-
1
-
-
0034064689
-
A general definition of metabolic pathways useful for systematic organization and analysis of complex metabolic networks
-
Schuster S., Fell D.A., Dandekar T. A general definition of metabolic pathways useful for systematic organization and analysis of complex metabolic networks. Nat Biotechnol 2000, 18:326-332.
-
(2000)
Nat Biotechnol
, vol.18
, pp. 326-332
-
-
Schuster, S.1
Fell, D.A.2
Dandekar, T.3
-
2
-
-
84964690926
-
Accessing Nature's diversity through metabolic engineering and synthetic biology
-
King J.R., Edgar S., Qiao K., Stephanopoulos G. Accessing Nature's diversity through metabolic engineering and synthetic biology. F1000Res 2016, 5:397.
-
(2016)
F1000Res
, vol.5
, pp. 397
-
-
King, J.R.1
Edgar, S.2
Qiao, K.3
Stephanopoulos, G.4
-
3
-
-
84869420041
-
Synthetic biology and metabolic engineering
-
Stephanopoulos G. Synthetic biology and metabolic engineering. ACS Synth Biol 2012, 1:514-525.
-
(2012)
ACS Synth Biol
, vol.1
, pp. 514-525
-
-
Stephanopoulos, G.1
-
4
-
-
84863608607
-
Scaling up synthetic biology: do not forget the chassis
-
Danchin A. Scaling up synthetic biology: do not forget the chassis. FEBS Lett 2012, 586:2129-2137.
-
(2012)
FEBS Lett
, vol.586
, pp. 2129-2137
-
-
Danchin, A.1
-
5
-
-
84958247886
-
Synthetic biology to access and expand nature's chemical diversity
-
Smanski M.J., Zhou H., Claesen J., Shen B., Fischbach M.A., Voigt C.A. Synthetic biology to access and expand nature's chemical diversity. Nat Rev Microbiol 2016, 14:135-149.
-
(2016)
Nat Rev Microbiol
, vol.14
, pp. 135-149
-
-
Smanski, M.J.1
Zhou, H.2
Claesen, J.3
Shen, B.4
Fischbach, M.A.5
Voigt, C.A.6
-
6
-
-
84940111165
-
Impact of synthetic biology and metabolic engineering on industrial production of fine chemicals
-
Jullesson D., David F., Pfleger B., Nielsen J. Impact of synthetic biology and metabolic engineering on industrial production of fine chemicals. Biotechnol Adv 2015, 33:1395-1402.
-
(2015)
Biotechnol Adv
, vol.33
, pp. 1395-1402
-
-
Jullesson, D.1
David, F.2
Pfleger, B.3
Nielsen, J.4
-
7
-
-
84943604629
-
Systems strategies for developing industrial microbial strains
-
Lee S.Y., Kim H.U. Systems strategies for developing industrial microbial strains. Nat Biotechnol 2015, 33:1061-1072.
-
(2015)
Nat Biotechnol
, vol.33
, pp. 1061-1072
-
-
Lee, S.Y.1
Kim, H.U.2
-
8
-
-
85028550972
-
Synthetic and systems biology for microbial production of commodity chemicals
-
Chubukov V., Mukhopadhyay A., Petzold C.J., Keasling J.D., García-Martín H. Synthetic and systems biology for microbial production of commodity chemicals. Syst Biol Appl 2016, 2:16009.
-
(2016)
Syst Biol Appl
, vol.2
, pp. 16009
-
-
Chubukov, V.1
Mukhopadhyay, A.2
Petzold, C.J.3
Keasling, J.D.4
García-Martín, H.5
-
9
-
-
84957428248
-
Minimal genome: worthwhile or worthless efforts toward being smaller?
-
Choe D., Cho S., Kim S.C., Cho B.K. Minimal genome: worthwhile or worthless efforts toward being smaller?. Biotechnol J 2016, 11:199-211.
-
(2016)
Biotechnol J
, vol.11
, pp. 199-211
-
-
Choe, D.1
Cho, S.2
Kim, S.C.3
Cho, B.K.4
-
10
-
-
84962227074
-
Design and synthesis of a minimal bacterial genome
-
aad6253
-
Hutchison C.A., Chuang R.Y., Noskov V.N., Assad-Garcia N., Deerinck T.J., Ellisman M.H., Gill J., Kannan K., Karas B.J., Ma L., et al. Design and synthesis of a minimal bacterial genome. Science 2016, 351:aad6253.
-
(2016)
Science
, vol.351
-
-
Hutchison, C.A.1
Chuang, R.Y.2
Noskov, V.N.3
Assad-Garcia, N.4
Deerinck, T.J.5
Ellisman, M.H.6
Gill, J.7
Kannan, K.8
Karas, B.J.9
Ma, L.10
-
11
-
-
84947583295
-
Overflow metabolism in Escherichia coli results from efficient proteome allocation
-
Basan M., Hui S., Okano H., Zhang Z., Shen Y., Williamson J.R., Hwa T. Overflow metabolism in Escherichia coli results from efficient proteome allocation. Nature 2015, 528:99-104.
-
(2015)
Nature
, vol.528
, pp. 99-104
-
-
Basan, M.1
Hui, S.2
Okano, H.3
Zhang, Z.4
Shen, Y.5
Williamson, J.R.6
Hwa, T.7
-
12
-
-
0035282861
-
Bringing gene order into bacterial shape
-
Tamames J., González-Moreno M., Mingorance J., Valencia A., Vicente M. Bringing gene order into bacterial shape. Trends Genet 2001, 17:124-126.
-
(2001)
Trends Genet
, vol.17
, pp. 124-126
-
-
Tamames, J.1
González-Moreno, M.2
Mingorance, J.3
Valencia, A.4
Vicente, M.5
-
13
-
-
56949097722
-
Evolution of genome architecture
-
Koonin E.V. Evolution of genome architecture. Int J Biochem Cell Biol 2009, 41:298-306.
-
(2009)
Int J Biochem Cell Biol
, vol.41
, pp. 298-306
-
-
Koonin, E.V.1
-
14
-
-
84958780530
-
You are what you eat: metabolic control of bacterial division
-
Monahan L.G., Harry E.J. You are what you eat: metabolic control of bacterial division. Trends Microbiol 2016, 24:181-189.
-
(2016)
Trends Microbiol
, vol.24
, pp. 181-189
-
-
Monahan, L.G.1
Harry, E.J.2
-
15
-
-
84959335876
-
Bacterial chromatin: converging views at different scales
-
Dame R.T., Tark-Dame M. Bacterial chromatin: converging views at different scales. Curr Opin Cell Biol 2016, 40:60-65.
-
(2016)
Curr Opin Cell Biol
, vol.40
, pp. 60-65
-
-
Dame, R.T.1
Tark-Dame, M.2
-
17
-
-
84960485909
-
Transcription-coupled DNA supercoiling dictates the chromosomal arrangement of bacterial genes
-
Sobetzko P. Transcription-coupled DNA supercoiling dictates the chromosomal arrangement of bacterial genes. Nucleic Acids Res 2016, 44:1514-1524.
-
(2016)
Nucleic Acids Res
, vol.44
, pp. 1514-1524
-
-
Sobetzko, P.1
-
18
-
-
84930373312
-
Genomic location of the major ribosomal protein gene locus determines Vibrio cholerae global growth and infectivity
-
Soler-Bistué A., Mondotte J.A., Bland M.J., Val M.E., Saleh M.C., Mazel D. Genomic location of the major ribosomal protein gene locus determines Vibrio cholerae global growth and infectivity. PLoS Genet 2015, 11:e1005156.
-
(2015)
PLoS Genet
, vol.11
, pp. e1005156
-
-
Soler-Bistué, A.1
Mondotte, J.A.2
Bland, M.J.3
Val, M.E.4
Saleh, M.C.5
Mazel, D.6
-
19
-
-
84891631101
-
The metabolic cost of flagellar motion in Pseudomonas putida KT2440
-
Martínez-García E., Nikel P.I., Chavarría M., de Lorenzo V. The metabolic cost of flagellar motion in Pseudomonas putida KT2440. Environ Microbiol 2014, 16:291-303.
-
(2014)
Environ Microbiol
, vol.16
, pp. 291-303
-
-
Martínez-García, E.1
Nikel, P.I.2
Chavarría, M.3
de Lorenzo, V.4
-
20
-
-
84890178034
-
Advances in genetic circuit design: novel biochemistries, deep part mining, and precision gene expression
-
Nielsen A.A., Segall-Shapiro T.H., Voigt C.A. Advances in genetic circuit design: novel biochemistries, deep part mining, and precision gene expression. Curr Opin Chem Biol 2013, 17:878-892.
-
(2013)
Curr Opin Chem Biol
, vol.17
, pp. 878-892
-
-
Nielsen, A.A.1
Segall-Shapiro, T.H.2
Voigt, C.A.3
-
21
-
-
84867660750
-
Inhibitory cross-talk upon introduction of a new metabolic pathway into an existing metabolic network
-
Kim J., Copley S.D. Inhibitory cross-talk upon introduction of a new metabolic pathway into an existing metabolic network. Proc Natl Acad Sci U S A 2012, 109:E2856-E2864.
-
(2012)
Proc Natl Acad Sci U S A
, vol.109
, pp. E2856-E2864
-
-
Kim, J.1
Copley, S.D.2
-
22
-
-
79961006571
-
The ten grand challenges of synthetic life
-
Porcar M., Danchin A., de Lorenzo V., Martins dos Santos V.A.P., Krasnogor N., Rasmussen S., Moya A. The ten grand challenges of synthetic life. Syst Synth Biol 2011, 5:1-9.
-
(2011)
Syst Synth Biol
, vol.5
, pp. 1-9
-
-
Porcar, M.1
Danchin, A.2
de Lorenzo, V.3
Martins dos Santos, V.A.P.4
Krasnogor, N.5
Rasmussen, S.6
Moya, A.7
-
23
-
-
84863632639
-
Programmable bacterial catalysis - designing cells for biosynthesis of value-added compounds
-
Lam C.M., Suárez-Diez M., Godinho M., Martins dos Santos V.A.P. Programmable bacterial catalysis - designing cells for biosynthesis of value-added compounds. FEBS Lett 2012, 586:2184-2190.
-
(2012)
FEBS Lett
, vol.586
, pp. 2184-2190
-
-
Lam, C.M.1
Suárez-Diez, M.2
Godinho, M.3
Martins dos Santos, V.A.P.4
-
24
-
-
84884273482
-
Design and development of synthetic microbial platform cells for bioenergy
-
Lee S.J., Lee S.J., Lee D.W. Design and development of synthetic microbial platform cells for bioenergy. Front Microbiol 2013, 4:92.
-
(2013)
Front Microbiol
, vol.4
, pp. 92
-
-
Lee, S.J.1
Lee, S.J.2
Lee, D.W.3
-
25
-
-
84948129387
-
Rational design of efficient modular cells
-
Trinh C.T., Liu Y., Conner D.J. Rational design of efficient modular cells. Metab Eng 2015, 32:220-231.
-
(2015)
Metab Eng
, vol.32
, pp. 220-231
-
-
Trinh, C.T.1
Liu, Y.2
Conner, D.J.3
-
26
-
-
84946746207
-
Chassis optimization as a cornerstone for the application of synthetic biology based strategies in microbial secondary metabolism
-
Beites T., Mendes M.V. Chassis optimization as a cornerstone for the application of synthetic biology based strategies in microbial secondary metabolism. Front Microbiol 2015, 6:906.
-
(2015)
Front Microbiol
, vol.6
, pp. 906
-
-
Beites, T.1
Mendes, M.V.2
-
27
-
-
84891628298
-
Escherichia coli redox mutants as microbial cell factories for the synthesis of reduced biochemicals
-
Ruiz J.A., de Almeida A., Godoy M.S., Mezzina M.P., Bidart G.N., Méndez B.S., Pettinari M.J., Nikel P.I. Escherichia coli redox mutants as microbial cell factories for the synthesis of reduced biochemicals. Comput Struct Biotechnol J 2012, 3:e201210019.
-
(2012)
Comput Struct Biotechnol J
, vol.3
, pp. e201210019
-
-
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
-
28
-
-
84958779762
-
Cyanobacterial chassis engineering for enhancing production of biofuels and chemicals
-
Gao X., Sun T., Pei G., Chen L., Zhang W. Cyanobacterial chassis engineering for enhancing production of biofuels and chemicals. Appl Microbiol Biotechnol 2016, 100:3401-3413.
-
(2016)
Appl Microbiol Biotechnol
, vol.100
, pp. 3401-3413
-
-
Gao, X.1
Sun, T.2
Pei, G.3
Chen, L.4
Zhang, W.5
-
29
-
-
10044292705
-
Insights into the genomic basis of niche specificity of Pseudomonas putida KT2440
-
Martins dos Santos V.A.P., Heim S., Moore E.R., Strätz M., Timmis K.N. Insights into the genomic basis of niche specificity of Pseudomonas putida KT2440. Environ Microbiol 2004, 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
-
30
-
-
0036937473
-
Pedigree and taxonomic credentials of Pseudomonas putida strain KT2440
-
Regenhardt D., Heuer H., Heim S., Fernández D.U., Strömpl C., Moore E.R., Timmis K.N. Pedigree and taxonomic credentials of Pseudomonas putida strain KT2440. Environ Microbiol 2002, 4:912-915.
-
(2002)
Environ Microbiol
, vol.4
, pp. 912-915
-
-
Regenhardt, D.1
Heuer, H.2
Heim, S.3
Fernández, D.U.4
Strömpl, C.5
Moore, E.R.6
Timmis, K.N.7
-
31
-
-
0036933705
-
Complete genome sequence and comparative analysis of the metabolically versatile Pseudomonas putida KT2440
-
Nelson K.E., Weinel C., Paulsen I.T., Dodson R.J., Hilbert H., Martins dos Santos V.A.P., Fouts D.E., Gill S.R., Pop M., Holmes M., et al. Complete genome sequence and comparative analysis of the metabolically versatile Pseudomonas putida KT2440. Environ Microbiol 2002, 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
-
32
-
-
84964771581
-
The revisited genome of Pseudomonas putida KT2440 enlightens its value as a robust metabolic chassis
-
In press
-
Belda E., van Heck R.G.A., López-Sánchez M.J., Cruveiller S., Barbe V., Fraser C., Klenk H.P., Petersen J., Morgat A., Nikel P.I., et al. The revisited genome of Pseudomonas putida KT2440 enlightens its value as a robust metabolic chassis. Environ Microbiol 2016, In press. 10.1111/1462-2920.13230.
-
(2016)
Environ Microbiol
-
-
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
-
33
-
-
84942606326
-
Mechanisms of solvent resistance mediated by interplay of cellular factors in Pseudomonas putida
-
Ramos J.L., Sol Cuenca M., Molina-Santiago C., Segura A., Duque E., Gómez-García M.R., Udaondo Z., Roca A. Mechanisms of solvent resistance mediated by interplay of cellular factors in Pseudomonas putida. FEMS Microbiol Rev 2015, 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
-
34
-
-
0036933805
-
Genomic analysis of the aromatic catabolic pathways from Pseudomonas putida KT2440
-
Jiménez J.I., Miñambres B., García J.L., Díaz E. Genomic analysis of the aromatic catabolic pathways from Pseudomonas putida KT2440. Environ Microbiol 2002, 4:824-841.
-
(2002)
Environ Microbiol
, vol.4
, pp. 824-841
-
-
Jiménez, J.I.1
Miñambres, B.2
García, J.L.3
Díaz, E.4
-
35
-
-
84862292281
-
Industrial biotechnology of Pseudomonas putida and related species
-
Poblete-Castro I., Becker J., Dohnt K., Martins dos Santos V.A.P., Wittmann C. Industrial biotechnology of Pseudomonas putida and related species. Appl Microbiol Biotechnol 2012, 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
-
36
-
-
84937630490
-
Pseudomonas putida - a versatile host for the production of natural products
-
Loeschcke A., Thies S. Pseudomonas putida - a versatile host for the production of natural products. Appl Microbiol Biotechnol 2015, 99:6197-6214.
-
(2015)
Appl Microbiol Biotechnol
, vol.99
, pp. 6197-6214
-
-
Loeschcke, A.1
Thies, S.2
-
37
-
-
84905965348
-
Oxidative stress response in Pseudomonas putida
-
Kim J., Park W. Oxidative stress response in Pseudomonas putida. Appl Microbiol Biotechnol 2014, 98:6933-6946.
-
(2014)
Appl Microbiol Biotechnol
, vol.98
, pp. 6933-6946
-
-
Kim, J.1
Park, W.2
-
38
-
-
84961922827
-
Fuelling the future: microbial engineering for the production of sustainable biofuels
-
Liao J.C., Mi L., Pontrelli S., Luo S. Fuelling the future: microbial engineering for the production of sustainable biofuels. Nat Rev Microbiol 2016, 14:288-304.
-
(2016)
Nat Rev Microbiol
, vol.14
, pp. 288-304
-
-
Liao, J.C.1
Mi, L.2
Pontrelli, S.3
Luo, S.4
-
39
-
-
84928718106
-
Genome reduction boosts heterologous gene expression in Pseudomonas putida
-
Lieder S., Nikel P.I., de Lorenzo V., Takors R. Genome reduction boosts heterologous gene expression in Pseudomonas putida. Microb Cell Fact 2015, 14:23.
-
(2015)
Microb Cell Fact
, vol.14
, pp. 23
-
-
Lieder, S.1
Nikel, P.I.2
de Lorenzo, V.3
Takors, R.4
-
40
-
-
84946019816
-
New transposon tools tailored for metabolic engineering of Gram-negative microbial cell factories
-
Martínez-García E., Aparicio T., de Lorenzo V., Nikel P.I. New transposon tools tailored for metabolic engineering of Gram-negative microbial cell factories. Front Bioeng Biotechnol 2014, 2:46.
-
(2014)
Front Bioeng Biotechnol
, vol.2
, pp. 46
-
-
Martínez-García, E.1
Aparicio, T.2
de Lorenzo, V.3
Nikel, P.I.4
-
41
-
-
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. SEVA 2.0: an update of the Standard European Vector Architecture for de-/re-construction of bacterial functionalities. Nucleic Acids Res 2014, 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
-
42
-
-
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 A.D., Durante-Rodríguez G., Kim J., Nikel P.I., et al. The Standard European Vector Architecture (SEVA): a coherent platform for the analysis and deployment of complex prokaryotic phenotypes. Nucleic Acids Res 2013, 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
-
43
-
-
54449092307
-
A genome-scale metabolic reconstruction of Pseudomonas putida KT2440: iJN746 as a cell factory
-
Nogales J., Palsson BØ, Thiele I. A genome-scale metabolic reconstruction of Pseudomonas putida KT2440: iJN746 as a cell factory. BMC Syst Biol 2008, 2:79.
-
(2008)
BMC Syst Biol
, vol.2
, pp. 79
-
-
Nogales, J.1
Palsson, BØ2
Thiele, I.3
-
44
-
-
55449096123
-
Genome-scale reconstruction and analysis of the Pseudomonas putida KT2440 metabolic network facilitates applications in biotechnology
-
Puchałka J., Oberhardt M.A., Godinho M., Bielecka A., Regenhardt D., Timmis K.N., Papin J.A., Martins dos Santos V.A.P. Genome-scale reconstruction and analysis of the Pseudomonas putida KT2440 metabolic network facilitates applications in biotechnology. PLoS Comput Biol 2008, 4:e1000210.
-
(2008)
PLoS Comput Biol
, vol.4
, pp. e1000210
-
-
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
-
45
-
-
77954714441
-
In silico genome-scale metabolic analysis of Pseudomonas putida KT2440 for polyhydroxyalkanoate synthesis, degradation of aromatics and anaerobic survival
-
Sohn S.B., Kim T.Y., Park J.M., Lee S.Y. In silico genome-scale metabolic analysis of Pseudomonas putida KT2440 for polyhydroxyalkanoate synthesis, degradation of aromatics and anaerobic survival. Biotechnol J 2010, 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
-
46
-
-
84898874640
-
Biotechnological domestication of pseudomonads using synthetic biology
-
Nikel P.I., Martínez-García E., de Lorenzo V. Biotechnological domestication of pseudomonads using synthetic biology. Nat Rev Microbiol 2014, 12:368-379.
-
(2014)
Nat Rev Microbiol
, vol.12
, pp. 368-379
-
-
Nikel, P.I.1
Martínez-García, E.2
de Lorenzo, V.3
-
47
-
-
84960390972
-
Opportunities and challenges in biological lignin valorization
-
Beckham G.T., Johnson C.W., Karp E.M., Salvachúa D., Vardon D.R. Opportunities and challenges in biological lignin valorization. Curr Opin Biotechnol 2016, 42:40-53.
-
(2016)
Curr Opin Biotechnol
, vol.42
, pp. 40-53
-
-
Beckham, G.T.1
Johnson, C.W.2
Karp, E.M.3
Salvachúa, D.4
Vardon, D.R.5
-
48
-
-
84906309043
-
Lignin valorization through integrated biological funneling and chemical catalysis
-
Linger J.G., Vardon D.R., Guarnieri M.T., Karp E.M., Hunsinger G.B., Franden M.A., Johnson C.W., Chupka G., Strathmann T.J., Pienkos P.T., et al. Lignin valorization through integrated biological funneling and chemical catalysis. Proc Natl Acad Sci U S A 2014, 111:12013-12018.
-
(2014)
Proc Natl Acad Sci U S A
, vol.111
, pp. 12013-12018
-
-
Linger, J.G.1
Vardon, D.R.2
Guarnieri, M.T.3
Karp, E.M.4
Hunsinger, G.B.5
Franden, M.A.6
Johnson, C.W.7
Chupka, G.8
Strathmann, T.J.9
Pienkos, P.T.10
-
49
-
-
84929401437
-
Adipic acid production from lignin
-
Vardon D.R., Franden M.A., Johnson C.W., Karp E.M., Guarnieri M.T., Linger J.G., Salm M.J., Strathmann T.J., Beckham G.T. Adipic acid production from lignin. Energy Environ Sci 2015, 8:617-628.
-
(2015)
Energy Environ Sci
, vol.8
, pp. 617-628
-
-
Vardon, D.R.1
Franden, M.A.2
Johnson, C.W.3
Karp, E.M.4
Guarnieri, M.T.5
Linger, J.G.6
Salm, M.J.7
Strathmann, T.J.8
Beckham, G.T.9
-
50
-
-
84930198715
-
Aromatic catabolic pathway selection for optimal production of pyruvate and lactate from lignin
-
Johnson C.W., Beckham G.T. Aromatic catabolic pathway selection for optimal production of pyruvate and lactate from lignin. Metab Eng 2015, 28:240-247.
-
(2015)
Metab Eng
, vol.28
, pp. 240-247
-
-
Johnson, C.W.1
Beckham, G.T.2
-
51
-
-
84942520548
-
Directed evolution of artificial enzymes (XNAzymes) from diverse repertoires of synthetic genetic polymers
-
Taylor A.I., Holliger P. Directed evolution of artificial enzymes (XNAzymes) from diverse repertoires of synthetic genetic polymers. Nat Protoc 2015, 10:1625-1642.
-
(2015)
Nat Protoc
, vol.10
, pp. 1625-1642
-
-
Taylor, A.I.1
Holliger, P.2
-
52
-
-
84860013215
-
Synthetic genetic polymers capable of heredity and evolution
-
Pinheiro V.B., Taylor A.I., Cozens C., Abramov M., Renders M., Zhang S., Chaput J.C., Wengel J., Peak-Chew S.Y., McLaughlin S.H., et al. Synthetic genetic polymers capable of heredity and evolution. Science 2012, 336:341-344.
-
(2012)
Science
, vol.336
, pp. 341-344
-
-
Pinheiro, V.B.1
Taylor, A.I.2
Cozens, C.3
Abramov, M.4
Renders, M.5
Zhang, S.6
Chaput, J.C.7
Wengel, J.8
Peak-Chew, S.Y.9
McLaughlin, S.H.10
-
53
-
-
84961275869
-
Facile recoding of selenocysteine in Nature
-
Mukai T., Englert M., Tripp H.J., Miller C., Ivanova N.N., Rubin E.M., Kyrpides N.C., Söll D. Facile recoding of selenocysteine in Nature. Angew Chem Int Ed Engl 2016, 55:5337-5341.
-
(2016)
Angew Chem Int Ed Engl
, vol.55
, pp. 5337-5341
-
-
Mukai, T.1
Englert, M.2
Tripp, H.J.3
Miller, C.4
Ivanova, N.N.5
Rubin, E.M.6
Kyrpides, N.C.7
Söll, D.8
-
54
-
-
84874608123
-
A metabolic prototype for eliminating tryptophan from the genetic code
-
Pezo V., Louis D., Guérineau V., Le Caer J.P., Gaillon L., Mutzel R., Marlière P. A metabolic prototype for eliminating tryptophan from the genetic code. Sci Rep 2013, 3:1359.
-
(2013)
Sci Rep
, vol.3
, pp. 1359
-
-
Pezo, V.1
Louis, D.2
Guérineau, V.3
Le Caer, J.P.4
Gaillon, L.5
Mutzel, R.6
Marlière, P.7
-
55
-
-
57549101206
-
Bacteria as computers making computers
-
Danchin A. Bacteria as computers making computers. FEMS Microbiol Rev 2009, 33:3-26.
-
(2009)
FEMS Microbiol Rev
, vol.33
, pp. 3-26
-
-
Danchin, A.1
-
56
-
-
84891632259
-
The logic of metabolism and its fuzzy consequences
-
Danchin A., Sekowska A. The logic of metabolism and its fuzzy consequences. Environ Microbiol 2014, 16:19-28.
-
(2014)
Environ Microbiol
, vol.16
, pp. 19-28
-
-
Danchin, A.1
Sekowska, A.2
-
57
-
-
84893447906
-
From the selfish gene to selfish metabolism: revisiting the central dogma
-
de Lorenzo V. From the selfish gene to selfish metabolism: revisiting the central dogma. BioEssays 2014, 36:226-235.
-
(2014)
BioEssays
, vol.36
, pp. 226-235
-
-
de Lorenzo, V.1
-
58
-
-
84930642844
-
Posttranslational regulation of microbial metabolism
-
Kochanowski K., Sauer U., Noor E. Posttranslational regulation of microbial metabolism. Curr Opin Microbiol 2015, 27:10-17.
-
(2015)
Curr Opin Microbiol
, vol.27
, pp. 10-17
-
-
Kochanowski, K.1
Sauer, U.2
Noor, E.3
-
59
-
-
84896710626
-
The private life of environmental bacteria: pollutant biodegradation at the single cell level
-
Nikel P.I., Silva-Rocha R., Benedetti I., de Lorenzo V. The private life of environmental bacteria: pollutant biodegradation at the single cell level. Environ Microbiol 2014, 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
-
60
-
-
84899047521
-
Coordination of microbial metabolism
-
Chubukov V., Gerosa L., Kochanowski K., Sauer U. Coordination of microbial metabolism. Nat Rev Microbiol 2014, 12:327-340.
-
(2014)
Nat Rev Microbiol
, vol.12
, pp. 327-340
-
-
Chubukov, V.1
Gerosa, L.2
Kochanowski, K.3
Sauer, U.4
-
61
-
-
84905913777
-
The functional structure of central carbon metabolism in Pseudomonas putida KT2440
-
Sudarsan S., Dethlefsen S., Blank L.M., Siemann-Herzberg M., Schmid A. The functional structure of central carbon metabolism in Pseudomonas putida KT2440. Appl Environ Microbiol 2014, 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
-
62
-
-
84878639396
-
The Entner-Doudoroff pathway empowers Pseudomonas putida KT2440 with a high tolerance to oxidative stress
-
Chavarría M., Nikel P.I., Pérez-Pantoja D., de Lorenzo V. The Entner-Doudoroff pathway empowers Pseudomonas putida KT2440 with a high tolerance to oxidative stress. Environ Microbiol 2013, 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
-
63
-
-
70350158322
-
Invariability of central metabolic flux distribution in Shewanella oneidensis MR-1 under environmental or genetic perturbations
-
Tang Y.J., Martin H.G., Deutschbauer A., Feng X., Huang R., Llora X., Arkin A., Keasling J.D. Invariability of central metabolic flux distribution in Shewanella oneidensis MR-1 under environmental or genetic perturbations. Biotechnol Prog 2009, 25:1254-1259.
-
(2009)
Biotechnol Prog
, vol.25
, pp. 1254-1259
-
-
Tang, Y.J.1
Martin, H.G.2
Deutschbauer, A.3
Feng, X.4
Huang, R.5
Llora, X.6
Arkin, A.7
Keasling, J.D.8
-
64
-
-
34447522100
-
Convergent peripheral pathways catalyze initial glucose catabolism in Pseudomonas putida: genomic and flux analysis
-
del Castillo T., Ramos J.L., Rodríguez-Herva J.J., Fuhrer T., Sauer U., Duque E. Convergent peripheral pathways catalyze initial glucose catabolism in Pseudomonas putida: genomic and flux analysis. J Bacteriol 2007, 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
-
65
-
-
84861422324
-
Rethinking glycolysis: on the biochemical logic of metabolic pathways
-
Bar-Even A., Flamholz A., Noor E., Milo R. Rethinking glycolysis: on the biochemical logic of metabolic pathways. Nat Chem Biol 2012, 8:509-517.
-
(2012)
Nat Chem Biol
, vol.8
, pp. 509-517
-
-
Bar-Even, A.1
Flamholz, A.2
Noor, E.3
Milo, R.4
-
66
-
-
0032464663
-
What's for dinner?: Entner-Doudoroff metabolism in Escherichia coli
-
Peekhaus N., Conway T. What's for dinner?: Entner-Doudoroff metabolism in Escherichia coli. J Bacteriol 1998, 180:3495-3502.
-
(1998)
J Bacteriol
, vol.180
, pp. 3495-3502
-
-
Peekhaus, N.1
Conway, T.2
-
67
-
-
84938692364
-
Entner-Doudoroff pathway for sulfoquinovose degradation in Pseudomonas putida SQ1
-
Felux A.K., Spiteller D., Klebensberger J., Schleheck D. Entner-Doudoroff pathway for sulfoquinovose degradation in Pseudomonas putida SQ1. Proc Natl Acad Sci U S A 2015, 112:E4298-E4305.
-
(2015)
Proc Natl Acad Sci U S A
, vol.112
, pp. E4298-E4305
-
-
Felux, A.K.1
Spiteller, D.2
Klebensberger, J.3
Schleheck, D.4
-
68
-
-
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 P.I., Chavarría M., Fuhrer T., Sauer U., de Lorenzo V. 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 2015, 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
-
69
-
-
84891635026
-
Metabolic and regulatory rearrangements underlying glycerol metabolism in Pseudomonas putida KT2440
-
Nikel P.I., Kim J., de Lorenzo V. Metabolic and regulatory rearrangements underlying glycerol metabolism in Pseudomonas putida KT2440. Environ Microbiol 2014, 16:239-254.
-
(2014)
Environ Microbiol
, vol.16
, pp. 239-254
-
-
Nikel, P.I.1
Kim, J.2
de Lorenzo, V.3
-
70
-
-
84928793736
-
The glycerol-dependent metabolic persistence of Pseudomonas putida KT2440 reflects the regulatory logic of the GlpR repressor
-
e00340-00315
-
Nikel P.I., Romero-Campero F.J., Zeidman J.A., Goñi-Moreno A., de Lorenzo V. The glycerol-dependent metabolic persistence of Pseudomonas putida KT2440 reflects the regulatory logic of the GlpR repressor. mBio 2015, 6. e00340-00315.
-
(2015)
mBio
, vol.6
-
-
Nikel, P.I.1
Romero-Campero, F.J.2
Zeidman, J.A.3
Goñi-Moreno, A.4
de Lorenzo, V.5
-
72
-
-
80052787409
-
Response of Pseudomonas putida KT2440 to increased NADH and ATP demand
-
Ebert B.E., Kurth F., Grund M., Blank L.M., Schmid A. Response of Pseudomonas putida KT2440 to increased NADH and ATP demand. Appl Environ Microbiol 2011, 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
-
73
-
-
84959267546
-
A holistic view of polyhydroxyalkanoate metabolism in Pseudomonas putida
-
Prieto M.A., Escapa I.F., Martínez V., Dinjaski N., Herencias C., de la Peña F., Tarazona N., Revelles O. A holistic view of polyhydroxyalkanoate metabolism in Pseudomonas putida. Environ Microbiol 2016, 18:341-357.
-
(2016)
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
-
74
-
-
84930271019
-
Reducing systems protecting the bacterial cell envelope from oxidative damage
-
Arts I.S., Gennaris A., Collet J.F. Reducing systems protecting the bacterial cell envelope from oxidative damage. FEBS Lett 2015, 589:1559-1568.
-
(2015)
FEBS Lett
, vol.589
, pp. 1559-1568
-
-
Arts, I.S.1
Gennaris, A.2
Collet, J.F.3
-
75
-
-
85019615262
-
Quantitative physiology approaches to understand and optimize reducing power availability in environmental bacteria
-
Humana Press, T.J. McGenity, K.N. Timmis, B. Nogales-Fernández (Eds.)
-
Nikel P.I., Chavarría M. Quantitative physiology approaches to understand and optimize reducing power availability in environmental bacteria. Hydrocarbon and Lipid Microbiology Protocols 2015, 1-32. Humana Press. T.J. McGenity, K.N. Timmis, B. Nogales-Fernández (Eds.).
-
(2015)
Hydrocarbon and Lipid Microbiology Protocols
, pp. 1-32
-
-
Nikel, P.I.1
Chavarría, M.2
-
76
-
-
84958212306
-
Anoxic metabolism and biochemical production in Pseudomonas putida F1 driven by a bioelectrochemical system
-
Lai B., Yu S., Bernhardt P.V., Rabaey K., Virdis B., Krömer J.O. Anoxic metabolism and biochemical production in Pseudomonas putida F1 driven by a bioelectrochemical system. Biotechnol Biofuels 2016, 9:39.
-
(2016)
Biotechnol Biofuels
, vol.9
, pp. 39
-
-
Lai, B.1
Yu, S.2
Bernhardt, P.V.3
Rabaey, K.4
Virdis, B.5
Krömer, J.O.6
-
77
-
-
84871436225
-
Engineering an anaerobic metabolic regime in Pseudomonas putida KT2440 for the anoxic biodegradation of 1,3-dichloroprop-1-ene
-
Nikel P.I., de Lorenzo V. Engineering an anaerobic metabolic regime in Pseudomonas putida KT2440 for the anoxic biodegradation of 1,3-dichloroprop-1-ene. Metab Eng 2013, 15:98-112.
-
(2013)
Metab Eng
, vol.15
, pp. 98-112
-
-
Nikel, P.I.1
de Lorenzo, V.2
-
78
-
-
84930934882
-
Engineering mediator-based electroactivity in the obligate aerobic bacterium Pseudomonas putida KT2440
-
Schmitz S., Nies S., Wierckx N., Blank L.M., Rosenbaum M.A. Engineering mediator-based electroactivity in the obligate aerobic bacterium Pseudomonas putida KT2440. Front Microbiol 2015, 6:284.
-
(2015)
Front Microbiol
, vol.6
, pp. 284
-
-
Schmitz, S.1
Nies, S.2
Wierckx, N.3
Blank, L.M.4
Rosenbaum, M.A.5
-
79
-
-
17844403545
-
Role of oxidative carbonylation in protein quality control and senescence
-
Nyström T. Role of oxidative carbonylation in protein quality control and senescence. EMBO J 2005, 24:1311-1317.
-
(2005)
EMBO J
, vol.24
, pp. 1311-1317
-
-
Nyström, T.1
-
80
-
-
84878821637
-
Assessing chronological aging in bacteria
-
Gonidakis S., Longo V.D. Assessing chronological aging in bacteria. Methods Mol Biol 2013, 965:421-437.
-
(2013)
Methods Mol Biol
, vol.965
, pp. 421-437
-
-
Gonidakis, S.1
Longo, V.D.2
-
81
-
-
84911461752
-
Proteome folding kinetics is limited by protein halflife
-
Zou T., Williams N., Ozkan S.B., Ghosh K. Proteome folding kinetics is limited by protein halflife. PLoS One 2014, 9:e112701.
-
(2014)
PLoS One
, vol.9
, pp. e112701
-
-
Zou, T.1
Williams, N.2
Ozkan, S.B.3
Ghosh, K.4
-
82
-
-
84928139480
-
The circadian oscillator in Synechococcus elongatus controls metabolite partitioning during diurnal growth
-
Diamond S., Jun D., Rubin B.E., Golden S.S. The circadian oscillator in Synechococcus elongatus controls metabolite partitioning during diurnal growth. Proc Natl Acad Sci U S A 2015, 112:E1916-E1925.
-
(2015)
Proc Natl Acad Sci U S A
, vol.112
, pp. E1916-E1925
-
-
Diamond, S.1
Jun, D.2
Rubin, B.E.3
Golden, S.S.4
-
83
-
-
51549087767
-
Protein aggregates: an aging factor involved in cell death
-
Maisonneuve E., Ezraty B., Dukan S. Protein aggregates: an aging factor involved in cell death. J Bacteriol 2008, 190:6070-6075.
-
(2008)
J Bacteriol
, vol.190
, pp. 6070-6075
-
-
Maisonneuve, E.1
Ezraty, B.2
Dukan, S.3
-
84
-
-
84924089568
-
Protein quality control under oxidative stress conditions
-
Dahl J.U., Gray M.J., Jakob U. Protein quality control under oxidative stress conditions. J Mol Biol 2015, 427:1549-1563.
-
(2015)
J Mol Biol
, vol.427
, pp. 1549-1563
-
-
Dahl, J.U.1
Gray, M.J.2
Jakob, U.3
-
85
-
-
84905504031
-
Evolution of aging and death: what insights bacteria can provide
-
Baig U.I., Bhadbhade B.J., Watve M.G. Evolution of aging and death: what insights bacteria can provide. Q Rev Biol 2014, 89:209-223.
-
(2014)
Q Rev Biol
, vol.89
, pp. 209-223
-
-
Baig, U.I.1
Bhadbhade, B.J.2
Watve, M.G.3
-
86
-
-
84885223714
-
Fission yeast does not age under favorable conditions, but does so after stress
-
Coelho M., Dereli A., Haese A., Kühn S., Malinovska L., DeSantis M.E., Shorter J., Alberti S., Gross T., Tolić-Nørrelykke I.M. Fission yeast does not age under favorable conditions, but does so after stress. Curr Biol 2013, 23:1844-1852.
-
(2013)
Curr Biol
, vol.23
, pp. 1844-1852
-
-
Coelho, M.1
Dereli, A.2
Haese, A.3
Kühn, S.4
Malinovska, L.5
DeSantis, M.E.6
Shorter, J.7
Alberti, S.8
Gross, T.9
Tolić-Nørrelykke, I.M.10
-
87
-
-
84934300609
-
Chemical reactivity drives spatiotemporal organisation of bacterial metabolism
-
de Lorenzo V., Sekowska A., Danchin A. Chemical reactivity drives spatiotemporal organisation of bacterial metabolism. FEMS Microbiol Rev 2015, 39:96-119.
-
(2015)
FEMS Microbiol Rev
, vol.39
, pp. 96-119
-
-
de Lorenzo, V.1
Sekowska, A.2
Danchin, A.3
-
88
-
-
84880017088
-
Evidence that a metabolic microcompartment contains and recycles private cofactor pools
-
Huseby D.L., Roth J.R. Evidence that a metabolic microcompartment contains and recycles private cofactor pools. J Bacteriol 2013, 195:2864-2879.
-
(2013)
J Bacteriol
, vol.195
, pp. 2864-2879
-
-
Huseby, D.L.1
Roth, J.R.2
-
89
-
-
84969164978
-
Bacterial microcompartments: biomaterials for synthetic biology-based compartmentalization strategies
-
Chessher A., Breitling R., Takano E. Bacterial microcompartments: biomaterials for synthetic biology-based compartmentalization strategies. ACS Biomater Sci Eng 2015, 1:345-351.
-
(2015)
ACS Biomater Sci Eng
, vol.1
, pp. 345-351
-
-
Chessher, A.1
Breitling, R.2
Takano, E.3
-
90
-
-
53049107187
-
Engineering the spatial organization of metabolic enzymes: mimicking nature's synergy
-
Conrado R.J., Varner J.D., DeLisa M.P. Engineering the spatial organization of metabolic enzymes: mimicking nature's synergy. Curr Opin Biotechnol 2008, 19:492-499.
-
(2008)
Curr Opin Biotechnol
, vol.19
, pp. 492-499
-
-
Conrado, R.J.1
Varner, J.D.2
DeLisa, M.P.3
-
91
-
-
84892828598
-
The bacterial cytoplasm has glass-like properties and is fluidized by metabolic activity
-
Parry B.R., Surovtsev I.V., Cabeen M.T., O'Hern C.S., Dufresne E.R., Jacobs-Wagner C. The bacterial cytoplasm has glass-like properties and is fluidized by metabolic activity. Cell 2014, 156:183-194.
-
(2014)
Cell
, vol.156
, pp. 183-194
-
-
Parry, B.R.1
Surovtsev, I.V.2
Cabeen, M.T.3
O'Hern, C.S.4
Dufresne, E.R.5
Jacobs-Wagner, C.6
-
92
-
-
44649098831
-
Synthetic morphology: prospects for engineered, self-constructing anatomies
-
Davies J.A. Synthetic morphology: prospects for engineered, self-constructing anatomies. J Anat 2008, 212:707-719.
-
(2008)
J Anat
, vol.212
, pp. 707-719
-
-
Davies, J.A.1
-
93
-
-
70349177735
-
Synthetic morphology using alternative inputs
-
Tanaka H., Yi T.M. Synthetic morphology using alternative inputs. PLoS One 2009, 4:e6946.
-
(2009)
PLoS One
, vol.4
, pp. e6946
-
-
Tanaka, H.1
Yi, T.M.2
-
94
-
-
84949495478
-
Genetic programming of catalytic Pseudomonas putida biofilms for boosting biodegradation of haloalkanes
-
Benedetti I., de Lorenzo V., Nikel P.I. Genetic programming of catalytic Pseudomonas putida biofilms for boosting biodegradation of haloalkanes. Metab Eng 2016, 33:109-118.
-
(2016)
Metab Eng
, vol.33
, pp. 109-118
-
-
Benedetti, I.1
de Lorenzo, V.2
Nikel, P.I.3
-
95
-
-
84968755068
-
Morphology engineering of bacteria for bio-production
-
Jiang X.R., Chen G.Q. Morphology engineering of bacteria for bio-production. Biotechnol Adv 2016, 34:435-440.
-
(2016)
Biotechnol Adv
, vol.34
, pp. 435-440
-
-
Jiang, X.R.1
Chen, G.Q.2
-
96
-
-
77956501842
-
Central carbon metabolism as a minimal biochemical walk between precursors for biomass and energy
-
Noor E., Eden E., Milo R., Alon U. Central carbon metabolism as a minimal biochemical walk between precursors for biomass and energy. Cell 2010, 39:809-820.
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(2010)
Cell
, vol.39
, pp. 809-820
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Noor, E.1
Eden, E.2
Milo, R.3
Alon, U.4
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