-
1
-
-
84869420041
-
Synthetic biology and metabolic engineering
-
Stephanopoulos G (2012) Synthetic biology and metabolic engineering. ACS Synth Biol 1:514– 525. https://doi.org/10.1021/sb300094q
-
(2012)
ACS Synth Biol
, vol.1
-
-
Stephanopoulos, G.1
-
3
-
-
77956501842
-
Central carbon metabolism as a minimal biochemical walk between precursors for biomass and energy
-
Noor E, Eden E, Milo R, Alon U (2010) Central carbon metabolism as a minimal biochemical walk between precursors for biomass and energy. Cell 39:809–820. https://doi.org/10.1016/j.molcel.2010.08.031
-
(2010)
Cell
, vol.39
, pp. 809-820
-
-
Noor, E.1
Eden, E.2
Milo, R.3
Alon, U.4
-
4
-
-
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. https://doi.org/10.5936/csbj.201210019
-
(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
-
5
-
-
85047017974
-
Industrial biotechnology: Escherichia coli as a host
-
Theisen M, Liao JC (2017) Industrial biotechnology: Escherichia coli as a host. In: Wittmann C, Liao JC (eds) Industrial biotechnology: microorganisms. Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim, Germany, pp 149–181. https://doi.org/10.1002/9783527807796.ch5
-
(2017)
Industrial Biotechnology: Microorganisms
, pp. 149-181
-
-
Theisen, M.1
Liao, J.C.2
-
6
-
-
84976892364
-
Sugar synthesis from CO2 in Escherichia coli
-
2 in Escherichia coli. Cell 166:115–125. https://doi.org/10.1016/j.cell.2016.05.064
-
(2016)
Cell
, vol.166
, pp. 115-125
-
-
Antonovsky, N.1
Gleizer, S.2
Noor, E.3
Zohar, Y.4
Herz, E.5
Barenholz, U.6
Zelcbuch, L.7
Amram, S.8
Wides, A.9
Tepper, N.10
Davidi, D.11
Bar-On, Y.12
Bareia, T.13
Wernick, D.G.14
Shani, I.15
Malitsky, S.16
Jona, G.17
Bar-Even, A.18
Milo, R.19
-
7
-
-
84922433192
-
Engineering Escherichia coli for methanol conversion
-
Müller JEN, Meyer F, Litsanov B, Kiefer P, Potthoff E, Heux S, Quax WJ, Wendisch VF, Brautaset T, Portais JC, Vorholt JA (2015) Engineering Escherichia coli for methanol conversion. Metab Eng 28:190–201. https://doi.org/10.1016/j.ymben.2014.12.008
-
(2015)
Metab Eng
, vol.28
, pp. 190-201
-
-
Müller, J.1
Meyer, F.2
Litsanov, B.3
Kiefer, P.4
Potthoff, E.5
Heux, S.6
Quax, W.J.7
Wendisch, V.F.8
Brautaset, T.9
Portais, J.C.10
Vorholt, J.A.11
-
8
-
-
84937604736
-
A portable expression resource for engineering cross-species genetic circuits and pathways
-
Kushwaha M, Salis HM (2015) A portable expression resource for engineering cross-species genetic circuits and pathways. Nat Commun 6:7832. https://doi.org/10.1038/ncomms8832
-
(2015)
Nat Commun
, vol.6
, Issue.7832
-
-
Kushwaha, M.1
Salis, H.M.2
-
9
-
-
85019581632
-
Refactoring the Embden-Meyerhof-Parnas pathway as a whole of portable GlucoBricks for implantation of glycolytic modules in Gram-negative bacteria
-
Sánchez-Pascuala A, de Lorenzo V, Nikel PI (2017) Refactoring the Embden-Meyerhof-Parnas pathway as a whole of portable GlucoBricks for implantation of glycolytic modules in Gram-negative bacteria. ACS Synth Biol 6:793–805. https://doi.org/10.1021/acssynbio.6b00230
-
(2017)
ACS Synth Biol
, vol.6
, pp. 793-805
-
-
Sánchez-Pascuala, A.1
De Lorenzo, V.2
Nikel, P.I.3
-
10
-
-
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. https://doi.org/10.1093/nar/gks1119
-
(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
-
11
-
-
84946019816
-
New transposon tools tailored for metabolic engineering of Gram-negative microbial cell factories
-
Martínez-García E, Aparicio T, de Lorenzo V, Nikel PI (2014) New transposon tools tailored for metabolic engineering of Gram-negative microbial cell factories. Front Bioeng Biotechnol 2:46. https://doi.org/10.3389/fbioe.2014.00046
-
(2014)
Front Bioeng Biotechnol
, vol.2
, Issue.46
-
-
Martínez-García, E.1
Aparicio, T.2
De Lorenzo, V.3
Nikel, P.I.4
-
12
-
-
84990973247
-
Engineering Gram-negative microbial cell factories using transposon vectors
-
Martínez-García E, Aparicio T, de Lorenzo V, Ni
-
Martínez-García E, Aparicio T, de Lorenzo V, Nikel PI (2017) Engineering Gram-negative microbial cell factories using transposon vectors. Methods Mol Biol 1498:273–293. https://doi.org/10.1007/978-1-4939-6472-7_18
-
(2017)
Methods Mol Biol
, vol.1498
, pp. 273-293
-
-
El, P.I.1
-
13
-
-
84861422324
-
Rethinking glycolysis: On the biochemical logic of metabolic pathways
-
Bar-Even A, Flamholz A, Noor E, Milo R (2012) Rethinking glycolysis: on the biochemical logic of metabolic pathways. Nat Chem Biol 8:509–517. https://doi.org/10.1038/nchembio.971
-
(2012)
Nat Chem Biol
, vol.8
, pp. 509-517
-
-
Bar-Even, A.1
Flamholz, A.2
Noor, E.3
Milo, R.4
-
14
-
-
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. https://doi.org/10.1111/1462-2920.12069
-
(2013)
Environ Microbiol
, vol.15
, pp. 1772-1785
-
-
Chavarría, M.1
Nikel, P.I.2
Pérez-Pantoja, D.3
De Lorenzo, V.4
-
15
-
-
84925356213
-
Large-scale 13 C flux profiling reveals conservation of the Entner-Doudoroff pathway as a glycolytic strategy among marine bacteria that use glucose
-
3 C flux profiling reveals conservation of the Entner-Doudoroff pathway as a glycolytic strategy among marine bacteria that use glucose. Appl Environ Microbiol 81:2408–2422. https://doi.org/10.1128/AEM.03157-14
-
(2015)
Appl Environ Microbiol
, vol.81
, pp. 2408-2422
-
-
Klingner, A.1
Bartsch, A.2
Dogs, M.3
Wagner-Döbler, I.4
Jahn, D.5
Simon, M.6
Brinkhoff, T.7
Becker, J.8
Wittmann, C.9
-
16
-
-
85019615262
-
Quantitative physiology approaches to understand and optimize reducing power availability in environmental bacteria
-
Nikel PI, Chavarría M (2016) 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–synthetic and systems biology - tools. Humana Press, Heidelberg, Germany, pp 39–70. https://doi.org/10.1007/8623_2015_84
-
(2016)
Hydrocarbon and Lipid Microbiology protocols–synthetic and Systems Biology - Tools
, pp. 39-70
-
-
Nikel, P.I.1
Chavarría, M.2
-
17
-
-
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. https://doi.org/10.1074/jbc.M115.687749
-
(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
-
18
-
-
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. https://doi.org/10.1111/1462-2920.13230
-
(2016)
Environ Microbiol
, vol.18
, pp. 3403-3424
-
-
Belda, E.1
Van Heck, R.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.14
De Lorenzo, V.15
Danchin, A.16
Médigue, C.17
-
19
-
-
84949762642
-
ATP regulation in bioproduction
-
Hara KY, Kondo A (2015) ATP regulation in bioproduction. Microb Cell Factories 14:198. https://doi.org/10.1186/s12934-015-0390-6
-
(2015)
Microb Cell Factories
, vol.14
, pp. 198
-
-
Hara, K.Y.1
Kondo, A.2
-
20
-
-
84969963522
-
From dirt to industrial applications: Pseudomonas putida as a synthetic biology chassis for hosting harsh biochemical reactions
-
Nikel PI, Chavarría M, Danchin A, de Lorenzo V (2016) From dirt to industrial applications: Pseudomonas putida as a synthetic biology chassis for hosting harsh biochemical reactions. Curr Opin Chem Biol 34:20–29. https://doi.org/10.1016/j.cbpa.2016.05.011
-
(2016)
Curr Opin Chem Biol
, vol.34
, pp. 20-29
-
-
Nikel, P.I.1
Chavarría, M.2
Danchin, A.3
De Lorenzo, V.4
-
21
-
-
84928718106
-
Genome reduction boosts heterologous gene expression in Pseudomonas putida
-
Lieder S, Nikel PI, de Lorenzo V, Takors R (2015) Genome reduction boosts heterologous gene expression in Pseudomonas putida. Microb Cell Factories 14:23. https://doi.org/10.1186/s12934-015-0207-7
-
(2015)
Microb Cell Factories
, vol.14
, pp. 23
-
-
Lieder, S.1
Nikel, P.I.2
De Lorenzo, V.3
Takors, R.4
-
22
-
-
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. https://doi.org/10.1111/1758-2229.12090
-
(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
-
23
-
-
0000632797
-
TnphoA: A transposon probe for protein export signals
-
Manoil C, Beckwith J (1985) TnphoA: a transposon probe for protein export signals. Proc Natl Acad Sci U S A 82:8129–8133
-
(1985)
Proc Natl Acad Sci U S A
, vol.82
, pp. 8129-8133
-
-
Manoil, C.1
Beckwith, J.2
-
24
-
-
0019805971
-
Specific purpose plasmid cloning vectors. II. Broad host range, high copy number, RSF1010-derived 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, RSF1010-derived vectors, and a host-vector system for gene cloning in Pseudomonas. Gene 16:237–247. https://doi.org/10.1016/0378-1119(81)90080-9
-
(1981)
Gene
, vol.16
, pp. 237-247
-
-
Bagdasarian, M.1
Lurz, R.2
Rückert, B.3
Franklin, F.4
Bagdasarian, M.M.5
Frey, J.6
Timmis, K.N.7
-
25
-
-
0034739007
-
Complete genome sequence of Pseudomonas aeruginosa PAO1, an opportunistic pathogen
-
Stover CK, Pham XQ, Erwin AL, Mizoguchi SD, Warrener P, Hickey MJ, Brinkman FSL, Hufnagle WO, Kowalik DJ, Lagrou M, Garber RL, Goltry L, Tolentino E, Westbrock-Wadman S, Yuan Y, Brody LL, Coulter SN, Folger KR, Kas A, Larbig K, Lim R, Smith K, Spencer D, Wong GKS, Wu Z, Paulsen IT, Reizer J, Saier MH, Hancock REW, Lory S, Olson MV (2000) Complete genome sequence of Pseudomonas aeruginosa PAO1, an opportunistic pathogen. Nature 406:959– 964. https://doi.org/10.1038/35023079
-
(2000)
Nature
, vol.406
-
-
Stover, C.K.1
Pham, X.Q.2
Erwin, A.L.3
Mizoguchi, S.D.4
Warrener, P.5
Hickey, M.J.6
Brinkman, F.7
Hufnagle, W.O.8
Kowalik, D.J.9
Lagrou, M.10
Garber, R.L.11
Goltry, L.12
Tolentino, E.13
Westbrock-Wadman, S.14
Yuan, Y.15
Brody, L.L.16
Coulter, S.N.17
Folger, K.R.18
Kas, A.19
Larbig, K.20
Lim, R.21
Smith, K.22
Spencer, D.23
Wong, G.24
Wu, Z.25
Paulsen, I.T.26
Reizer, J.27
Saier, M.H.28
Hancock, R.29
Lory, S.30
Olson, M.V.31
more..
-
26
-
-
0017184389
-
A rapid and sensitive method for the quantitation of micro-gram quantities of protein utilizing the principle of protein-dye binding
-
Bradford MM (1976) A rapid and sensitive method for the quantitation of micro-gram quantities of protein utilizing the principle of protein-dye binding. Anal Biochem 72:248–254. https://doi.org/10.1016/0003-2697(76)90527-3
-
(1976)
Anal Biochem
, vol.72
, pp. 248-254
-
-
Bradford, M.M.1
-
27
-
-
84876234571
-
Small RNA-mediated activation of sugar phosphatase mRNA regulates glucose homeostasis
-
Papenfort K, Sun Y, Miyakoshi M, Vanderpool CK, Vogel J (2013) Small RNA-mediated activation of sugar phosphatase mRNA regulates glucose homeostasis. Cell 153:426–437. https://doi.org/10.1016/j.cell.2013.03.003
-
(2013)
Cell
, vol.153
, pp. 426-437
-
-
Papenfort, K.1
Sun, Y.2
Miyakoshi, M.3
Vanderpool, C.K.4
Vogel, J.5
-
28
-
-
35848947748
-
Why metabolic enzymes are essential or nonessential for growth of Escherichia coli K12 on glucose
-
Kim J, Copley SD (2007) Why metabolic enzymes are essential or nonessential for growth of Escherichia coli K12 on glucose. Biochemistry 46:12501–12511. https://doi.org/10.1021/bi7014629
-
(2007)
Biochemistry
, vol.46
, pp. 12501-12511
-
-
Kim, J.1
Copley, S.D.2
-
29
-
-
84978767428
-
Broad-host-range ProUSER vectors enable fast characterization of inducible promoters and optimization of p-coumaric acid production in Pseudomonas putida KT2440
-
Calero P, Jensen SI, Nielsen AT (2016) Broad-host-range ProUSER vectors enable fast characterization of inducible promoters and optimization of p-coumaric acid production in Pseudomonas putida KT2440. ACS Synth Biol 5:741–753. https://doi.org/10.1021/acssynbio.6b00081
-
(2016)
ACS Synth Biol
, vol.5
, pp. 741-753
-
-
Calero, P.1
Jensen, S.I.2
Nielsen, A.T.3
-
31
-
-
32244448730
-
A 10-min method for preparation of highly elec-trocompetent Pseudomonas aeruginosa cells: Application for DNA fragment transfer between chromosomes and plasmid transformation
-
Choi KH, Kumar A, Schweizer HP (2006) A 10-min method for preparation of highly elec-trocompetent Pseudomonas aeruginosa cells: application for DNA fragment transfer between chromosomes and plasmid transformation. J Microbiol Methods 64:391–397. https://doi.org/10.1016/j.mimet.2005.06.001
-
(2006)
J Microbiol Methods
, vol.64
, pp. 391-397
-
-
Choi, K.H.1
Kumar, A.2
Schweizer, H.P.3
|