-
1
-
-
0017272554
-
Enzyme recruitment in evolution of new function
-
Jensen RA (1976) Enzyme recruitment in evolution of new function. Annu Rev Microbiol 30:409-425
-
(1976)
Annu Rev Microbiol
, vol.30
, pp. 409-425
-
-
Jensen, R.A.1
-
2
-
-
0038434059
-
Metabolites: A helping hand for pathway evolution
-
Schmidt S, Sunyaev S, Bork P, Dandekar T (2003) Metabolites: A helping hand for pathway evolution? Trends Biochem Sci 28(6):336-341
-
(2003)
Trends Biochem Sci
, vol.28
, Issue.6
, pp. 336-341
-
-
Schmidt, S.1
Sunyaev, S.2
Bork, P.3
Dandekar, T.4
-
3
-
-
0036306663
-
Homology, pathway distance and chromosomal localization of the small molecule metabolism enzymes in Escherichia coli
-
Rison SC, Teichmann SA, Thornton JM (2002) Homology, pathway distance and chromosomal localization of the small molecule metabolism enzymes in Escherichia coli. J Mol Biol 318(3):911-932
-
(2002)
J Mol Biol
, vol.318
, Issue.3
, pp. 911-932
-
-
Rison, S.C.1
Teichmann, S.A.2
Thornton, J.M.3
-
4
-
-
77953623874
-
Enzyme promiscuity: A mechanistic and evolutionary perspective
-
Khersonsky O, Tawfik DS (2010) Enzyme promiscuity: A mechanistic and evolutionary perspective. Annu Rev Biochem 79:471-505
-
(2010)
Annu Rev Biochem
, vol.79
, pp. 471-505
-
-
Khersonsky, O.1
Tawfik, D.S.2
-
5
-
-
0032005335
-
Underground metabolism
-
D'Ari R, Casadesús J (1998) Underground metabolism. BioEssays 20(2):181-186
-
(1998)
Bio Essays
, vol.20
, Issue.2
, pp. 181-186
-
-
D'Ari, R.1
Casadesús, J.2
-
6
-
-
33846023053
-
Genome-wide analysis of substrate specificities of the Escherichia coli haloacid dehalogenase-like phosphatase family
-
Kuznetsova E, et al. (2006) Genome-wide analysis of substrate specificities of the Escherichia coli haloacid dehalogenase-like phosphatase family. J Biol Chem 281(47): 36149-36161
-
(2006)
J Biol Chem
, vol.281
, Issue.47
, pp. 36149-36161
-
-
Kuznetsova, E.1
-
7
-
-
84857374810
-
Enzyme functional evolution through improved catalysis of ancestrally nonpreferred substrates
-
Huang R, et al. (2012) Enzyme functional evolution through improved catalysis of ancestrally nonpreferred substrates. Proc Natl Acad Sci USA 109(8):2966-2971
-
(2012)
Proc Natl Acad Sci USA
, vol.109
, Issue.8
, pp. 2966-2971
-
-
Huang, R.1
-
8
-
-
3543002852
-
Ligand selectivity and competition between enzymes in silico
-
Macchiarulo A, Nobeli I, Thornton JM (2004) Ligand selectivity and competition between enzymes in silico. Nat Biotechnol 22(8):1039-1045
-
(2004)
Nat Biotechnol
, vol.22
, Issue.8
, pp. 1039-1045
-
-
Macchiarulo, A.1
Nobeli, I.2
Thornton, J.M.3
-
9
-
-
11244281311
-
The ?evolvability' of promiscuous protein functions
-
Aharoni A, et al. (2005) The ?evolvability' of promiscuous protein functions. Nat Genet 37(1):73-76
-
(2005)
Nat Genet
, vol.37
, Issue.1
, pp. 73-76
-
-
Aharoni, A.1
-
10
-
-
78651330012
-
BRENDA, the enzyme information system in 2011
-
Database issue
-
ScheerM, et al. (2011) BRENDA, the enzyme information system in 2011. Nucleic Acids Res 39(Database issue):D670-D676
-
(2011)
Nucleic Acids Res
, vol.39
-
-
Scheer, M.1
-
11
-
-
34347332311
-
A genome-scale metabolic reconstruction for Escherichia coli K-12 MG1655 that accounts for 1260 ORFs and thermodynamic information
-
Feist AM, et al. (2007) A genome-scale metabolic reconstruction for Escherichia coli K-12 MG1655 that accounts for 1260 ORFs and thermodynamic information. Mol Syst Biol 3:121
-
(2007)
Mol Syst Biol
, vol.3
, pp. 121
-
-
Feist, A.M.1
-
12
-
-
84865571240
-
Network context and selection in the evolution to enzyme specificity
-
Nam H, et al. (2012) Network context and selection in the evolution to enzyme specificity. Science 337(6098):1101-1104
-
(2012)
Science
, vol.337
, Issue.6098
, pp. 1101-1104
-
-
Nam, H.1
-
13
-
-
84876571447
-
ECMDB: The E. Coli metabolome database
-
Database issue
-
Guo AC, et al. (2013) ECMDB: The E. coli Metabolome Database. Nucleic Acids Res 41(Database issue):D625-D630
-
(2013)
Nucleic Acids Res
, vol.41
-
-
Guo, A.C.1
-
14
-
-
79953166401
-
Role of chemistry versus substrate binding in recruiting promiscuous enzyme functions
-
Khersonsky O, Malitsky S, Rogachev I, Tawfik DS (2011) Role of chemistry versus substrate binding in recruiting promiscuous enzyme functions. Biochemistry 50(13): 2683-2690
-
(2011)
Biochemistry
, vol.50
, Issue.13
, pp. 2683-2690
-
-
Khersonsky, O.1
Malitsky, S.2
Rogachev, I.3
Tawfik, D.S.4
-
15
-
-
0034064689
-
A general definition of metabolic pathways useful for systematic organization and analysis of complex metabolic networks
-
Schuster S, Fell DA, Dandekar T (2000) A general definition of metabolic pathways useful for systematic organization and analysis of complex metabolic networks. Nat Biotechnol 18(3):326-332
-
(2000)
Nat Biotechnol
, vol.18
, Issue.3
, pp. 326-332
-
-
Schuster, S.1
Fell, D.A.2
Dandekar, T.3
-
16
-
-
84867651617
-
Real-time evolution of new genes by innovation, amplification, and divergence
-
Näsvall J, Sun L, Roth JR, Andersson DI (2012) Real-time evolution of new genes by innovation, amplification, and divergence. Science 338(6105):384-387
-
(2012)
Science
, vol.338
, Issue.6105
, pp. 384-387
-
-
Näsvall, J.1
Sun, L.2
Roth, J.R.3
Andersson, D.I.4
-
17
-
-
84867660750
-
Inhibitory cross-talk upon introduction of a new metabolic pathway into an existing metabolic network
-
Kim J, Copley SD (2012) Inhibitory cross-talk upon introduction of a new metabolic pathway into an existing metabolic network. Proc Natl Acad Sci USA 109(42): E2856-E2864
-
(2012)
Proc Natl Acad Sci USA
, vol.109
, Issue.42
-
-
Kim, J.1
Copley, S.D.2
-
18
-
-
84855946759
-
Compound toxicity screening and structure-activity relationship modeling in Escherichia coli
-
Planson AG, Carbonell P, Paillard E, Pollet N, Faulon JL (2012) Compound toxicity screening and structure-activity relationship modeling in Escherichia coli. Biotechnol Bioeng 109(3):846-850
-
(2012)
Biotechnol Bioeng
, vol.109
, Issue.3
, pp. 846-850
-
-
Planson, A.G.1
Carbonell, P.2
Paillard, E.3
Pollet, N.4
Faulon, J.L.5
-
19
-
-
84888122057
-
Computational evaluation of cellular metabolic costs successfully predicts genes whose expression is deleterious
-
Wagner A, et al. (2013) Computational evaluation of cellular metabolic costs successfully predicts genes whose expression is deleterious. Proc Natl Acad Sci USA 110(47):19166-19171
-
(2013)
Proc Natl Acad Sci USA
, vol.110
, Issue.47
, pp. 19166-19171
-
-
Wagner, A.1
-
20
-
-
9544253891
-
Genome-scale models of microbial cells: Evaluating the consequences of constraints
-
Price ND, Reed JL, Palsson BO (2004) Genome-scale models of microbial cells: Evaluating the consequences of constraints. Nat Rev Microbiol 2(11):886-897
-
(2004)
Nat Rev Microbiol
, vol.2
, Issue.11
, pp. 886-897
-
-
Price, N.D.1
Reed, J.L.2
Palsson, B.O.3
-
22
-
-
37549000205
-
Multicopy suppression underpins metabolic evolvability
-
Patrick WM, Quandt EM, Swartzlander DB, Matsumura I (2007) Multicopy suppression underpins metabolic evolvability. Mol Biol Evol 24(12):2716-2722
-
(2007)
Mol Biol Evol
, vol.24
, Issue.12
, pp. 2716-2722
-
-
Patrick, W.M.1
Quandt, E.M.2
Swartzlander, D.B.3
Matsumura, I.4
-
23
-
-
78649857195
-
Three serendipitous pathways in E. Coli can bypass a block in pyridoxal-5'-phosphate synthesis
-
Kim J, Kershner JP, Novikov Y, Shoemaker RK, Copley SD (2010) Three serendipitous pathways in E. coli can bypass a block in pyridoxal-5'-phosphate synthesis. Mol Syst Biol 6:436
-
(2010)
Mol Syst Biol
, vol.6
, pp. 436
-
-
Kim, J.1
Kershner, J.P.2
Novikov, Y.3
Shoemaker, R.K.4
Copley, S.D.5
-
24
-
-
79952166228
-
Artificial gene amplification reveals an abundance of promiscuous resistance determinants in Escherichia coli
-
Soo VW, Hanson-Manful P, Patrick WM (2011) Artificial gene amplification reveals an abundance of promiscuous resistance determinants in Escherichia coli. Proc Natl Acad Sci USA 108(4):1484-1489
-
(2011)
Proc Natl Acad Sci USA
, vol.108
, Issue.4
, pp. 1484-1489
-
-
Soo, V.W.1
Hanson-Manful, P.2
Patrick, W.M.3
-
25
-
-
33646568438
-
Complete set of ORF clones of Escherichia coli ASKA library (a complete set of E. Coli K-12 ORF archive): Unique resources for biological research
-
Kitagawa M, et al. (2005) Complete set of ORF clones of Escherichia coli ASKA library (a complete set of E. coli K-12 ORF archive): Unique resources for biological research. DNA Res 12(5):291-299
-
(2005)
DNA Res
, vol.12
, Issue.5
, pp. 291-299
-
-
Kitagawa, M.1
-
26
-
-
4544321006
-
Production of natural and rare pentoses using microorganisms and their enzymes
-
Ahmed Z (2001) Production of natural and rare pentoses using microorganisms and their enzymes. Electron J Biotechnol 4(2):1-16
-
(2001)
Electron J Biotechnol
, vol.4
, Issue.2
, pp. 1-16
-
-
Ahmed, Z.1
-
27
-
-
80054069179
-
A comprehensive genome-scale reconstruction of Escherichia coli metabolism-2011
-
Orth JD, et al. (2011) A comprehensive genome-scale reconstruction of Escherichia coli metabolism-2011. Mol Syst Biol 7:535
-
(2011)
Mol Syst Biol
, vol.7
, pp. 535
-
-
Orth, J.D.1
-
28
-
-
28444475529
-
Adaptive evolution of bacterial metabolic networks by horizontal gene transfer
-
Pál C, Papp B, Lercher MJ (2005) Adaptive evolution of bacterial metabolic networks by horizontal gene transfer. Nat Genet 37(12):1372-1375
-
(2005)
Nat Genet
, vol.37
, Issue.12
, pp. 1372-1375
-
-
Pál, C.1
Papp, B.2
Lercher, M.J.3
-
29
-
-
0035823264
-
The small world inside large metabolic networks
-
Wagner A, Fell DA (2001) The small world inside large metabolic networks. Proc Biol Sci 268(1478):1803-1810
-
(2001)
Proc Biol Sci
, vol.268
, Issue.1478
, pp. 1803-1810
-
-
Wagner, A.1
Fell, D.A.2
-
30
-
-
84862996527
-
The rise of chemodiversity in plants
-
Weng JK, Philippe RN, Noel JP (2012) The rise of chemodiversity in plants. Science 336(6089):1667-1670
-
(2012)
Science
, vol.336
, Issue.6089
, pp. 1667-1670
-
-
Weng, J.K.1
Philippe, R.N.2
Noel, J.P.3
-
31
-
-
80052031934
-
Systems-biology approaches for predicting genomic evolution
-
Papp B, Notebaart RA, Pál C (2011) Systems-biology approaches for predicting genomic evolution. Nat Rev Genet 12(9):591-602
-
(2011)
Nat Rev Genet
, vol.12
, Issue.9
, pp. 591-602
-
-
Papp, B.1
Notebaart, R.A.2
Pál, C.3
-
32
-
-
84879377643
-
Predicting C4 photosynthesis evolution: Modular, individually adaptive steps on a Mount Fuji fitness landscape
-
Heckmann D, et al. (2013) Predicting C4 photosynthesis evolution: Modular, individually adaptive steps on a Mount Fuji fitness landscape. Cell 153(7):1579-1588
-
(2013)
Cell
, vol.153
, Issue.7
, pp. 1579-1588
-
-
Heckmann, D.1
-
33
-
-
72049125350
-
Cancer-associated IDH1 mutations produce 2-hydroxyglutarate
-
Dang L, et al. (2009) Cancer-associated IDH1 mutations produce 2-hydroxyglutarate. Nature 462(7274):739-744
-
(2009)
Nature
, vol.462
, Issue.7274
, pp. 739-744
-
-
Dang, L.1
-
34
-
-
84856560417
-
-
eds Gesellschaft für Informatik, Bonn
-
Kaleta C, de Figueiredo LF, Behre J, Schuster S, eds (2009) EFMEvolver: Computing Elementary Flux Modes in Genome-Scale Metabolic Networks (Gesellschaft für Informatik, Bonn), Vol 157, pp 179-189
-
(2009)
EFMEvolver: Computing Elementary Flux Modes in Genome-Scale Metabolic Networks
, vol.157
, pp. 179-189
-
-
Kaleta, C.1
De Figueiredo, L.F.2
Behre, J.3
Schuster, S.4
-
35
-
-
84859982600
-
Visualization and curveparameter estimation strategies for efficient exploration of phenotype microarray kinetics
-
Vaas LA, Sikorski J, Michael V, Göker M, Klenk HP (2012) Visualization and curveparameter estimation strategies for efficient exploration of phenotype microarray kinetics. PLoS ONE 7(4):e34846.
-
(2012)
PLoS ONE
, vol.7
, Issue.4
-
-
Vaas, L.A.1
Sikorski, J.2
Michael, V.3
Göker, M.4
Klenk, H.P.5
|