-
1
-
-
28544451327
-
Foundations for engineering biology
-
Endy D. Foundations for engineering biology. Nature 438 (2005) 449-453
-
(2005)
Nature
, vol.438
, pp. 449-453
-
-
Endy, D.1
-
2
-
-
33846002036
-
Transcriptional regulation by competing transcription factor modules
-
Hermsen R., Tans S., and ten Wolde P.R. Transcriptional regulation by competing transcription factor modules. PLoS Comput. Biol. 2 (2006) e164
-
(2006)
PLoS Comput. Biol.
, vol.2
-
-
Hermsen, R.1
Tans, S.2
ten Wolde, P.R.3
-
5
-
-
15744394192
-
Transcriptional regulation by the numbers: models
-
Bintu L., Buchler N.E., Garcia H.G., Gerland U., Hwa T., Kondev J., and Phillips R. Transcriptional regulation by the numbers: models. Curr. Opin. Genet. Dev. 15 (2005) 116-124
-
(2005)
Curr. Opin. Genet. Dev.
, vol.15
, pp. 116-124
-
-
Bintu, L.1
Buchler, N.E.2
Garcia, H.G.3
Gerland, U.4
Hwa, T.5
Kondev, J.6
Phillips, R.7
-
6
-
-
4544275675
-
Bacterial transcriptional regulators for degradation pathways of aromatic compounds
-
Tropel D., and Van Der Meer J.R. Bacterial transcriptional regulators for degradation pathways of aromatic compounds. Microbiol. Mol. Biol. Rev. 68 (2004) 474-500
-
(2004)
Microbiol. Mol. Biol. Rev.
, vol.68
, pp. 474-500
-
-
Tropel, D.1
Van Der Meer, J.R.2
-
7
-
-
33750459412
-
Global analysis of gene transcription regulation in prokaryotes
-
Zhou D., and Yang R. Global analysis of gene transcription regulation in prokaryotes. Cell Mol. Life Sci. 63 (2006) 2260-2290
-
(2006)
Cell Mol. Life Sci.
, vol.63
, pp. 2260-2290
-
-
Zhou, D.1
Yang, R.2
-
8
-
-
0034564982
-
Regulation of the l-arabinose operon of Escherichia coli
-
Schleif R. Regulation of the l-arabinose operon of Escherichia coli. Trends Genet. 16 (2000) 559-565
-
(2000)
Trends Genet.
, vol.16
, pp. 559-565
-
-
Schleif, R.1
-
9
-
-
34547863494
-
Probing key DNA contacts in AraR-mediated transcriptional repression of the Bacillus subtilis arabinose regulon
-
Franco I.S., Mota L.J., Soares C.M., and de Sa-Nogueira I. Probing key DNA contacts in AraR-mediated transcriptional repression of the Bacillus subtilis arabinose regulon. Nucleic Acids Res. 35 (2007) 4755-4766
-
(2007)
Nucleic Acids Res.
, vol.35
, pp. 4755-4766
-
-
Franco, I.S.1
Mota, L.J.2
Soares, C.M.3
de Sa-Nogueira, I.4
-
11
-
-
33644837639
-
The m-xylene biodegradation capacity of Pseudomonas putida mt-2 is submitted to adaptation to abiotic stresses: evidence from expression profiling of xyl genes
-
Velazquez F., de Lorenzo V., and Valls M. The m-xylene biodegradation capacity of Pseudomonas putida mt-2 is submitted to adaptation to abiotic stresses: evidence from expression profiling of xyl genes. Environ. Microbiol. 8 (2006) 591-602
-
(2006)
Environ. Microbiol.
, vol.8
, pp. 591-602
-
-
Velazquez, F.1
de Lorenzo, V.2
Valls, M.3
-
12
-
-
20444411150
-
The lac repressor
-
Lewis M. The lac repressor. CR Biol. 328 (2005) 521-548
-
(2005)
CR Biol.
, vol.328
, pp. 521-548
-
-
Lewis, M.1
-
13
-
-
33846516797
-
The lactose repressor system: paradigms for regulation, allosteric behavior and protein folding
-
Wilson C.J., Zhan H., Swint-Kruse L., and Matthews K.S. The lactose repressor system: paradigms for regulation, allosteric behavior and protein folding. Cell Mol. Life Sci. 64 (2007) 3-16
-
(2007)
Cell Mol. Life Sci.
, vol.64
, pp. 3-16
-
-
Wilson, C.J.1
Zhan, H.2
Swint-Kruse, L.3
Matthews, K.S.4
-
15
-
-
0028129315
-
Computational functions in biochemical reaction networks
-
Arkin A., and Ross J. Computational functions in biochemical reaction networks. Biophys. J. 67 (1994) 560-578
-
(1994)
Biophys. J.
, vol.67
, pp. 560-578
-
-
Arkin, A.1
Ross, J.2
-
17
-
-
33748953866
-
Genetic parts to program bacteria
-
Voigt C.A. Genetic parts to program bacteria. Curr. Opin. Biotechnol. 17 (2006) 548-557
-
(2006)
Curr. Opin. Biotechnol.
, vol.17
, pp. 548-557
-
-
Voigt, C.A.1
-
18
-
-
0034688173
-
A synthetic oscillatory network of transcriptional regulators
-
Elowitz M.B., and Leibler S. A synthetic oscillatory network of transcriptional regulators. Nature 403 (2000) 335-338
-
(2000)
Nature
, vol.403
, pp. 335-338
-
-
Elowitz, M.B.1
Leibler, S.2
-
19
-
-
33646167129
-
Plasticity of the cis-regulatory input function of a gene
-
Mayo A.E., Setty Y., Shavit S., Zaslaver A., and Alon U. Plasticity of the cis-regulatory input function of a gene. PLoS Biol. 4 (2006) e45
-
(2006)
PLoS Biol.
, vol.4
-
-
Mayo, A.E.1
Setty, Y.2
Shavit, S.3
Zaslaver, A.4
Alon, U.5
-
21
-
-
0028038233
-
Cross-regulation by XylR and DmpR activators of Pseudomonas putida suggests that transcriptional control of biodegradative operons evolves independently of catabolic genes
-
Fernandez S., Shingler V., and De Lorenzo V. Cross-regulation by XylR and DmpR activators of Pseudomonas putida suggests that transcriptional control of biodegradative operons evolves independently of catabolic genes. J. Bacteriol. 176 (1994) 5052-5058
-
(1994)
J. Bacteriol.
, vol.176
, pp. 5052-5058
-
-
Fernandez, S.1
Shingler, V.2
De Lorenzo, V.3
-
23
-
-
33646565046
-
A tightly regulated inducible expression system utilizing the fim inversion recombination switch
-
Ham T.S., Lee S.K., Keasling J.D., and Arkin A.P. A tightly regulated inducible expression system utilizing the fim inversion recombination switch. Biotechnol. Bioeng. 94 (2006) 1-4
-
(2006)
Biotechnol. Bioeng.
, vol.94
, pp. 1-4
-
-
Ham, T.S.1
Lee, S.K.2
Keasling, J.D.3
Arkin, A.P.4
-
24
-
-
0344172832
-
Opening the iron box: transcriptional metalloregulation by the Fur protein
-
Escolar L., Perez-Martin J., and de Lorenzo V. Opening the iron box: transcriptional metalloregulation by the Fur protein. J. Bacteriol. 181 (1999) 6223-6229
-
(1999)
J. Bacteriol.
, vol.181
, pp. 6223-6229
-
-
Escolar, L.1
Perez-Martin, J.2
de Lorenzo, V.3
-
25
-
-
0031973699
-
Activation of the toluene-responsive regulator XylR causes a transcriptional switch between sigma-54 and sigma-70 promoters at the divergent Pr/Ps region of the TOL plasmid
-
Bertoni G., Marques S., and de Lorenzo V. Activation of the toluene-responsive regulator XylR causes a transcriptional switch between sigma-54 and sigma-70 promoters at the divergent Pr/Ps region of the TOL plasmid. Mol. Microbiol. 27 (1998) 651-659
-
(1998)
Mol. Microbiol.
, vol.27
, pp. 651-659
-
-
Bertoni, G.1
Marques, S.2
de Lorenzo, V.3
-
26
-
-
0030901173
-
Genetic evidence of separate repressor and activator activities of the XylR regulator of the TOL plasmid, pWW0, of Pseudomonas putida
-
Bertoni G., Perez-Martin J., and de Lorenzo V. Genetic evidence of separate repressor and activator activities of the XylR regulator of the TOL plasmid, pWW0, of Pseudomonas putida. Mol. Microbiol. 23 (1997) 1221-1227
-
(1997)
Mol. Microbiol.
, vol.23
, pp. 1221-1227
-
-
Bertoni, G.1
Perez-Martin, J.2
de Lorenzo, V.3
-
27
-
-
35449007348
-
Aeons of distress: an evolutionary perspective on the bacterial SOS response
-
Erill I., Campoy S., and Barbe J. Aeons of distress: an evolutionary perspective on the bacterial SOS response. FEMS Microbiol. Rev. 31 (2007) 637-656
-
(2007)
FEMS Microbiol. Rev.
, vol.31
, pp. 637-656
-
-
Erill, I.1
Campoy, S.2
Barbe, J.3
-
29
-
-
41149173898
-
-
Lercher, M.J. and Pal, C. (in press) Integration of horizontally transferred genes into regulatory interaction networks takes many million years. Mol. Biol. Evol.
-
Lercher, M.J. and Pal, C. (in press) Integration of horizontally transferred genes into regulatory interaction networks takes many million years. Mol. Biol. Evol.
-
-
-
-
30
-
-
24944583078
-
Genetically modified organisms for the environment: stories of success and failure and what we have learned from them
-
Cases I., and de Lorenzo V. Genetically modified organisms for the environment: stories of success and failure and what we have learned from them. Int. Microbiol. 8 (2005) 213-222
-
(2005)
Int. Microbiol.
, vol.8
, pp. 213-222
-
-
Cases, I.1
de Lorenzo, V.2
-
31
-
-
24944526639
-
Exploring the microbial biodegradation and biotransformation gene pool
-
Galvao T., Mohn W.W., and de Lorenzo V. Exploring the microbial biodegradation and biotransformation gene pool. Trends Biotech. 23 (2005) 497-506
-
(2005)
Trends Biotech.
, vol.23
, pp. 497-506
-
-
Galvao, T.1
Mohn, W.W.2
de Lorenzo, V.3
-
32
-
-
19144369096
-
Substrate-induced gene-expression screening of environmental metagenome libraries for isolation of catabolic genes
-
Uchiyama H., and Watanabe M. Substrate-induced gene-expression screening of environmental metagenome libraries for isolation of catabolic genes. Nat. Biotech. 23 (2005) 88-93
-
(2005)
Nat. Biotech.
, vol.23
, pp. 88-93
-
-
Uchiyama, H.1
Watanabe, M.2
-
33
-
-
33644956913
-
Surveying biotransformations with a la carte genetic traps: translating dehydrochlorination of lindane (gamma-hexachlorocyclohexane) into lacZ-based phenotypes
-
Mohn W.W., Garmendia J., Galvao T.C., and de Lorenzo V. Surveying biotransformations with a la carte genetic traps: translating dehydrochlorination of lindane (gamma-hexachlorocyclohexane) into lacZ-based phenotypes. Environ. Microbiol. 8 (2006) 546-555
-
(2006)
Environ. Microbiol.
, vol.8
, pp. 546-555
-
-
Mohn, W.W.1
Garmendia, J.2
Galvao, T.C.3
de Lorenzo, V.4
-
35
-
-
13444302680
-
Promoters in the environment: transcriptional regulation in its natural context
-
Cases I., and de Lorenzo V. Promoters in the environment: transcriptional regulation in its natural context. Nat. Rev. Microbiol. 3 (2005) 105-118
-
(2005)
Nat. Rev. Microbiol.
, vol.3
, pp. 105-118
-
-
Cases, I.1
de Lorenzo, V.2
-
36
-
-
0035542726
-
A la carte transcriptional regulators: unlocking responses of the prokaryotic enhancer-binding protein XylR to non-natural effectors
-
Garmendia J., Devos D., Valencia A., and de Lorenzo V. A la carte transcriptional regulators: unlocking responses of the prokaryotic enhancer-binding protein XylR to non-natural effectors. Mol. Microbiol. 42 (2001) 47-59
-
(2001)
Mol. Microbiol.
, vol.42
, pp. 47-59
-
-
Garmendia, J.1
Devos, D.2
Valencia, A.3
de Lorenzo, V.4
-
37
-
-
34547689731
-
Emergence of novel functions in transcriptional regulators by regression to stem protein types
-
Galvao T.C., Mencia M., and de Lorenzo V. Emergence of novel functions in transcriptional regulators by regression to stem protein types. Mol. Microbiol. 65 (2007) 907-919
-
(2007)
Mol. Microbiol.
, vol.65
, pp. 907-919
-
-
Galvao, T.C.1
Mencia, M.2
de Lorenzo, V.3
-
39
-
-
11144350545
-
m-xylene responsive Pu/PnifH hybrid sigma-54 promoters that overcome physiological control in Pseudomonas putida KT2442
-
Carmona M., Fernandez S., Rodriguez M.J., and de Lorenzo V. m-xylene responsive Pu/PnifH hybrid sigma-54 promoters that overcome physiological control in Pseudomonas putida KT2442. J. Bacteriol. 187 (2004) 125-134
-
(2004)
J. Bacteriol.
, vol.187
, pp. 125-134
-
-
Carmona, M.1
Fernandez, S.2
Rodriguez, M.J.3
de Lorenzo, V.4
-
40
-
-
33947414806
-
Functional taxonomy of bacterial hyperstructures
-
Norris V., et al. Functional taxonomy of bacterial hyperstructures. Microbiol. Mol. Biol. Rev. 71 (2007) 230-253
-
(2007)
Microbiol. Mol. Biol. Rev.
, vol.71
, pp. 230-253
-
-
Norris, V.1
-
41
-
-
38549151156
-
Bacteriome.org an integrated protein interaction database for E. coli
-
Su C., Peregrin-Alvarez J.M., Butland G., Phanse S., Fong V., Emili A., and Parkinson J. Bacteriome.org an integrated protein interaction database for E. coli. Nucleic Acids Res. 36 (2008) D632-D636
-
(2008)
Nucleic Acids Res.
, vol.36
-
-
Su, C.1
Peregrin-Alvarez, J.M.2
Butland, G.3
Phanse, S.4
Fong, V.5
Emili, A.6
Parkinson, J.7
-
42
-
-
33747505835
-
Persistent biases in the amino acid composition of prokaryotic proteins
-
Pascal G., Medigue C., and Danchin A. Persistent biases in the amino acid composition of prokaryotic proteins. Bioessays 28 (2006) 726-738
-
(2006)
Bioessays
, vol.28
, pp. 726-738
-
-
Pascal, G.1
Medigue, C.2
Danchin, A.3
-
43
-
-
0344668838
-
Gene essentiality determines chromosome organisation in bacteria
-
Rocha E.P., and Danchin A. Gene essentiality determines chromosome organisation in bacteria. Nucleic Acids Res. 31 (2003) 6570-6577
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 6570-6577
-
-
Rocha, E.P.1
Danchin, A.2
-
44
-
-
0034733815
-
Sulphur islands in the Escherichia coli genome: markers of the cell's architecture?
-
Rocha E.P., Sekowska A., and Danchin A. Sulphur islands in the Escherichia coli genome: markers of the cell's architecture?. FEBS Lett. 476 (2000) 8-11
-
(2000)
FEBS Lett.
, vol.476
, pp. 8-11
-
-
Rocha, E.P.1
Sekowska, A.2
Danchin, A.3
-
45
-
-
36249021315
-
Genome-wide experimental determination of barriers to horizontal gene transfer
-
Sorek R., Zhu Y., Creevey C.J., Francino M.P., Bork P., and Rubin E.M. Genome-wide experimental determination of barriers to horizontal gene transfer. Science 318 (2007) 1449-1452
-
(2007)
Science
, vol.318
, pp. 1449-1452
-
-
Sorek, R.1
Zhu, Y.2
Creevey, C.J.3
Francino, M.P.4
Bork, P.5
Rubin, E.M.6
-
46
-
-
33746603530
-
Programming and engineering biological networks
-
Chin J.W. Programming and engineering biological networks. Curr. Opin. Struct. Biol. 16 (2006) 551-556
-
(2006)
Curr. Opin. Struct. Biol.
, vol.16
, pp. 551-556
-
-
Chin, J.W.1
-
48
-
-
22544444628
-
A DNA polymerase V homologue encoded by TOL plasmid pWW0 confers evolutionary fitness on Pseudomonas putida under conditions of environmental stress
-
Tark M., Tover A., Tarassova K., Tegova R., Kivi G., Horak R., and Kivisaar M. A DNA polymerase V homologue encoded by TOL plasmid pWW0 confers evolutionary fitness on Pseudomonas putida under conditions of environmental stress. J. Bacteriol. 187 (2005) 5203-5213
-
(2005)
J. Bacteriol.
, vol.187
, pp. 5203-5213
-
-
Tark, M.1
Tover, A.2
Tarassova, K.3
Tegova, R.4
Kivi, G.5
Horak, R.6
Kivisaar, M.7
-
49
-
-
0043194096
-
Targeted gene evolution in Escherichia coli using a highly error-prone DNA polymerase I
-
Camps M., Naukkarinen J., Johnson B.P., and Loeb L.A. Targeted gene evolution in Escherichia coli using a highly error-prone DNA polymerase I. Proc. Natl. Acad. Sci. USA 100 (2003) 9727-9732
-
(2003)
Proc. Natl. Acad. Sci. USA
, vol.100
, pp. 9727-9732
-
-
Camps, M.1
Naukkarinen, J.2
Johnson, B.P.3
Loeb, L.A.4
-
50
-
-
33747183094
-
Integrons: agents of bacterial evolution
-
Mazel D. Integrons: agents of bacterial evolution. Nat. Rev. Microbiol. 4 (2006) 608-620
-
(2006)
Nat. Rev. Microbiol.
, vol.4
, pp. 608-620
-
-
Mazel, D.1
-
51
-
-
34447342528
-
Evolved orthogonal ribosomes enhance the efficiency of synthetic genetic code expansion
-
Wang K., Neumann H., Peak-Chew S.Y., and Chin J.W. Evolved orthogonal ribosomes enhance the efficiency of synthetic genetic code expansion. Nat. Biotechnol. 25 (2007) 770-777
-
(2007)
Nat. Biotechnol.
, vol.25
, pp. 770-777
-
-
Wang, K.1
Neumann, H.2
Peak-Chew, S.Y.3
Chin, J.W.4
-
52
-
-
0033772905
-
Bacterial promoters triggering biodegradation of aromatic pollutants
-
Diaz E., and Prieto M.A. Bacterial promoters triggering biodegradation of aromatic pollutants. Curr. Opin. Biotechnol. 11 (2000) 467-475
-
(2000)
Curr. Opin. Biotechnol.
, vol.11
, pp. 467-475
-
-
Diaz, E.1
Prieto, M.A.2
-
53
-
-
31944447797
-
Transcriptional regulators a la carte: engineering new effector specificities in bacterial regulatory proteins
-
Galvao T.C., and de Lorenzo V. Transcriptional regulators a la carte: engineering new effector specificities in bacterial regulatory proteins. Curr. Opin. Biotechnol. 17 (2006) 34-42
-
(2006)
Curr. Opin. Biotechnol.
, vol.17
, pp. 34-42
-
-
Galvao, T.C.1
de Lorenzo, V.2
-
54
-
-
33846393737
-
Unnatural base pair systems for DNA/RNA-based biotechnology
-
Hirao I. Unnatural base pair systems for DNA/RNA-based biotechnology. Curr. Opin. Chem. Biol. 10 (2006) 622-627
-
(2006)
Curr. Opin. Chem. Biol.
, vol.10
, pp. 622-627
-
-
Hirao, I.1
|