetic tools for editing genomes of gram-negative bacteria. Methods Mol Biol 813:267–283
-
(2012)
Methods Mol Biol
, vol.813
, pp. 267-283
-
-
Martínez-García, E.1
de Lorenzo, V.2
-
50
-
-
84941112071
-
SEVA 2.0: An update of the Standard European Vector Architecture for de-/re-construction of bacterial functionalities
-
Martínez-García E, Aparicio T, Goñi-Moreno A, Fraile S, de Lorenzo V (2014a) SEVA 2.0: an update of the Standard European Vector Architecture for de-/re-construction of bacterial functionalities. Nucleic Acids Res 43:D1183–D1189
-
(2014)
Nucleic Acids Res
, vol.43
, pp. D1183-D1189
-
-
Martínez-García, E.1
Aparicio, T.2
Goñi-Moreno, A.3
Fraile, S.4
de Lorenzo, V.5
-
52
-
-
84949527665
-
Mining environmental plasmids for synthetic biology parts and devices
-
Martínez-García E, Benedetti I, Hueso A, de Lorenzo V (2015) Mining environmental plasmids for synthetic biology parts and devices. Microbiol Spectr 3, PLAS-0033-2014
-
(2015)
Microbiol Spectr
, vol.3
, pp. PLAS-0033
-
-
Martínez-García, E.1
Benedetti, I.2
Hueso, A.3
de Lorenzo, V.4
-
53
-
-
10044292705
-
Insights into the genomic basis of niche specificity of Pseudomonas putida KT2440
-
Martins dos Santos VAP, Heim S, Moore ER, Strätz M, Timmis KN (2004) Insights into the genomic basis of niche specificity of Pseudomonas putida KT2440. Environ Microbiol 6:1264–1286
-
(2004)
Environ Microbiol
, vol.6
, pp. 1264-1286
-
-
Martins Dos Santos, V.A.P.1
Heim, S.2
Moore, E.R.3
Strätz, M.4
Timmis, K.N.5
-
54
-
-
0035010147
-
A gene trap vector system for identifying transcriptionally responsive genes
-
Medico E, Gambarotta G, Gentile A, Comoglio PM, Soriano P (2001) A gene trap vector system for identifying transcriptionally responsive genes. Nat Biotechnol 19:579–582
-
(2001)
Nat Biotechnol
, vol.19
, pp. 579-582
-
-
Medico, E.1
Gambarotta, G.2
Gentile, A.3
Comoglio, P.M.4
Soriano, P.5
-
55
-
-
33644956913
-
Surveying biotransformations with à la carte genetic traps: Translating dehydrochlorination of lindane (γ-hexachlorocyclohexane) into lacZ-based phenotypes
-
Mohn WW, Garmendia J, Galvão TC, de Lorenzo V (2006) Surveying biotransformations with à la carte genetic traps: translating dehydrochlorination of lindane (γ-hexachlorocyclohexane) into lacZ-based phenotypes. Environ Microbiol 8:546–555
-
(2006)
Environ Microbiol
, vol.8
, pp. 546-555
-
-
Mohn, W.W.1
Garmendia, J.2
Galvão, T.C.3
de Lorenzo, V.4
-
56
-
-
84881138469
-
The contribution of proteomics to the unveiling of the survival strategies used by Pseudomonas putida in changing and hostile environments
-
Moreno R, Rojo F (2013) The contribution of proteomics to the unveiling of the survival strategies used by Pseudomonas putida in changing and hostile environments. Proteomics 13:2822–2830
-
(2013)
Proteomics
, vol.13
, pp. 2822-2830
-
-
Moreno, R.1
Rojo, F.2
-
58
-
-
0036933705
-
Complete genome sequence and comparative analysis of the metabolically versatile Pseudomonas putida KT2440
-
Nelson KE, Weinel C, Paulsen IT, Dodson RJ, Hilbert H, Martins dos Santos VAP, Fouts DE, Gill SR, Pop M, Holmes M, Brinkac L, Beanan M, DeBoy RT, Daugherty S, Kolonay J, Madupu R, Nelson W, White O, Peterson J, Khouri H, Hance I, Chris Lee P, Holtzapple E, Scanlan D, Tran K, Moazzez A, Utterback T, Rizzo M, Lee K, Kosack D, Moestl D, Wedler H, Lauber J, Stjepandic D, Hoheisel J, Straetz M, Heim S, Kiewitz C, Eisen JA, Timmis KN, Düsterhöft A, Tümmler B, Fraser CM (2002) Complete genome sequence and comparative analysis of the metabolically versatile Pseudomonas putida KT2440. Environ Microbiol 4:799–808
-
(2002)
Environ Microbiol
, vol.4
, pp. 799-808
-
-
Nelson, K.E.1
Weinel, C.2
Paulsen, I.T.3
Dodson, R.J.4
Hilbert, H.5
Martins Dos Santos, V.A.P.6
Fouts, D.E.7
Gill, S.R.8
Pop, M.9
Holmes, M.10
Brinkac, L.11
Beanan, M.12
Deboy, R.T.13
Daugherty, S.14
Kolonay, J.15
Madupu, R.16
Nelson, W.17
White, O.18
Peterson, J.19
Khouri, H.20
Hance, I.21
Chris Lee, P.22
Holtzapple, E.23
Scanlan, D.24
Tran, K.25
Moazzez, A.26
Utterback, T.27
Rizzo, M.28
Lee, K.29
Kosack, D.30
Moestl, D.31
Wedler, H.32
Lauber, J.33
Stjepandic, D.34
Hoheisel, J.35
Straetz, M.36
Heim, S.37
Kiewitz, C.38
Eisen, J.A.39
Timmis, K.N.40
Düsterhöft, A.41
Tümmler, B.42
Fraser, C.M.43
more..
-
59
-
-
84910046527
-
A brief guide to Pseudomonas putida as a microbial cell factory
-
Nikel PI (2012) A brief guide to Pseudomonas putida as a microbial cell factory. BioEssays Available on line at http://goo.gl/DXF1y
-
(2012)
Bioessays Available on Line At
-
-
Nikel, P.I.1
-
60
-
-
85019615262
-
Quantitative physiology approaches to understand and optimize reducing power availability in environmental bacteria
-
McGenity TJ, Timmis KN, Nogales Fernández B, Humana Press, Heidelberg
-
Nikel PI, Chavarría M (2015) Quantitative physiology approaches to understand and optimize reducing power availability in environmental bacteria. In: McGenity TJ, Timmis KN, Nogales Fernández B (eds) Hydrocarbon and lipid microbiology protocols. Humana Press, Heidelberg, pp 1–32
-
(2015)
Hydrocarbon and Lipid Microbiology Protocols
, pp. 1-32
-
-
Nikel, P.I.1
Chavarría, M.2
-
61
-
-
84872193848
-
Implantation of unmarked regulatory and metabolic modules in gram-negative bacteria with specialised mini-transposon delivery vectors
-
Nikel PI, de Lorenzo V (2013) Implantation of unmarked regulatory and metabolic modules in gram-negative bacteria with specialised mini-transposon delivery vectors. J Biotechnol 163:143–154
-
(2013)
J Biotechnol
, vol.163
, pp. 143-154
-
-
Nikel, P.I.1
de Lorenzo, V.2
-
62
-
-
84875059461
-
Why are chlorinated pollutants so difficult to degrade aerobically? Redox stress limits 1,3-dichloroprop-1-ene metabolism by Pseudomonas pavonaceae
-
Nikel PI, Pérez-Pantoja D, de Lorenzo V (2013) Why are chlorinated pollutants so difficult to degrade aerobically? Redox stress limits 1,3-dichloroprop-1-ene metabolism by Pseudomonas pavonaceae. Philos Trans R Soc Lond B Biol Sci 368:20120377
-
(2013)
Philos Trans R Soc Lond B Biol Sci
, vol.368
-
-
Nikel, P.I.1
Pérez-Pantoja, D.2
de Lorenzo, V.3
-
63
-
-
84898874640
-
Biotechnological domestication of pseudomonads using synthetic biology
-
Nikel PI, Martínez-García E, de Lorenzo V (2014a) Biotechnological domestication of pseudomonads using synthetic biology. Nat Rev Microbiol 12:368–379
-
(2014)
Nat Rev Microbiol
, vol.12
, pp. 368-379
-
-
Nikel, P.I.1
Martínez-García, E.2
de Lorenzo, V.3
-
64
-
-
84896710626
-
The private life of environmental bacteria: Pollutant biodegradation at the single cell level
-
Nikel PI, Silva-Rocha R, Benedetti I, de Lorenzo V (2014b) The private life of environmental bacteria: pollutant biodegradation at the single cell level. Environ Microbiol 16:628–642
-
(2014)
Environ Microbiol
, vol.16
, pp. 628-642
-
-
Nikel, P.I.1
Silva-Rocha, R.2
Benedetti, I.3
de Lorenzo, V.4
-
65
-
-
84944910018
-
Pseudomonas putida KT2440 strain metabolizes glucose through a cycle formed by enzymes of the Entner-Doudoroff, Embden-Meyerhof-Parnas, and pentose phosphate pathways
-
Nikel PI, Chavarría M, Fuhrer T, Sauer U, de Lorenzo V (2015) Pseudomonas putida KT2440 strain metabolizes glucose through a cycle formed by enzymes of the Entner-Doudoroff, Embden-Meyerhof-Parnas, and pentose phosphate pathways. J Biol Chem 290:25920–25932
-
(2015)
J Biol Chem
, vol.290
, pp. 25920-25932
-
-
Nikel, P.I.1
Chavarría, M.2
Fuhrer, T.3
Sauer, U.4
de Lorenzo, V.5
-
66
-
-
71049157543
-
Analysis of the Pseudomonas putida CA-3 proteome during growth on styrene under nitrogen-limiting and non-limiting conditions
-
Nikodinovic-Runic J, Flanagan M, Hume AR, Cagney G, O’Connor KE (2009) Analysis of the Pseudomonas putida CA-3 proteome during growth on styrene under nitrogen-limiting and non-limiting conditions. Microbiology 155:3348–3361
-
(2009)
Microbiology
, vol.155
, pp. 3348-3361
-
-
Nikodinovic-Runic, J.1
Flanagan, M.2
Hume, A.R.3
Cagney, G.4
O’Connor, K.E.5
-
67
-
-
54449092307
-
A genome-scale metabolic reconstruction of Pseudomonas putida KT2440: IJN746 as a cell factory
-
Nogales J, Palsson BØ, Thiele I (2008) A genome-scale metabolic reconstruction of Pseudomonas putida KT2440: iJN746 as a cell factory. BMC Syst Biol 2:79
-
(2008)
BMC Syst Biol
, vol.2
-
-
Nogales, J.1
Palsson, B.Ø.2
Thiele, I.3
-
69
-
-
84921819171
-
Nearzero growth kinetics of Pseudomonas putida deduced from proteomic analysis
-
Panikov NS, Mandalakis M, Dai S, Mulcahy LR, Fowle W, Garrett WS, Karger BL (2015) Nearzero growth kinetics of Pseudomonas putida deduced from proteomic analysis. Environ Microbiol 17:215–228
-
(2015)
Environ Microbiol
, vol.17
, pp. 215-228
-
-
Panikov, N.S.1
Mandalakis, M.2
Dai, S.3
Mulcahy, L.R.4
Fowle, W.5
Garrett, W.S.6
Karger, B.L.7
-
70
-
-
71549122280
-
PutidaNET: Interactome database service and network analysis of Pseudomonas putida KT2440
-
Park SJ, Choi JS, Kim BC, Jho SW, Ryu JW, Park D, Lee KA, Bhak J, Kim SI (2009) PutidaNET: interactome database service and network analysis of Pseudomonas putida KT2440. BMC Genomics 10:S18
-
(2009)
BMC Genomics
, vol.10
, pp. S18
-
-
Park, S.J.1
Choi, J.S.2
Kim, B.C.3
Jho, S.W.4
Ryu, J.W.5
Park, D.6
Lee, K.A.7
Bhak, J.8
Kim, S.I.9
-
72
-
-
84862292281
-
Industrial biotechnology of Pseudomonas putida and related species
-
Poblete-Castro I, Becker J, Dohnt K, Martins dos Santos VAP, Wittmann C (2012a) Industrial biotechnology of Pseudomonas putida and related species. Appl Microbiol Biotechnol 93:2279–2290
-
(2012)
Appl Microbiol Biotechnol
, vol.93
, pp. 2279-2290
-
-
Poblete-Castro, I.1
Becker, J.2
Dohnt, K.3
Martins Dos Santos, V.A.P.4
Wittmann, C.5
-
73
-
-
84858394287
-
The metabolic response of P. putida KT2442 producing high levels of polyhydroxyalkanoate under single-and multiple-nutrient-limited growth: Highlights from a multi-level omics approach
-
Poblete-Castro I, Escapa IF, Jäger C, Puchałka J, Lam CMC, Schomburg D, Prieto MA, Martins dos Santos VAP (2012b) The metabolic response of P. putida KT2442 producing high levels of polyhydroxyalkanoate under single-and multiple-nutrient-limited growth: highlights from a multi-level omics approach. Microb Cell Fact 11:34
-
(2012)
Microb Cell Fact
, vol.11
, pp. 34
-
-
Poblete-Castro, I.1
Escapa, I.F.2
Jäger, C.3
Puchałka, J.4
Lam, C.M.C.5
Schomburg, D.6
Prieto, M.A.7
Martins Dos Santos, V.A.P.8
-
74
-
-
84959267546
-
A holistic view of polyhydroxyalkanoate metabolism in Pseudomonas putida
-
Prieto MA, Escapa IF, Martínez V, Dinjaski N, Herencias C, de la Peña F, Tarazona N, Revelles O (2014) A holistic view of polyhydroxyalkanoate metabolism in Pseudomonas putida. Environ Microbiol 18:341–357
-
(2014)
Environ Microbiol
, vol.18
, pp. 341-357
-
-
Prieto, M.A.1
Escapa, I.F.2
Martínez, V.3
Dinjaski, N.4
Herencias, C.5
de la Peña, F.6
Tarazona, N.7
Revelles, O.8
-
75
-
-
55449096123
-
Genome-scale reconstruction and analysis of the Pseudomonas putida KT2440 metabolic network facilitates applications in biotechnology
-
Puchałka J, Oberhardt MA, Godinho M, Bielecka A, Regenhardt D, Timmis KN, Papin JA, Martins dos Santos VAP (2008) Genome-scale reconstruction and analysis of the Pseudomonas putida KT2440 metabolic network facilitates applications in biotechnology. PLoS Comput Biol 4:e1000210
-
(2008)
Plos Comput Biol
, vol.4
-
-
Puchałka, J.1
Oberhardt, M.A.2
Godinho, M.3
Bielecka, A.4
Regenhardt, D.5
Timmis, K.N.6
Papin, J.A.7
Martins Dos Santos, V.A.P.8
-
76
-
-
84942606326
-
Mechanisms of solvent resistance mediated by interplay of cellular factors in Pseudomonas putida
-
Ramos JL, Sol Cuenca M, Molina-Santiago C, Segura A, Duque E, Gómez-García MR, Udaondo Z, Roca A (2015) Mechanisms of solvent resistance mediated by interplay of cellular factors in Pseudomonas putida. FEMS Microbiol Rev 39:555–566
-
(2015)
FEMS Microbiol Rev
, vol.39
, pp. 555-566
-
-
Ramos, J.L.1
Sol Cuenca, M.2
Molina-Santiago, C.3
Segura, A.4
Duque, E.5
Gómez-García, M.R.6
Udaondo, Z.7
Roca, A.8
-
77
-
-
33744752451
-
Functional genomics of stress response in Pseudomonas putida KT2440
-
Reva ON, Weinel C, Weinel M, Böhm K, Stjepandic D, Hoheisel JD, Tümmler B (2006) Functional genomics of stress response in Pseudomonas putida KT2440. J Bacteriol 188:4079–4092
-
(2006)
J Bacteriol
, vol.188
, pp. 4079-4092
-
-
Reva, O.N.1
Weinel, C.2
Weinel, M.3
Böhm, K.4
Stjepandic, D.5
Hoheisel, J.D.6
Tümmler, B.7
-
78
-
-
0023644204
-
Assemblage of ortho cleavage route for simultaneous degradation of chloro-and methylaromatics
-
Rojo F, Pieper DH, Engesser KH, Knackmuss HJ, Timmis KN (1987) Assemblage of ortho cleavage route for simultaneous degradation of chloro-and methylaromatics. Science 238:1395–1398
-
(1987)
Science
, vol.238
, pp. 1395-1398
-
-
Rojo, F.1
Pieper, D.H.2
Engesser, K.H.3
Knackmuss, H.J.4
Timmis, K.N.5
-
79
-
-
84891628298
-
Escherichia coli redox mutants as microbial cell factories for the synthesis of reduced biochemicals
-
Ruiz JA, de Almeida A, Godoy MS, Mezzina MP, Bidart GN, Méndez BS, Pettinari MJ, Nikel PI (2012) Escherichia coli redox mutants as microbial cell factories for the synthesis of reduced biochemicals. Comput Struct Biotechnol J 3:e201210019
-
(2012)
Comput Struct Biotechnol J
, vol.3
-
-
Ruiz, J.A.1
de Almeida, A.2
Godoy, M.S.3
Mezzina, M.P.4
Bidart, G.N.5
Méndez, B.S.6
Pettinari, M.J.7
Nikel, P.I.8
-
80
-
-
13544261281
-
Molecular tools for genetic analysis of pseudomonads
-
Ramos JL, Kluwer Academic/Plenum, New York
-
Schweizer HP, de Lorenzo V (2004) Molecular tools for genetic analysis of pseudomonads. In: Ramos JL (ed) The pseudomonads: genomics, life style and molecular architecture. Kluwer Academic/Plenum, New York, pp 317–350
-
(2004)
The Pseudomonads: Genomics, Life Style and Molecular Architecture
, pp. 317-350
-
-
Schweizer, H.P.1
de Lorenzo, V.2
-
81
-
-
84876567509
-
The Standard European Vector Architecture (SEVA): A coherent platform for the analysis and deployment of complex prokaryotic phenotypes
-
Silva-Rocha R, Martínez-García E, Calles B, Chavarría M, Arce-Rodríguez A, de las Heras A, Páez-Espino AD, Durante-Rodríguez G, Kim J, Nikel PI, Platero R, de Lorenzo V (2013) The Standard European Vector Architecture (SEVA): a coherent platform for the analysis and deployment of complex prokaryotic phenotypes. Nucleic Acids Res 41:D666–D675
-
(2013)
Nucleic Acids Res
, vol.41
, pp. D666-D675
-
-
Silva-Rocha, R.1
Martínez-García, E.2
Calles, B.3
Chavarría, M.4
Arce-Rodríguez, A.5
de las Heras, A.6
Páez-Espino, A.D.7
Durante-Rodríguez, G.8
Kim, J.9
Nikel, P.I.10
Platero, R.11
de Lorenzo, V.12
-
82
-
-
77954714441
-
In silico genome-scale metabolic analysis of Pseudomonas putida KT2440 for polyhydroxyalkanoate synthesis, degradation of aromatics and anaerobic survival
-
Sohn SB, Kim TY, Park JM, Lee SY (2010) In silico genome-scale metabolic analysis of Pseudomonas putida KT2440 for polyhydroxyalkanoate synthesis, degradation of aromatics and anaerobic survival. Biotechnol J 5:739–750
-
(2010)
Biotechnol J
, vol.5
, pp. 739-750
-
-
Sohn, S.B.1
Kim, T.Y.2
Park, J.M.3
Lee, S.Y.4
-
83
-
-
84905913777
-
The functional structure of central carbon metabolism in Pseudomonas putida KT2440
-
Sudarsan S, Dethlefsen S, Blank LM, Siemann-Herzberg M, Schmid A (2014) The functional structure of central carbon metabolism in Pseudomonas putida KT2440. Appl Environ Microbiol 80:5292–5303
-
(2014)
Appl Environ Microbiol
, vol.80
, pp. 5292-5303
-
-
Sudarsan, S.1
Dethlefsen, S.2
Blank, L.M.3
Siemann-Herzberg, M.4
Schmid, A.5
-
84
-
-
0036937672
-
Pseudomonas putida: A cosmopolitan opportunist par excellence
-
Timmis KN (2002) Pseudomonas putida: a cosmopolitan opportunist par excellence. Environ Microbiol 4:779–781
-
(2002)
Environ Microbiol
, vol.4
, pp. 779-781
-
-
Timmis, K.N.1
-
85
-
-
84941703058
-
Analysis of the core genome and pangenome of Pseudomonas putida
-
Udaondo Z, Molina L, Segura A, Duque E, Ramos JL (2016) Analysis of the core genome and pangenome of Pseudomonas putida. Environ Microbiol 18:3268–3283
-
(2016)
Environ Microbiol
, vol.18
, pp. 3268-3283
-
-
Udaondo, Z.1
Molina, L.2
Segura, A.3
Duque, E.4
Ramos, J.L.5
-
86
-
-
84949625466
-
Applying systems biology tools to study n-butanol degradation in Pseudomonas putida KT2440
-
Vallon T, Simon O, Rendgen-Heugle B, Frana S, Mückschel B, Broicher A, Siemann-Herzberg M, Pfannenstiel J, Hauer B, Huber A, Breuer M, Takors R (2015) Applying systems biology tools to study n-butanol degradation in Pseudomonas putida KT2440. Eng Life Sci 15:760–771
-
(2015)
Eng Life Sci
, vol.15
, pp. 760-771
-
-
Vallon, T.1
Simon, O.2
Rendgen-Heugle, B.3
Frana, S.4
Mückschel, B.5
Broicher, A.6
Siemann-Herzberg, M.7
Pfannenstiel, J.8
Hauer, B.9
Huber, A.10
Breuer, M.11
Takors, R.12
-
87
-
-
41049087611
-
van der Werff-van der Vat BJ, Jellema RH, Coulier L, Hankemeier T
-
van der Werf MJ, Overkamp KM, Muilwijk B, Koek MM, van der Werff-van der Vat BJ, Jellema RH, Coulier L, Hankemeier T (2008) Comprehensive analysis of the metabolome of Pseudomonas putida S12 grown on different carbon sources. Mol Biosyst 4:315–327
-
(2008)
Comprehensive Analysis of the Metabolome of Pseudomonas Putida S12 Grown on Different Carbon Sources. Mol Biosyst
, vol.4
, pp. 315-327
-
-
van der Werf, M.J.1
Overkamp, K.M.2
Muilwijk, B.3
Koek, M.M.4
-
88
-
-
84886422324
-
Reconciling in vivo and in silico key biological parameters of Pseudomonas putida KT2440 during growth on glucose under carbon-limited condition
-
van Duuren JB, Puchałka J, Mars AE, Bücker R, Eggink G, Wittmann C, Martins dos Santos VAP (2013) Reconciling in vivo and in silico key biological parameters of Pseudomonas putida KT2440 during growth on glucose under carbon-limited condition. BMC Biotechnol 13:93
-
(2013)
BMC Biotechnol
, vol.13
-
-
van Duuren, J.B.1
Puchałka, J.2
Mars, A.E.3
Bücker, R.4
Eggink, G.5
Wittmann, C.6
Martins Dos Santos, V.A.P.7
-
89
-
-
79955433040
-
Probing the proteome response to toluene exposure in the solvent tolerant Pseudomonas putida S12
-
Wijte D, van Baar BL, Heck AJ, Altelaar AF (2011) Probing the proteome response to toluene exposure in the solvent tolerant Pseudomonas putida S12. J Proteome Res 10:394–403
-
(2011)
J Proteome Res
, vol.10
, pp. 394-403
-
-
Wijte, D.1
van Baar, B.L.2
Heck, A.J.3
Altelaar, A.F.4
-
90
-
-
0016197816
-
Metabolism of benzoate and the methylbenzoates by Pseudomonas putida (arvilla) mt-2: Evidence for the existence of a TOL plasmid
-
Williams PA, Murray K (1974) Metabolism of benzoate and the methylbenzoates by Pseudomonas putida (arvilla) mt-2: evidence for the existence of a TOL plasmid. J Bacteriol 120:416–423
-
(1974)
J Bacteriol
, vol.120
, pp. 416-423
-
-
Williams, P.A.1
Murray, K.2
-
91
-
-
76449115656
-
Integrating multiple ‘omics’ analysis for microbial biology: Application and methodologies
-
Zhang W, Li F, Nie L (2010) Integrating multiple ‘omics’ analysis for microbial biology: application and methodologies. Microbiology 156:287–301
-
(2010)
Microbiology
, vol.156
, pp. 287-301
-
-
Zhang, W.1
Li, F.2
Nie, L.3
-
92
-
-
84949828112
-
Tn7-Based device for calibrated heterologous gene expression in Pseudomonas putida
-
Zobel S, Benedetti I, Eisenbach L, de Lorenzo V, Wierckx N, Blank LM (2015) Tn7-Based device for calibrated heterologous gene expression in Pseudomonas putida. ACS Synth Biol 4:1341–1351
-
(2015)
ACS Synth Biol
, vol.4
, pp. 1341-1351
-
-
Zobel, S.1
Benedetti, I.2
Eisenbach, L.3
de Lorenzo, V.4
Wierckx, N.5
Blank, L.M.6
|