-
1
-
-
18744382506
-
ProtTest: Selection of best-fit models of protein evolution
-
DOI 10.1093/bioinformatics/bti263
-
Abascal F, Zardoya R, Posada D (2005) ProtTest: selection of best-fit models of protein evolution. Bioinformatics 21:2104-2105 (Pubitemid 40668057)
-
(2005)
Bioinformatics
, vol.21
, Issue.9
, pp. 2104-2105
-
-
Abascal, F.1
Zardoya, R.2
Posada, D.3
-
2
-
-
70350195337
-
Gene amplification and adaptive evolution in bacteria
-
Andersson DI, Hughes D (2009) Gene amplification and adaptive evolution in bacteria. Annu Rev Genet 43:167-195
-
(2009)
Annu Rev Genet
, vol.43
, pp. 167-195
-
-
Andersson, D.I.1
Hughes, D.2
-
3
-
-
72249087023
-
A faster fixedparameter approach to drawing binary tanglegrams
-
Böcker S, Hüffner F, Truss A, Wahlström M (2009) A faster fixedparameter approach to drawing binary tanglegrams. LNCS 5917:38-49
-
(2009)
LNCS
, vol.5917
, pp. 38-49
-
-
Böcker, S.1
Hüffner, F.2
Truss, A.3
Wahlström, M.4
-
4
-
-
39649125411
-
Two roads diverged: The structure of hydroxymandelate synthase from Amycolatopsis orientalis in complex with 4-hydroxymandelate
-
DOI 10.1021/bi701438r
-
Brownlee J, He P, Moran GR, Harrison DHT (2008) Two roads diverged: the structure of hydroxymandelate synthase from Amycolatopsis orientalis in complex with 4-hydroxymandelate. Biochemistry 47:2002-2013 (Pubitemid 351287126)
-
(2008)
Biochemistry
, vol.47
, Issue.7
, pp. 2002-2013
-
-
Brownlee, J.1
He, P.2
Moran, G.R.3
Harrison, D.H.T.4
-
5
-
-
33749548848
-
Prokaryotic photosynthesis and phototrophy illuminated
-
DOI 10.1016/j.tim.2006.09.001, PII S0966842X06002265
-
Bryant DA, Frigaard NU (2006) Prokaryotic photosynthesis and phototrophy illuminated. Trends Microbiol 14:488-496 (Pubitemid 44537806)
-
(2006)
Trends in Microbiology
, vol.14
, Issue.11
, pp. 488-496
-
-
Bryant, D.A.1
Frigaard, N.-U.2
-
6
-
-
0038000517
-
Synergistic antimicrobial activity of metabolites produced by a nonobligate bacterial predator
-
DOI 10.1128/AAC.47.7.2113-2117.2003
-
Cain CC, Lee D, Waldo RH, Henry AT, Casida EJ, Wani MC, Wall ME, Oberlies NH, Falkinham JO (2003) Synergistic antimicrobial activity of metabolites produced by a nonobligate bacterial predator. Antimicrobial Agents Chemother 47:2113-2117 (Pubitemid 36753559)
-
(2003)
Antimicrobial Agents and Chemotherapy
, vol.47
, Issue.7
, pp. 2113-2117
-
-
Cain, C.C.1
Lee, D.2
Waldo III, R.H.3
Henry, A.T.4
Casida Jr., E.J.5
Wani, M.C.6
Wall, M.E.7
Oberlies, N.H.8
Falkinham III, J.O.9
-
7
-
-
84857096832
-
Order II. 'Herpetosiphonales'
-
Boone DR, Castenholz RW (eds), 2nd edn (The Archaea and the deeply branching and phototrophic Bacteria). Springer, New York
-
Castenholz RW (2001) Order II. 'Herpetosiphonales'. In: Boone DR, Castenholz RW (eds) Bergey's manual of systematic bacteriology, vol 1, 2nd edn (The Archaea and the deeply branching and phototrophic Bacteria). Springer, New York, p 444
-
(2001)
Bergey's Manual of Systematic Bacteriology
, vol.1
, pp. 444
-
-
Castenholz, R.W.1
-
8
-
-
0034616852
-
Biosynthesis of the vancomycin group of antibiotics: Involvement of an unusual dioxygenase in the pathway to (S)-4-hydroxyphenylglycine [2]
-
DOI 10.1021/ja000076v
-
Choroba OW, Williams DH, Spencer JB (2000) Biosynthesis of the vancomycin group of antibiotics: involvement of an unusual dioxygenase in the pathway to (S)-4-hydroxyphenylglycine. J Am Chem Soc 122:5389-5390 (Pubitemid 30395273)
-
(2000)
Journal of the American Chemical Society
, vol.122
, Issue.22
, pp. 5389-5390
-
-
Choroba, O.W.1
Williams, D.H.2
Spencer, J.B.3
-
9
-
-
25844485916
-
Comparative analysis and insights into the evolution of gene clusters for glycopeptide antibiotic biosynthesis
-
DOI 10.1007/s00438-005-1156-3
-
Donadio S, Sosio M, Stegmann E, Weber T, Wohlleben W (2005) Comparative analysis and insights into the evolution of gene clusters for glycopeptide antibiotic biosynthesis. Mol Gen Genomics 274:40-50 (Pubitemid 41396982)
-
(2005)
Molecular Genetics and Genomics
, vol.274
, Issue.1
, pp. 40-50
-
-
Donadio, S.1
Sosio, M.2
Stegmann, E.3
Weber, T.4
Wohlleben, W.5
-
10
-
-
68149134832
-
Biosynthesis of the salinosporamide A polyketide synthase substrate chloroethylmalonylcoenzyme A from S-adenosyl-L-methionine
-
Eustaquio AS, McGlinchey RP, Liu Y, Hazzard C, Beer LL, Florova G, Alhamadsheh MM, Lechner A, Kale AJ, Kobayashi Y, Reynolds KA, Moore BS (2009) Biosynthesis of the salinosporamide A polyketide synthase substrate chloroethylmalonylcoenzyme A from S-adenosyl-L-methionine. Proc Natl Acad Sci USA 106:12295-12300
-
(2009)
Proc Natl Acad Sci USA
, vol.106
, pp. 12295-12300
-
-
Eustaquio, A.S.1
McGlinchey, R.P.2
Liu, Y.3
Hazzard, C.4
Beer, L.L.5
Florova, G.6
Alhamadsheh, M.M.7
Lechner, A.8
Kale, A.J.9
Kobayashi, Y.10
Reynolds, K.A.11
Moore, B.S.12
-
12
-
-
1642266935
-
Gene duplication and biased functional retention of paralogs in bacterial genomes
-
DOI 10.1016/j.tim.2004.02.007, PII S0966842X04000459
-
Gevers D, Vandepoele K, Simillon C, Van de Peer Y (2004) Gene duplication and biased functional retention of paralogs in bacterial genomes. Trends Microbiol 12:148-154 (Pubitemid 38393733)
-
(2004)
Trends in Microbiology
, vol.12
, Issue.4
, pp. 148-154
-
-
Gevers, D.1
Vandepoele, K.2
Simillion, C.3
Van De Peer, Y.4
-
13
-
-
53749086324
-
EPoS: A modular software framework for phylogenetic analysis
-
Griebel T, Brinkmeyer M, Böcker S (2008) EPoS: a modular software framework for phylogenetic analysis. Bioinformatics 24:2399-2400
-
(2008)
Bioinformatics
, vol.24
, pp. 2399-2400
-
-
Griebel, T.1
Brinkmeyer, M.2
Böcker, S.3
-
14
-
-
1642494902
-
Engineering p-Hydroxyphenylpyruvate Dioxygenase to a p-Hydroxymandelate Synthase and Evidence for the Proposed Benzene Oxide Intermediate in Homogentisate Formation
-
DOI 10.1021/bi035762w
-
Gunsior M, Ravel J, Challis GL, Townsend CA (2004) Engineering p-hydroxyphenylpyruvate dioxygenase to a p-hydroxymandelate synthase and evidence for the proposed benzene oxide intermediate in homogentisate formation. Biochemistry 43:663-674 (Pubitemid 38114053)
-
(2004)
Biochemistry
, vol.43
, Issue.3
, pp. 663-674
-
-
Gunsior, M.1
Ravel, J.2
Challis, G.L.3
Townsend, C.A.4
-
15
-
-
69249202590
-
The biosynthetic logic of polyketide diversity
-
Hertweck C (2009) The biosynthetic logic of polyketide diversity. Angew Chem Int Ed 48:4688-4716
-
(2009)
Angew Chem Int Ed
, vol.48
, pp. 4688-4716
-
-
Hertweck, C.1
-
16
-
-
0037572262
-
On the nature of gene innovation: Duplication patterns in microbial genomes
-
DOI 10.1093/molbev/msg101
-
Hooper SD, Berg OG (2003) On the nature of gene innovation: duplication patterns in microbial genomes. Mol Biol Evol 20:945-954 (Pubitemid 36578721)
-
(2003)
Molecular Biology and Evolution
, vol.20
, Issue.6
, pp. 945-954
-
-
Hooper, S.D.1
Berg, O.G.2
-
17
-
-
0034523992
-
Biosynthesis of L-p-hydroxyphenylglycine, a non-proteinogenic amino acid constituent of peptide antibiotics
-
DOI 10.1016/S1074-5521(00)00043-0, PII S1074552100000430
-
Hubbard BK, Thomas MG, Walsh CT (2000) Biosynthesis of L-p-hydroxyphenylglycine, a non-proteinogenic amino acid constituent of peptide antibiotics. Chem Biol 7:931-942 (Pubitemid 32045048)
-
(2000)
Chemistry and Biology
, vol.7
, Issue.12
, pp. 931-942
-
-
Hubbard, B.K.1
Thomas, M.G.2
Walsh, C.T.3
-
18
-
-
75549087305
-
The evolution of gene duplications: Classifying and distinguishing between models
-
Innan H, Kondrashov F (2010) The evolution of gene duplications: classifying and distinguishing between models. Nat Rev Genet 11:97-108
-
(2010)
Nat Rev Genet
, vol.11
, pp. 97-108
-
-
Innan, H.1
Kondrashov, F.2
-
19
-
-
70350708768
-
Evolution of metabolic diversity: Insights from microbial polyketide synthases
-
Jenke-Kodama H, Dittmann E (2009) Evolution of metabolic diversity: insights from microbial polyketide synthases. Phytochemistry 70:1858-1866
-
(2009)
Phytochemistry
, vol.70
, pp. 1858-1866
-
-
Jenke-Kodama, H.1
Dittmann, E.2
-
20
-
-
35448986536
-
Predatory behaviors in bacteria - Diversity and transitions
-
Jurkevitch E (2007) Predatory behaviors in bacteria - diversity and transitions. Microbe 2:67-73 (Pubitemid 47619481)
-
(2007)
Microbe
, vol.2
, Issue.2
, pp. 67-73
-
-
Jurkevitch, E.1
-
21
-
-
0026062601
-
Highperformance liquid chromatographic separation of p- hydroxyphenylpyruvic acid
-
Kawai S, Hanai K, Ito K, Kitahara S, Kuwae A (1991) Highperformance liquid chromatographic separation of p-hydroxyphenylpyruvic acid. J Chromatogr 585:318-321
-
(1991)
J Chromatogr
, vol.585
, pp. 318-321
-
-
Kawai, S.1
Hanai, K.2
Ito, K.3
Kitahara, S.4
Kuwae, A.5
-
22
-
-
34447321098
-
Comparative genomics provides evidence for the 3-hydroxypropionate autotrophic pathway in filamentous anoxygenic phototrophic bacteria and in hot spring microbial mats
-
DOI 10.1111/j.1462-2920.2007.01323.x
-
Klatt CG, Bryant DA, Ward DM (2007) Comparative genomics provides evidence for the 3-hydroxypropionate autotrophic pathway in filamentous anoxygenic phototrophic bacteria and in hot spring microbial mats. Environ Microbiol 9:2067-2078 (Pubitemid 47057360)
-
(2007)
Environmental Microbiology
, vol.9
, Issue.8
, pp. 2067-2078
-
-
Klatt, C.G.1
Bryant, D.A.2
Ward, D.M.3
-
23
-
-
0030994798
-
Amelioration of bacterial genomes: Rates of change and exchange
-
DOI 10.1007/PL00006158
-
Lawrence JG, Ochman H (1997) Amelioration of bacterial genomes: rates of change and exchange. J Mol Evol 44:383-397 (Pubitemid 27161335)
-
(1997)
Journal of Molecular Evolution
, vol.44
, Issue.4
, pp. 383-397
-
-
Lawrence, J.G.1
Ochman, H.2
-
24
-
-
0026816531
-
Clusters of genes for the biosynthesis of antibiotics: Regulatory genes and overproduction of pharmaceuticals
-
Martin JF (1992) Clusters of genes for the biosynthesis of antibiotics: regulatory genes and overproduction of pharmaceuticals. J Ind Microbiol 9:73-90
-
(1992)
J Ind Microbiol
, vol.9
, pp. 73-90
-
-
Martin, J.F.1
-
25
-
-
9744253076
-
4-Hydroxyphenylpyruvate dioxygenase
-
DOI 10.1016/j.abb.2004.08.015, PII S000398610400459X
-
Moran GR (2005) 4-Hydroxyphenylpyruvate dioxygenase. Arch Biochem Biophys 433:117-128 (Pubitemid 39586587)
-
(2005)
Archives of Biochemistry and Biophysics
, vol.433
, Issue.1
, pp. 117-128
-
-
Moran, G.R.1
-
26
-
-
0026805942
-
Rapid isolation of genomic DNA from gram-negative bacteria
-
Neumann B, Pospiech A, Schairer HU (1992) Rapid isolation of genomic DNA from gram-negative bacteria. Trends Genet 8:332-333
-
(1992)
Trends Genet
, vol.8
, pp. 332-333
-
-
Neumann, B.1
Pospiech, A.2
Schairer, H.U.3
-
27
-
-
33646901887
-
Conversion of hydroxyphenylpyruvate dioxygenases into hydroxymandelate synthases by directed evolution
-
DOI 10.1016/j.febslet.2006.05.018, PII S0014579306006065
-
O'Hare HM, Huang F, Holding A, Choroba OW, Spencer JB (2006) Conversion of hydroxyphenylpyruvate dioxygenases into hydroxymandelate synthases by directed evolution. FEBS Lett 580:3445-3450 (Pubitemid 43795911)
-
(2006)
FEBS Letters
, vol.580
, Issue.14
, pp. 3445-3450
-
-
O'Hare, H.M.1
Huang, F.2
Holding, A.3
Choroba, O.W.4
Spencer, J.B.5
-
29
-
-
79959936207
-
NRPSpredictor2 - A web server for predicting NRPS adenylation domain specificity
-
Röttig M, Medema MH, Blin K, Weber T, Rausch C, Kohlbacher O (2011) NRPSpredictor2 - a web server for predicting NRPS adenylation domain specificity. Nucleic Acids Res 39(Suppl 2):W362-W367
-
(2011)
Nucleic Acids Res
, vol.39
, Issue.SUPPL. 2
-
-
Röttig, M.1
Medema, M.H.2
Blin, K.3
Weber, T.4
Rausch, C.5
Kohlbacher, O.6
-
30
-
-
80052220118
-
Evidence for the mechanism of hydroxylation by 4-hydroxyphenylpyruvate dioxygenase and hydroxymandelate synthase from intermediate partitioning in active site variants
-
Shah DD, Conrad JA, Heinz B, Brownlee JM, Moran GR (2011) Evidence for the mechanism of hydroxylation by 4-hydroxyphenylpyruvate dioxygenase and hydroxymandelate synthase from intermediate partitioning in active site variants. Biochemistry 50:7694-7704
-
(2011)
Biochemistry
, vol.50
, pp. 7694-7704
-
-
Shah, D.D.1
Conrad, J.A.2
Heinz, B.3
Brownlee, J.M.4
Moran, G.R.5
-
31
-
-
77954743785
-
Mutational effects and the evolution of new protein functions
-
Soskine M, Tawfik DS (2010) Mutational effects and the evolution of new protein functions. Nat Rev Genet 11:572-582
-
(2010)
Nat Rev Genet
, vol.11
, pp. 572-582
-
-
Soskine, M.1
Tawfik, D.S.2
-
32
-
-
77957784833
-
Glycopeptide biosynthesis in the context of basic cellular functions
-
Stegmann E, Frasch H-J, Wohlleben W (2010) Glycopeptide biosynthesis in the context of basic cellular functions. Curr Opin Microbiol 13:595-602
-
(2010)
Curr Opin Microbiol
, vol.13
, pp. 595-602
-
-
Stegmann, E.1
Frasch, H.-J.2
Wohlleben, W.3
-
34
-
-
0017579898
-
Additive evolutionary trees
-
DOI 10.1016/0022-5193(77)90351-4
-
Waterman MS, Smith TF, Singh M, Beyer WA (1977) Additive evolutionary trees. J Theor Biol 64:199-213 (Pubitemid 8028175)
-
(1977)
Journal of Theoretical Biology
, vol.64
, Issue.2
, pp. 199-213
-
-
Waterman, M.S.1
Smith, T.F.2
Singh, M.3
Beyer, W.A.4
-
35
-
-
70349556435
-
Complex oxidation chemistry in the biosynthetic pathways to vancomycin/teicoplanin antibiotics
-
Widboom PF, Bruner SD (2009) Complex oxidation chemistry in the biosynthetic pathways to vancomycin/teicoplanin antibiotics. Chembiochem 10:1757-1764
-
(2009)
Chembiochem
, vol.10
, pp. 1757-1764
-
-
Widboom, P.F.1
Bruner, S.D.2
-
36
-
-
80052521505
-
Antibiotic production by myxobacteria plays a role in predation
-
Xiao Y, Wei X, Ebright R, Wall D (2011) Antibiotic production by myxobacteria plays a role in predation. J Bacteriol 193:4626-4633
-
(2011)
J Bacteriol
, vol.193
, pp. 4626-4633
-
-
Xiao, Y.1
Wei, X.2
Ebright, R.3
Wall, D.4
-
37
-
-
79955668971
-
A branched extender unit shared between two orthogonal polyketide pathways in an endophyte
-
Xu Z, Ding L, Hertweck C (2011) A branched extender unit shared between two orthogonal polyketide pathways in an endophyte. Angew Chem Int Ed 50:4667-4670
-
(2011)
Angew Chem Int Ed
, vol.50
, pp. 4667-4670
-
-
Xu, Z.1
Ding, L.2
Hertweck, C.3
|