-
1
-
-
0034305155
-
Small bugs, big business: the economic power of the microbe
-
[1] Demain, A.L., Small bugs, big business: the economic power of the microbe. Biotechnol Adv 18 (2000), 499–514, 10.1016/S0734-9750(00)00049-5.
-
(2000)
Biotechnol Adv
, vol.18
, pp. 499-514
-
-
Demain, A.L.1
-
2
-
-
79960399031
-
A brief history of the antibiotic era: lessons learned and challenges for the future
-
[2] Aminov, R.I., A brief history of the antibiotic era: lessons learned and challenges for the future. Front Microbiol, 1, 2010, 134, 10.3389/fmicb.2010.00134.
-
(2010)
Front Microbiol
, vol.1
, pp. 134
-
-
Aminov, R.I.1
-
3
-
-
10644227919
-
Mycotoxins, drugs and other extrolites produced by species in Penicillium subgenus Penicillium
-
[3] Frisvad, J.C., Smedsgaard, J., Larsen, T.O., Samson, R.A., Mycotoxins, drugs and other extrolites produced by species in Penicillium subgenus Penicillium. Stud Mycol 49 (2004), 201–241.
-
(2004)
Stud Mycol
, vol.49
, pp. 201-241
-
-
Frisvad, J.C.1
Smedsgaard, J.2
Larsen, T.O.3
Samson, R.A.4
-
4
-
-
14544294545
-
Bioactive microbial metabolites
-
[4] Bérdy, J., Bioactive microbial metabolites. J Antibiot 58 (2005), 1–26, 10.1038/ja.2005.1.
-
(2005)
J Antibiot
, vol.58
, pp. 1-26
-
-
Bérdy, J.1
-
5
-
-
76649090282
-
Biotechnological production and applications of statins
-
[5] Barrios-González, J., Miranda, R.U., Biotechnological production and applications of statins. Appl Microbiol Biotechnol 85 (2010), 869–883, 10.1007/s00253-009-2239-6.
-
(2010)
Appl Microbiol Biotechnol
, vol.85
, pp. 869-883
-
-
Barrios-González, J.1
Miranda, R.U.2
-
6
-
-
0029917772
-
Griseofulvin and its uses
-
[6] Finkelstein, E., Amichai, B., Grunwald, M.H., Griseofulvin and its uses. Int J Antimicrob Agents 6 (1996), 189–194, 10.1016/0924-8579(95)00037-2.
-
(1996)
Int J Antimicrob Agents
, vol.6
, pp. 189-194
-
-
Finkelstein, E.1
Amichai, B.2
Grunwald, M.H.3
-
7
-
-
34047199798
-
Use of mycophenolic acid in non-transplant renal diseases
-
[7] Stassen, P.M., Kallenberg, C.G.M., Stegeman, C.A., Use of mycophenolic acid in non-transplant renal diseases. Nephrol Dial Transpl 22 (2007), 1013–1019, 10.1093/ndt/gfl844.
-
(2007)
Nephrol Dial Transpl
, vol.22
, pp. 1013-1019
-
-
Stassen, P.M.1
Kallenberg, C.G.M.2
Stegeman, C.A.3
-
8
-
-
84871292787
-
Regulation of fungal secondary metabolism
-
[8] Brakhage, A.A., Regulation of fungal secondary metabolism. Nat Rev Microbiol 11 (2013), 21–32, 10.1038/nrmicro2916.
-
(2013)
Nat Rev Microbiol
, vol.11
, pp. 21-32
-
-
Brakhage, A.A.1
-
9
-
-
30544434099
-
Fungal secondary metabolism - from biochemistry to genomics
-
[9] Keller, N.P., Turner, G., Bennett, J.W., Fungal secondary metabolism - from biochemistry to genomics. Nat Rev Microbiol 3 (2005), 937–947, 10.1038/nrmicro1286.
-
(2005)
Nat Rev Microbiol
, vol.3
, pp. 937-947
-
-
Keller, N.P.1
Turner, G.2
Bennett, J.W.3
-
10
-
-
77955274600
-
SMURF: genomic mapping of fungal secondary metabolite clusters
-
[10] Khaldi, N., Seifuddin, F.T., Turner, G., Haft, D., Nierman, W.C., Wolfe, K.H., et al. SMURF: genomic mapping of fungal secondary metabolite clusters. Fungal Genet Biol 47 (2010), 736–741, 10.1016/j.fgb.2010.06.003.
-
(2010)
Fungal Genet Biol
, vol.47
, pp. 736-741
-
-
Khaldi, N.1
Seifuddin, F.T.2
Turner, G.3
Haft, D.4
Nierman, W.C.5
Wolfe, K.H.6
-
11
-
-
84979859096
-
antiSMASH 3.0–a comprehensive resource for the genome mining of biosynthetic gene clusters
-
[11] Weber, T., Blin, K., Duddela, S., Krug, D., Kim, H.U., Bruccoleri, R., et al. antiSMASH 3.0–a comprehensive resource for the genome mining of biosynthetic gene clusters. Nucleic Acids Res 43 (2015), W237–W243, 10.1093/nar/gkv437.
-
(2015)
Nucleic Acids Res
, vol.43
, pp. W237-W243
-
-
Weber, T.1
Blin, K.2
Duddela, S.3
Krug, D.4
Kim, H.U.5
Bruccoleri, R.6
-
12
-
-
84949999706
-
Genomes to natural products PRediction informatics for secondary metabolomes (PRISM)
-
[12] Skinnider, M.A., Dejong, C.A., Rees, P.N., Johnston, C.W., Li, H., Webster, A.L.H., et al. Genomes to natural products PRediction informatics for secondary metabolomes (PRISM). Nucleic Acids Res 43 (2015), 9645–9662, 10.1093/nar/gkv1012.
-
(2015)
Nucleic Acids Res
, vol.43
, pp. 9645-9662
-
-
Skinnider, M.A.1
Dejong, C.A.2
Rees, P.N.3
Johnston, C.W.4
Li, H.5
Webster, A.L.H.6
-
13
-
-
84966692174
-
CASSIS and SMIPS: promoter-based prediction of secondary metabolite gene clusters in eukaryotic genomes
-
[13] Wolf, T., Shelest, V., Nath, N., Shelest, E., CASSIS and SMIPS: promoter-based prediction of secondary metabolite gene clusters in eukaryotic genomes. Bioinformatics 32 (2016), 1138–1143, 10.1093/bioinformatics/btv713.
-
(2016)
Bioinformatics
, vol.32
, pp. 1138-1143
-
-
Wolf, T.1
Shelest, V.2
Nath, N.3
Shelest, E.4
-
14
-
-
84894140502
-
MIDDAS-M: motif-independent de novo detection of secondary metabolite gene clusters through the integration of genome sequencing and transcriptome data
-
[14] Umemura, M., Koike, H., Nagano, N., Ishii, T., Kawano, J., Yamane, N., et al. MIDDAS-M: motif-independent de novo detection of secondary metabolite gene clusters through the integration of genome sequencing and transcriptome data. PLoS One, 8, 2013, e84028, 10.1371/journal.pone.0084028.
-
(2013)
PLoS One
, vol.8
, pp. e84028
-
-
Umemura, M.1
Koike, H.2
Nagano, N.3
Ishii, T.4
Kawano, J.5
Yamane, N.6
-
15
-
-
84906983992
-
Motif-independent prediction of a secondary metabolism gene cluster using comparative genomics: application to sequenced genomes of Aspergillus and ten other filamentous fungal species
-
[15] Takeda, I., Myco, U., Koike, H., Asai, K., Machida, M., Motif-independent prediction of a secondary metabolism gene cluster using comparative genomics: application to sequenced genomes of Aspergillus and ten other filamentous fungal species. DNA Res 21 (2014), 447–457, 10.1093/dnares/dsu010.
-
(2014)
DNA Res
, vol.21
, pp. 447-457
-
-
Takeda, I.1
Myco, U.2
Koike, H.3
Asai, K.4
Machida, M.5
-
16
-
-
84904554933
-
Insights into secondary metabolism from a global analysis of prokaryotic biosynthetic gene clusters
-
[16] Cimermancic, P., Medema, M.H., Claesen, J., Kurita, K., Wieland Brown, L.C., Mavrommatis, K., et al. Insights into secondary metabolism from a global analysis of prokaryotic biosynthetic gene clusters. Cell 158 (2014), 412–421, 10.1016/j.cell.2014.06.034.
-
(2014)
Cell
, vol.158
, pp. 412-421
-
-
Cimermancic, P.1
Medema, M.H.2
Claesen, J.3
Kurita, K.4
Wieland Brown, L.C.5
Mavrommatis, K.6
-
17
-
-
85027518253
-
FunGeneClusterS: predicting fungal gene clusters from genome and transcriptome data
-
[17] Vesth, T.C., Brandl, J., Andersen, M.R., FunGeneClusterS: predicting fungal gene clusters from genome and transcriptome data. Synth Syst Biotechnol, 1, 2016, 10.1016/j.synbio.2016.01.002.
-
(2016)
Synth Syst Biotechnol
, vol.1
-
-
Vesth, T.C.1
Brandl, J.2
Andersen, M.R.3
-
18
-
-
84895075667
-
Strategies for mining fungal natural products
-
[18] Wiemann, P., Keller, N.P., Strategies for mining fungal natural products. J Ind Microbiol Biotechnol 41 (2014), 301–313, 10.1007/s10295-013-1366-3.
-
(2014)
J Ind Microbiol Biotechnol
, vol.41
, pp. 301-313
-
-
Wiemann, P.1
Keller, N.P.2
-
19
-
-
84899651850
-
In silico tools for the analysis of antibiotic biosynthetic pathways
-
[19] Weber, T., In silico tools for the analysis of antibiotic biosynthetic pathways. Int J Med Microbiol 304 (2014), 230–235, 10.1016/j.ijmm.2014.02.001.
-
(2014)
Int J Med Microbiol
, vol.304
, pp. 230-235
-
-
Weber, T.1
-
20
-
-
84939536885
-
Computational approaches to natural product discovery
-
[20] Medema, M.H., Fischbach, M.A., Computational approaches to natural product discovery. Nat Chem Biol 11 (2015), 639–648, 10.1038/nchembio.1884.
-
(2015)
Nat Chem Biol
, vol.11
, pp. 639-648
-
-
Medema, M.H.1
Fischbach, M.A.2
-
21
-
-
84960087369
-
Computational strategies for genome-based natural product discovery and engineering in fungi
-
[21] van der Lee, T.A.J., Medema, M.H., Computational strategies for genome-based natural product discovery and engineering in fungi. Fungal Genet Biol 89 (2016), 29–36, 10.1016/j.fgb.2016.01.006.
-
(2016)
Fungal Genet Biol
, vol.89
, pp. 29-36
-
-
van der Lee, T.A.J.1
Medema, M.H.2
-
22
-
-
84979984723
-
The evolution of genome mining in microbes – a review
-
[22] Ziemert, N., Alanjary, M., Weber, T., The evolution of genome mining in microbes – a review. Nat Prod Rep 33 (2016), 988–1005, 10.1039/C6NP00025H.
-
(2016)
Nat Prod Rep
, vol.33
, pp. 988-1005
-
-
Ziemert, N.1
Alanjary, M.2
Weber, T.3
-
23
-
-
85014230646
-
The secondary metabolite bioinformatics portal: computational tools to facilitate synthetic biology of secondary metabolite production
-
[23] Weber, T., Kim, H.U., The secondary metabolite bioinformatics portal: computational tools to facilitate synthetic biology of secondary metabolite production. Synth Syst Biotechnol 1 (2016), 69–79, 10.1016/j.synbio.2015.12.002.
-
(2016)
Synth Syst Biotechnol
, vol.1
, pp. 69-79
-
-
Weber, T.1
Kim, H.U.2
-
24
-
-
6744256820
-
Regulation of secondary metabolism in fungi
-
[24] Demain, A.L., Regulation of secondary metabolism in fungi. Pure Appl Chem 58 (1986), 219–226, 10.1351/pac198658020219.
-
(1986)
Pure Appl Chem
, vol.58
, pp. 219-226
-
-
Demain, A.L.1
-
25
-
-
84962176145
-
Applications of genome-scale metabolic models in biotechnology and systems medicine
-
[25] Zhang, C., Hua, Q., Applications of genome-scale metabolic models in biotechnology and systems medicine. Front Physiol 6 (2016), 1–8, 10.3389/fphys.2015.00413.
-
(2016)
Front Physiol
, vol.6
, pp. 1-8
-
-
Zhang, C.1
Hua, Q.2
-
26
-
-
77953128693
-
Use of genome-scale metabolic models for understanding microbial physiology
-
[26] Liu, L., Agren, R., Bordel, S., Nielsen, J., Use of genome-scale metabolic models for understanding microbial physiology. FEBS Lett 584 (2010), 2556–2564, 10.1016/j.febslet.2010.04.052.
-
(2010)
FEBS Lett
, vol.584
, pp. 2556-2564
-
-
Liu, L.1
Agren, R.2
Bordel, S.3
Nielsen, J.4
-
27
-
-
77954699474
-
Systems metabolic engineering: genome-scale models and beyond
-
[27] Blazeck, J., Alper, H., Systems metabolic engineering: genome-scale models and beyond. Biotechnol J 5 (2010), 647–659, 10.1002/biot.200900247.
-
(2010)
Biotechnol J
, vol.5
, pp. 647-659
-
-
Blazeck, J.1
Alper, H.2
-
28
-
-
84940524988
-
A CRISPR-Cas9 system for genetic engineering of filamentous fungi
-
[28] Nødvig, C.S., Nielsen, J.B., Kogle, M.E., Mortensen, U.H., A CRISPR-Cas9 system for genetic engineering of filamentous fungi. PLoS One, 10, 2015, e0133085, 10.1371/journal.pone.0133085.
-
(2015)
PLoS One
, vol.10
, pp. e0133085
-
-
Nødvig, C.S.1
Nielsen, J.B.2
Kogle, M.E.3
Mortensen, U.H.4
-
29
-
-
84960091376
-
Efficient gene editing in Neurospora crassa with CRISPR technology
-
[29] Matsu-ura, T., Baek, M., Kwon, J., Hong, C., Efficient gene editing in Neurospora crassa with CRISPR technology. Fungal Biol Biotechnol, 2015, 2, 10.1186/s40694-015-0015-1.
-
(2015)
Fungal Biol Biotechnol
, pp. 2
-
-
Matsu-ura, T.1
Baek, M.2
Kwon, J.3
Hong, C.4
-
30
-
-
84978765496
-
CRISPR/Cas9 based genome editing of Penicillium chrysogenum
-
[30] Pohl, C., Kiel, J.A.K.W., Driessen, A.J.M., Bovenberg, R.A.L., Nygård, Y., CRISPR/Cas9 based genome editing of Penicillium chrysogenum. ACS Synth Biol 5 (2016), 754–764, 10.1021/acssynbio.6b00082.
-
(2016)
ACS Synth Biol
, vol.5
, pp. 754-764
-
-
Pohl, C.1
Kiel, J.A.K.W.2
Driessen, A.J.M.3
Bovenberg, R.A.L.4
Nygård, Y.5
-
31
-
-
84960460639
-
Engineering cellular metabolism
-
[31] Nielsen, J., Keasling, J.D., Engineering cellular metabolism. Cell 164 (2016), 1185–1197, 10.1016/j.cell.2016.02.004.
-
(2016)
Cell
, vol.164
, pp. 1185-1197
-
-
Nielsen, J.1
Keasling, J.D.2
-
32
-
-
84857192122
-
Computational tools for the synthetic design of biochemical pathways
-
[32] Medema, M.H., van Raaphorst, R., Takano, E., Breitling, R., Computational tools for the synthetic design of biochemical pathways. Nat Rev Microbiol 10 (2012), 191–202, 10.1038/nrmicro2717.
-
(2012)
Nat Rev Microbiol
, vol.10
, pp. 191-202
-
-
Medema, M.H.1
van Raaphorst, R.2
Takano, E.3
Breitling, R.4
-
33
-
-
0028835709
-
Production of Cephalosporin intermediates by feeding adipic acid to recombinant Penicillium chrysogenum strains expressing ring expansion activity
-
[33] Crawford, L., Stepan, A.M., McAda, P.C., Rambosek, J.A., Confer, M.J., Vinci, V.A., et al. Production of Cephalosporin intermediates by feeding adipic acid to recombinant Penicillium chrysogenum strains expressing ring expansion activity. Nat Biotechnol 13 (1995), 58–62, 10.1038/nbt0195-58.
-
(1995)
Nat Biotechnol
, vol.13
, pp. 58-62
-
-
Crawford, L.1
Stepan, A.M.2
McAda, P.C.3
Rambosek, J.A.4
Confer, M.J.5
Vinci, V.A.6
-
34
-
-
77954200418
-
Identification of the viridicatumtoxin and griseofulvin gene clusters from Penicillium aethiopicum
-
[34] Chooi, Y.-H., Cacho, R., Tang, Y., Identification of the viridicatumtoxin and griseofulvin gene clusters from Penicillium aethiopicum. Chem Biol 17 (2010), 483–494, 10.1016/j.chembiol.2010.03.015.
-
(2010)
Chem Biol
, vol.17
, pp. 483-494
-
-
Chooi, Y.-H.1
Cacho, R.2
Tang, Y.3
-
35
-
-
79952270689
-
Fungal indole alkaloid biosynthesis: genetic and biochemical investigation of the tryptoquialanine pathway in Penicillium aethiopicum
-
[35] Gao, X., Chooi, Y.-H., Ames, B.D., Wang, P., Walsh, C.T., Tang, Y., Fungal indole alkaloid biosynthesis: genetic and biochemical investigation of the tryptoquialanine pathway in Penicillium aethiopicum. J Am Chem Soc 133 (2011), 2729–2741, 10.1021/ja1101085.
-
(2011)
J Am Chem Soc
, vol.133
, pp. 2729-2741
-
-
Gao, X.1
Chooi, Y.-H.2
Ames, B.D.3
Wang, P.4
Walsh, C.T.5
Tang, Y.6
-
36
-
-
84920693527
-
Next-generation sequencing approach for connecting secondary metabolites to biosynthetic gene clusters in fungi
-
[36] Cacho, R.A., Tang, Y., Chooi, Y.H., Next-generation sequencing approach for connecting secondary metabolites to biosynthetic gene clusters in fungi. Front Microbiol 6 (2015), 1–16, 10.3389/fmicb.2014.00774.
-
(2015)
Front Microbiol
, vol.6
, pp. 1-16
-
-
Cacho, R.A.1
Tang, Y.2
Chooi, Y.H.3
-
37
-
-
84991730744
-
Penicillium arizonense, a new, genome sequenced fungal species, reveals a high chemical diversity in secreted metabolites
-
[37] Grijseels, S., Nielsen, J.C., Randelovic, M., Nielsen, J., Nielsen, K.F., Workman, M., et al. Penicillium arizonense, a new, genome sequenced fungal species, reveals a high chemical diversity in secreted metabolites. Sci Rep, 6, 2016, 35112, 10.1038/srep35112.
-
(2016)
Sci Rep
, vol.6
, pp. 35112
-
-
Grijseels, S.1
Nielsen, J.C.2
Randelovic, M.3
Nielsen, J.4
Nielsen, K.F.5
Workman, M.6
-
38
-
-
0032514659
-
The anti-angiogenic agent fumagillin covalently modifies a conserved active-site histidine in the Escherichia coli methionine aminopeptidase
-
[38] Lowther, W.T., McMillen, D.A., Orville, A.M., Matthews, B.W., The anti-angiogenic agent fumagillin covalently modifies a conserved active-site histidine in the Escherichia coli methionine aminopeptidase. Proc Natl Acad Sci U. S. A 95 (1998), 12153–12157, 10.1073/PNAS.95.21.12153.
-
(1998)
Proc Natl Acad Sci U. S. A
, vol.95
, pp. 12153-12157
-
-
Lowther, W.T.1
McMillen, D.A.2
Orville, A.M.3
Matthews, B.W.4
-
39
-
-
0033591447
-
Modulation of polyketide synthase activity by accessory proteins during lovastatin biosynthesis
-
[39] Kennedy, J., Auclair, K., Kendrew, S.G., Park, C., Vederas, J.C., Richard Hutchinson, C., Modulation of polyketide synthase activity by accessory proteins during lovastatin biosynthesis. Science 284 (1999), 1368–1372.
-
(1999)
Science
, vol.284
, pp. 1368-1372
-
-
Kennedy, J.1
Auclair, K.2
Kendrew, S.G.3
Park, C.4
Vederas, J.C.5
Richard Hutchinson, C.6
-
40
-
-
0036321084
-
Molecular cloning and characterization of an ML-236B (compactin) biosynthetic gene cluster in Penicillium citrinum
-
[40] Abe, Y., Suzuki, T., Ono, C., Iwamoto, K., Hosobuchi, M., Yoshikawa, H., Molecular cloning and characterization of an ML-236B (compactin) biosynthetic gene cluster in Penicillium citrinum. Mol Genet Genomics 267 (2002), 636–646, 10.1007/s00438-002-0697-y.
-
(2002)
Mol Genet Genomics
, vol.267
, pp. 636-646
-
-
Abe, Y.1
Suzuki, T.2
Ono, C.3
Iwamoto, K.4
Hosobuchi, M.5
Yoshikawa, H.6
-
41
-
-
79955574720
-
Molecular basis for mycophenolic acid biosynthesis in Penicillium brevicompactum
-
[41] Regueira, T.B., Kildegaard, K.R., Hansen, B.G., Mortensen, U.H., Hertweck, C., Nielsen, J., Molecular basis for mycophenolic acid biosynthesis in Penicillium brevicompactum. Appl Environ Microbiol 77 (2011), 3035–3043, 10.1128/AEM.03015-10.
-
(2011)
Appl Environ Microbiol
, vol.77
, pp. 3035-3043
-
-
Regueira, T.B.1
Kildegaard, K.R.2
Hansen, B.G.3
Mortensen, U.H.4
Hertweck, C.5
Nielsen, J.6
-
42
-
-
78650356368
-
Activation of a silent fungal polyketide biosynthesis pathway through regulatory cross talk with a cryptic nonribosomal peptide synthetase gene cluster
-
[42] Bergmann, S., Funk, A.N., Scherlach, K., Schroeckh, V., Shelest, E., Horn, U., et al. Activation of a silent fungal polyketide biosynthesis pathway through regulatory cross talk with a cryptic nonribosomal peptide synthetase gene cluster. Appl Environ Microbiol 76 (2010), 8143–8149, 10.1128/AEM.00683-10.
-
(2010)
Appl Environ Microbiol
, vol.76
, pp. 8143-8149
-
-
Bergmann, S.1
Funk, A.N.2
Scherlach, K.3
Schroeckh, V.4
Shelest, E.5
Horn, U.6
-
43
-
-
84983287438
-
Resistance gene-guided genome mining: serial promoter exchanges in Aspergillus nidulans reveal the biosynthetic pathway for fellutamide B, a proteasome inhibitor
-
[43] Yeh, H.-H., Ahuja, M., Chiang, Y.-M., Oakley, C.E., Moore, S., Yoon, O., et al. Resistance gene-guided genome mining: serial promoter exchanges in Aspergillus nidulans reveal the biosynthetic pathway for fellutamide B, a proteasome inhibitor. ACS Chem Biol 11 (2016), 2275–2284, 10.1021/acschembio.6b00213.
-
(2016)
ACS Chem Biol
, vol.11
, pp. 2275-2284
-
-
Yeh, H.-H.1
Ahuja, M.2
Chiang, Y.-M.3
Oakley, C.E.4
Moore, S.5
Yoon, O.6
-
44
-
-
84952008952
-
Identification of thiotetronic acid antibiotic biosynthetic pathways by target-directed genome mining
-
[44] Tang, X., Li, J., Millán-Aguiñaga, N., Zhang, J.J., O'Neill, E.C., Ugalde, J.A., et al. Identification of thiotetronic acid antibiotic biosynthetic pathways by target-directed genome mining. ACS Chem Biol 10 (2015), 2841–2849, 10.1021/acschembio.5b00658.
-
(2015)
ACS Chem Biol
, vol.10
, pp. 2841-2849
-
-
Tang, X.1
Li, J.2
Millán-Aguiñaga, N.3
Zhang, J.J.4
O'Neill, E.C.5
Ugalde, J.A.6
-
45
-
-
84876566794
-
ClusterMine360: a database of microbial PKS/NRPS biosynthesis
-
[45] Conway, K.R., Boddy, C.N., ClusterMine360: a database of microbial PKS/NRPS biosynthesis. Nucleic Acids Res 41 (2013), 402–407, 10.1093/nar/gks993.
-
(2013)
Nucleic Acids Res
, vol.41
, pp. 402-407
-
-
Conway, K.R.1
Boddy, C.N.2
-
46
-
-
84939493603
-
IMG-ABC: a knowledge base to fuel discovery of biosynthetic gene clusters and novel secondary metabolites
-
e00932–15
-
[46] Hadjithomas, M., Chen, I.A., Chu, K., Ratner, A., Palaniappan, K., Szeto, E., et al. IMG-ABC: a knowledge base to fuel discovery of biosynthetic gene clusters and novel secondary metabolites. MBio, 6, 2015, 10.1128/mBio.00932-15 e00932–15.
-
(2015)
MBio
, vol.6
-
-
Hadjithomas, M.1
Chen, I.A.2
Chu, K.3
Ratner, A.4
Palaniappan, K.5
Szeto, E.6
-
47
-
-
84939557642
-
Minimum information about a biosynthetic gene cluster
-
[47] Medema, M.H., Kottmann, R., Yilmaz, P., Cummings, M., Biggins, J.B., Blin, K., et al. Minimum information about a biosynthetic gene cluster. Nat Chem Biol 11 (2015), 625–631, 10.1038/nchembio.1890.
-
(2015)
Nat Chem Biol
, vol.11
, pp. 625-631
-
-
Medema, M.H.1
Kottmann, R.2
Yilmaz, P.3
Cummings, M.4
Biggins, J.B.5
Blin, K.6
-
48
-
-
84960075421
-
Comprehensive curation and analysis of fungal biosynthetic gene clusters of published natural products
-
[48] Li, Y.F., Tsai, K.J.S., Harvey, C.J.B., Li, J.J., Ary, B.E., Berlew, E.E., et al. Comprehensive curation and analysis of fungal biosynthetic gene clusters of published natural products. Fungal Genet Biol 89 (2016), 18–28, 10.1016/j.fgb.2016.01.012.
-
(2016)
Fungal Genet Biol
, vol.89
, pp. 18-28
-
-
Li, Y.F.1
Tsai, K.J.S.2
Harvey, C.J.B.3
Li, J.J.4
Ary, B.E.5
Berlew, E.E.6
-
49
-
-
84896918327
-
Diversity and evolution of secondary metabolism in the marine actinomycete genus Salinispora
-
[49] Ziemert, N., Lechner, A., Wietz, M., Millán-Aguiñaga, N., Chavarria, K.L., Jensen, P.R., Diversity and evolution of secondary metabolism in the marine actinomycete genus Salinispora. Proc Natl Acad Sci U. S. A 111 (2014), E1130–E1139, 10.1073/pnas.1324161111.
-
(2014)
Proc Natl Acad Sci U. S. A
, vol.111
, pp. E1130-E1139
-
-
Ziemert, N.1
Lechner, A.2
Wietz, M.3
Millán-Aguiñaga, N.4
Chavarria, K.L.5
Jensen, P.R.6
-
50
-
-
84922466451
-
A roadmap for natural product discovery based on large-scale genomics and metabolomics
-
[50] Doroghazi, J.R., Albright, J.C., Goering, A.W., Ju, K.-S., Haines, R.R., Tchalukov, K.A., et al. A roadmap for natural product discovery based on large-scale genomics and metabolomics. Nat Chem Biol 10 (2014), 963–968, 10.1038/nchembio.1659.
-
(2014)
Nat Chem Biol
, vol.10
, pp. 963-968
-
-
Doroghazi, J.R.1
Albright, J.C.2
Goering, A.W.3
Ju, K.-S.4
Haines, R.R.5
Tchalukov, K.A.6
-
51
-
-
84873498227
-
Comparative genome structure, secondary metabolite, and effector Coding Capacity across Cochliobolus pathogens
-
[51] Condon, B.J., Leng, Y., Wu, D., Bushley, K.E., Ohm, R.A., Otillar, R., et al. Comparative genome structure, secondary metabolite, and effector Coding Capacity across Cochliobolus pathogens. PLoS Genet, 9, 2013, e1003233, 10.1371/journal.pgen.1003233.
-
(2013)
PLoS Genet
, vol.9
, pp. e1003233
-
-
Condon, B.J.1
Leng, Y.2
Wu, D.3
Bushley, K.E.4
Ohm, R.A.5
Otillar, R.6
-
52
-
-
84876692068
-
Comprehensive annotation of secondary metabolite biosynthetic genes and gene clusters of Aspergillus nidulans, A. fumigatus, A. niger and A. oryzae
-
[52] Inglis, D.O., Binkley, J., Skrzypek, M.S., Arnaud, M.B., Cerqueira, G.C., Shah, P., et al. Comprehensive annotation of secondary metabolite biosynthetic genes and gene clusters of Aspergillus nidulans, A. fumigatus, A. niger and A. oryzae. BMC Microbiol, 13, 2013, 91, 10.1186/1471-2180-13-91.
-
(2013)
BMC Microbiol
, vol.13
, pp. 91
-
-
Inglis, D.O.1
Binkley, J.2
Skrzypek, M.S.3
Arnaud, M.B.4
Cerqueira, G.C.5
Shah, P.6
-
53
-
-
84903470523
-
Atlas of nonribosomal peptide and polyketide biosynthetic pathways reveals common occurrence of nonmodular enzymes
-
[53] Wang, H., Fewer, D.P., Holm, L., Rouhiainen, L., Sivonen, K., Atlas of nonribosomal peptide and polyketide biosynthetic pathways reveals common occurrence of nonmodular enzymes. Proc Natl Acad Sci U. S. A 111 (2014), 9259–9264, 10.1073/pnas.1401734111.
-
(2014)
Proc Natl Acad Sci U. S. A
, vol.111
, pp. 9259-9264
-
-
Wang, H.1
Fewer, D.P.2
Holm, L.3
Rouhiainen, L.4
Sivonen, K.5
-
54
-
-
84923117708
-
Genome, transcriptome, and functional analyses of Penicillium expansum provide new insights into secondary metabolism and pathogenicity
-
[54] Ballester, A., Marcet-houben, M., Levin, E., Sela, N., Selma-lázaro, C., Carmona, L., et al. Genome, transcriptome, and functional analyses of Penicillium expansum provide new insights into secondary metabolism and pathogenicity. Mol Plant-Microbe Interact 28 (2015), 232–248, 10.1094/MPMI-09-14-0261-FI.
-
(2015)
Mol Plant-Microbe Interact
, vol.28
, pp. 232-248
-
-
Ballester, A.1
Marcet-houben, M.2
Levin, E.3
Sela, N.4
Selma-lázaro, C.5
Carmona, L.6
-
55
-
-
84883615133
-
Comparative genomics of actinomycetes with a focus on natural product biosynthetic genes
-
[55] Doroghazi, J.R., Metcalf, W.W., Comparative genomics of actinomycetes with a focus on natural product biosynthetic genes. BMC Genomics, 14, 2013, 611, 10.1186/1471-2164-14-611.
-
(2013)
BMC Genomics
, vol.14
, pp. 611
-
-
Doroghazi, J.R.1
Metcalf, W.W.2
-
56
-
-
84922424354
-
Strain-level diversity of secondary metabolism in Streptomyces albus
-
[56] Seipke, R.F., Strain-level diversity of secondary metabolism in Streptomyces albus. PLoS One, 10, 2015, e0116457, 10.1371/journal.pone.0116457.
-
(2015)
PLoS One
, vol.10
, pp. e0116457
-
-
Seipke, R.F.1
-
57
-
-
84942930937
-
Discovery of phosphonic acid natural products by mining the genomes of 10,000 actinomycetes
-
[57] Ju, K.S., Gao, J., Doroghazi, J.R., Wang, K.-K.A., Thibodeaux, C.J., Li, S., et al. Discovery of phosphonic acid natural products by mining the genomes of 10,000 actinomycetes. Proc Natl Acad Sci U. S. A 112 (2015), 12175–12180, 10.1073/pnas.1500873112.
-
(2015)
Proc Natl Acad Sci U. S. A
, vol.112
, pp. 12175-12180
-
-
Ju, K.S.1
Gao, J.2
Doroghazi, J.R.3
Wang, K.-K.A.4
Thibodeaux, C.J.5
Li, S.6
-
58
-
-
80054865417
-
A mass spectrometry-guided genome mining approach for natural product peptidogenomics
-
[58] Kersten, R.D., Yang, Y.-L., Xu, Y., Cimermancic, P., Nam, S.-J., Fenical, W., et al. A mass spectrometry-guided genome mining approach for natural product peptidogenomics. Nat Chem Biol 7 (2011), 794–802, 10.1038/nchembio.684.
-
(2011)
Nat Chem Biol
, vol.7
, pp. 794-802
-
-
Kersten, R.D.1
Yang, Y.-L.2
Xu, Y.3
Cimermancic, P.4
Nam, S.-J.5
Fenical, W.6
-
59
-
-
79959920872
-
AntiSMASH: rapid identification, annotation and analysis of secondary metabolite biosynthesis gene clusters in bacterial and fungal genome sequences
-
[59] Medema, M.H., Blin, K., Cimermancic, P., De Jager, V., Zakrzewski, P., Fischbach, M.A., et al. AntiSMASH: rapid identification, annotation and analysis of secondary metabolite biosynthesis gene clusters in bacterial and fungal genome sequences. Nucleic Acids Res 39 (2011), 339–346, 10.1093/nar/gkr466.
-
(2011)
Nucleic Acids Res
, vol.39
, pp. 339-346
-
-
Medema, M.H.1
Blin, K.2
Cimermancic, P.3
De Jager, V.4
Zakrzewski, P.5
Fischbach, M.A.6
-
60
-
-
67650898253
-
Automated genome mining for natural products
-
[60] Li, M.H., Ung, P.M., Zajkowski, J., Garneau-Tsodikova, S., Sherman, D.H., Automated genome mining for natural products. BMC Bioinforma, 2009, 10, 10.1186/1471-2105-10-185.
-
(2009)
BMC Bioinforma
, pp. 10
-
-
Li, M.H.1
Ung, P.M.2
Zajkowski, J.3
Garneau-Tsodikova, S.4
Sherman, D.H.5
-
61
-
-
84907584619
-
Pep2Path: automated mass spectrometry-guided genome mining of peptidic natural products
-
[61] Medema, M.H., Paalvast, Y., Nguyen, D.D., Melnik, A., Dorrestein, P.C., Takano, E., et al. Pep2Path: automated mass spectrometry-guided genome mining of peptidic natural products. PLoS Comput Biol, 10, 2014, e1003822, 10.1371/journal.pcbi.1003822.
-
(2014)
PLoS Comput Biol
, vol.10
, pp. e1003822
-
-
Medema, M.H.1
Paalvast, Y.2
Nguyen, D.D.3
Melnik, A.4
Dorrestein, P.C.5
Takano, E.6
-
62
-
-
84888095812
-
Glycogenomics as a mass spectrometry-guided genome-mining method for microbial glycosylated molecules
-
[62] Kersten, R.D., Ziemert, N., Gonzalez, D.J., Duggan, B.M., Nizet, V., Dorrestein, P.C., et al. Glycogenomics as a mass spectrometry-guided genome-mining method for microbial glycosylated molecules. Proc Natl Acad Sci U. S. A 110 (2013), E4407–E4416, 10.1073/pnas.1315492110.
-
(2013)
Proc Natl Acad Sci U. S. A
, vol.110
, pp. E4407-E4416
-
-
Kersten, R.D.1
Ziemert, N.2
Gonzalez, D.J.3
Duggan, B.M.4
Nizet, V.5
Dorrestein, P.C.6
-
63
-
-
84906678559
-
NRPquest: Coupling mass spectrometry and genome mining for nonribosomal peptide discovery
-
[63] Mohimani, H., Liu, W.-T., Kersten, R.D., Moore, B.S., Dorrestein, P.C., Pevzner, P.A., NRPquest: Coupling mass spectrometry and genome mining for nonribosomal peptide discovery. J Nat Prod 77 (2014), 1902–1909, 10.1021/np500370c.
-
(2014)
J Nat Prod
, vol.77
, pp. 1902-1909
-
-
Mohimani, H.1
Liu, W.-T.2
Kersten, R.D.3
Moore, B.S.4
Dorrestein, P.C.5
Pevzner, P.A.6
-
64
-
-
84904547209
-
Automated genome mining of ribosomal peptide natural products
-
[64] Mohimani, H., Kersten, R.D., Liu, W.-T., Wang, M., Purvine, S.O., Wu, S., et al. Automated genome mining of ribosomal peptide natural products. ACS Chem Biol 9 (2014), 1545–1551, 10.1021/cb500199h.
-
(2014)
ACS Chem Biol
, vol.9
, pp. 1545-1551
-
-
Mohimani, H.1
Kersten, R.D.2
Liu, W.-T.3
Wang, M.4
Purvine, S.O.5
Wu, S.6
-
65
-
-
84990060398
-
Polyketide and nonribosomal peptide retro-biosynthesis and global gene cluster matching
-
[65] Dejong, C.A., Chen, G.M., Li, H., Johnston, C.W., Edwards, M.R., Rees, P.N., et al. Polyketide and nonribosomal peptide retro-biosynthesis and global gene cluster matching. Nat Chem Biol 12 (2016), 1007–1014, 10.1038/nchembio.2188.
-
(2016)
Nat Chem Biol
, vol.12
, pp. 1007-1014
-
-
Dejong, C.A.1
Chen, G.M.2
Li, H.3
Johnston, C.W.4
Edwards, M.R.5
Rees, P.N.6
-
66
-
-
84891752209
-
MycoCosm portal: gearing up for 1000 fungal genomes
-
[66] Grigoriev, I.V., Nikitin, R., Haridas, S., Kuo, A., Ohm, R., Otillar, R., et al. MycoCosm portal: gearing up for 1000 fungal genomes. Nucleic Acids Res 42 (2014), D699–D704, 10.1093/nar/gkt1183.
-
(2014)
Nucleic Acids Res
, vol.42
, pp. D699-D704
-
-
Grigoriev, I.V.1
Nikitin, R.2
Haridas, S.3
Kuo, A.4
Ohm, R.5
Otillar, R.6
-
67
-
-
0037385718
-
Genome-scale microbial in silico models: the constraints-based approach
-
[67] Price, N.D., Papin, J.A., Schilling, C.H., Palsson, B.O., Genome-scale microbial in silico models: the constraints-based approach. Trends Biotechnol 21 (2003), 162–169, 10.1016/S0167-7799(03)00030-1.
-
(2003)
Trends Biotechnol
, vol.21
, pp. 162-169
-
-
Price, N.D.1
Papin, J.A.2
Schilling, C.H.3
Palsson, B.O.4
-
68
-
-
84875973063
-
The RAVEN toolbox and its use for generating a genome-scale metabolic model for Penicillium chrysogenum
-
[68] Agren, R., Liu, L., Shoaie, S., Vongsangnak, W., Nookaew, I., Nielsen, J., The RAVEN toolbox and its use for generating a genome-scale metabolic model for Penicillium chrysogenum. PLoS Comput Biol, 9, 2013, e1002980, 10.1371/journal.pcbi.1002980.
-
(2013)
PLoS Comput Biol
, vol.9
, pp. e1002980
-
-
Agren, R.1
Liu, L.2
Shoaie, S.3
Vongsangnak, W.4
Nookaew, I.5
Nielsen, J.6
-
69
-
-
84939999559
-
Current state of genome-scale modeling in filamentous fungi
-
[69] Brandl, J., Andersen, M.R., Current state of genome-scale modeling in filamentous fungi. Biotechnol Lett 37 (2015), 1131–1139, 10.1007/s10529-015-1782-8.
-
(2015)
Biotechnol Lett
, vol.37
, pp. 1131-1139
-
-
Brandl, J.1
Andersen, M.R.2
-
70
-
-
0035125986
-
In silico predictions of Escherichia coli metabolic capabilities are consistent with experimental data
-
[70] Edwards, J.S., Ibarra, R.U., Palsson, B.O., In silico predictions of Escherichia coli metabolic capabilities are consistent with experimental data. Nat Biotechnol 19 (2001), 125–130, 10.1038/84379.
-
(2001)
Nat Biotechnol
, vol.19
, pp. 125-130
-
-
Edwards, J.S.1
Ibarra, R.U.2
Palsson, B.O.3
-
71
-
-
70449592325
-
Enhancing sesquiterpene production in Saccharomyces cerevisiae through in silico driven metabolic engineering
-
[71] Asadollahi, M.A., Maury, J., Patil, K.R., Schalk, M., Clark, A., Nielsen, J., Enhancing sesquiterpene production in Saccharomyces cerevisiae through in silico driven metabolic engineering. Metab Eng 11 (2009), 328–334, 10.1016/j.ymben.2009.07.001.
-
(2009)
Metab Eng
, vol.11
, pp. 328-334
-
-
Asadollahi, M.A.1
Maury, J.2
Patil, K.R.3
Schalk, M.4
Clark, A.5
Nielsen, J.6
-
72
-
-
78049460641
-
Improved vanillin production in baker's yeast through in silico design
-
[72] Brochado, A.R., Matos, C., Møller, B.L., Hansen, J., Mortensen, U.H., Patil, K.R., Improved vanillin production in baker's yeast through in silico design. Microb Cell Fact, 2010, 9, 10.1186/1475-2859-9-84.
-
(2010)
Microb Cell Fact
, pp. 9
-
-
Brochado, A.R.1
Matos, C.2
Møller, B.L.3
Hansen, J.4
Mortensen, U.H.5
Patil, K.R.6
-
73
-
-
80052021573
-
Genome-scale metabolic network modeling results in minimal interventions that cooperatively force carbon flux towards malonyl-CoA
-
[73] Xu, P., Ranganathan, S., Fowler, Z.L., Maranas, C.D., Koffas, M.A.G., Genome-scale metabolic network modeling results in minimal interventions that cooperatively force carbon flux towards malonyl-CoA. Metab Eng 13 (2011), 578–587, 10.1016/j.ymben.2011.06.008.
-
(2011)
Metab Eng
, vol.13
, pp. 578-587
-
-
Xu, P.1
Ranganathan, S.2
Fowler, Z.L.3
Maranas, C.D.4
Koffas, M.A.G.5
-
74
-
-
84871335500
-
MultiMetEval: comparative and multi-objective analysis of genome-scale metabolic models
-
[74] Zakrzewski, P., Medema, M.H., Gevorgyan, A., Kierzek, A.M., Breitling, R., Takano, E., et al. MultiMetEval: comparative and multi-objective analysis of genome-scale metabolic models. PLoS One, 7, 2012, e51511, 10.1371/journal.pone.0051511.
-
(2012)
PLoS One
, vol.7
, pp. e51511
-
-
Zakrzewski, P.1
Medema, M.H.2
Gevorgyan, A.3
Kierzek, A.M.4
Breitling, R.5
Takano, E.6
-
75
-
-
20444397992
-
Genome-scale analysis of Streptomyces coelicolor A3(2) metabolism
-
[75] Borodina, I., Krabben, P., Nielsen, J., Genome-scale analysis of Streptomyces coelicolor A3(2) metabolism. Genome Res 3 (2005), 820–829, 10.1101/gr.3364705.
-
(2005)
Genome Res
, vol.3
, pp. 820-829
-
-
Borodina, I.1
Krabben, P.2
Nielsen, J.3
-
76
-
-
84906949001
-
Reconstruction of a high-quality metabolic model enables the identification of gene overexpression targets for enhanced antibiotic production in streptomyces coelicolor A3(2)
-
[76] Kim, M., Sang Yi, J., Kim, J., Kim, J.N., Kim, M.W., Kim, B.G., Reconstruction of a high-quality metabolic model enables the identification of gene overexpression targets for enhanced antibiotic production in streptomyces coelicolor A3(2). Biotechnol J 9 (2014), 1185–1194, 10.1002/biot.201300539.
-
(2014)
Biotechnol J
, vol.9
, pp. 1185-1194
-
-
Kim, M.1
Sang Yi, J.2
Kim, J.3
Kim, J.N.4
Kim, M.W.5
Kim, B.G.6
-
77
-
-
84955660244
-
Transcriptomics-based strain optimization tool for designing secondary metabolite overproducing strains of Streptomyces coelicolor
-
[77] Kim, M., Yi, J.S., Lakshmanan, M., Lee, D.Y., Kim, B.G., Transcriptomics-based strain optimization tool for designing secondary metabolite overproducing strains of Streptomyces coelicolor. Biotechnol Bioeng 113 (2016), 651–660, 10.1002/bit.25830.
-
(2016)
Biotechnol Bioeng
, vol.113
, pp. 651-660
-
-
Kim, M.1
Yi, J.S.2
Lakshmanan, M.3
Lee, D.Y.4
Kim, B.G.5
-
78
-
-
84867574100
-
Reconstruction of the Saccharopolyspora erythraea genome-scale model and its use for enhancing erythromycin production
-
[78] Licona-Cassani, C., Marcellin, E., Quek, L.E., Jacob, S., Nielsen, L.K., Reconstruction of the Saccharopolyspora erythraea genome-scale model and its use for enhancing erythromycin production. Ant Van Leeuwenhoek 102 (2012), 493–502, 10.1007/s10482-012-9783-2.
-
(2012)
Ant Van Leeuwenhoek
, vol.102
, pp. 493-502
-
-
Licona-Cassani, C.1
Marcellin, E.2
Quek, L.E.3
Jacob, S.4
Nielsen, L.K.5
-
79
-
-
84863440730
-
Genome-scale metabolic flux analysis of Streptomyces lividans growing on a complex medium
-
[79] D'Huys, P.J., Lule, I., Vercammen, D., Anné, J., Van Impe, J.F., Bernaerts, K., Genome-scale metabolic flux analysis of Streptomyces lividans growing on a complex medium. J Biotechnol 161 (2012), 1–13, 10.1016/j.jbiotec.2012.04.010.
-
(2012)
J Biotechnol
, vol.161
, pp. 1-13
-
-
D'Huys, P.J.1
Lule, I.2
Vercammen, D.3
Anné, J.4
Van Impe, J.F.5
Bernaerts, K.6
-
80
-
-
84878003979
-
Genome-scale metabolic network guided engineering of Streptomyces tsukubaensis for FK506 production improvement
-
[80] Huang, D., Li, S., Xia, M., Wen, J., Jia, X., Genome-scale metabolic network guided engineering of Streptomyces tsukubaensis for FK506 production improvement. Microb Cell Fact, 12, 2013, 52, 10.1186/1475-2859-12-52.
-
(2013)
Microb Cell Fact
, vol.12
, pp. 52
-
-
Huang, D.1
Li, S.2
Xia, M.3
Wen, J.4
Jia, X.5
-
81
-
-
57349128941
-
Systems analysis unfolds the relationship between the phosphoketolase pathway and growth in Aspergillus nidulans
-
[81] Panagiotou, G., Anderson, M.R., Grotkjær, T., Regueira, T.B., Hofmann, G., Nielsen, J., et al. Systems analysis unfolds the relationship between the phosphoketolase pathway and growth in Aspergillus nidulans. PLoS One, 3, 2008, e3847, 10.1371/journal.pone.0003847.
-
(2008)
PLoS One
, vol.3
, pp. e3847
-
-
Panagiotou, G.1
Anderson, M.R.2
Grotkjær, T.3
Regueira, T.B.4
Hofmann, G.5
Nielsen, J.6
-
82
-
-
63849107219
-
Studies of the production of fungal polyketides in Aspergillus nidulans by using systems biology tools
-
[82] Panagiotou, G., Andersen, M.R., Grotkjaer, T., Regueira, T.B., Nielsen, J., Olsson, L., Studies of the production of fungal polyketides in Aspergillus nidulans by using systems biology tools. Appl Environ Microbiol 75 (2009), 2212–2220, 10.1128/AEM.01461-08.
-
(2009)
Appl Environ Microbiol
, vol.75
, pp. 2212-2220
-
-
Panagiotou, G.1
Andersen, M.R.2
Grotkjaer, T.3
Regueira, T.B.4
Nielsen, J.5
Olsson, L.6
-
83
-
-
84920161779
-
Synthetic biology for engineering acetyl Coenzyme a metabolism in yeast
-
e02153–14
-
[83] Nielsen, J., Synthetic biology for engineering acetyl Coenzyme a metabolism in yeast. MBio, 5, 2014, 10.1128/mBio.02153-14 e02153–14.
-
(2014)
MBio
, vol.5
-
-
Nielsen, J.1
-
84
-
-
53649092922
-
Genome sequencing and analysis of the filamentous fungus Penicillium chrysogenum
-
[84] van den Berg, M.A., Albang, R., Albermann, K., Badger, J.H., Daran, J.-M., Driessen, A.J.M., et al. Genome sequencing and analysis of the filamentous fungus Penicillium chrysogenum. Nat Biotechnol 26 (2008), 1161–1168, 10.1038/nbt.1498.
-
(2008)
Nat Biotechnol
, vol.26
, pp. 1161-1168
-
-
van den Berg, M.A.1
Albang, R.2
Albermann, K.3
Badger, J.H.4
Daran, J.-M.5
Driessen, A.J.M.6
-
85
-
-
84884172916
-
Elementary flux modes in a nutshell: properties, calculation and applications
-
[85] Zanghellini, J., Ruckerbauer, D.E., Hanscho, M., Jungreuthmayer, C., Elementary flux modes in a nutshell: properties, calculation and applications. Biotechnol J 8 (2013), 1009–1016, 10.1002/biot.201200269.
-
(2013)
Biotechnol J
, vol.8
, pp. 1009-1016
-
-
Zanghellini, J.1
Ruckerbauer, D.E.2
Hanscho, M.3
Jungreuthmayer, C.4
-
86
-
-
84948089166
-
Computing the various pathways of penicillin synthesis and their molar yields
-
[86] Prauße, M.T.E., Schäuble, S., Guthke, R., Schuster, S., Computing the various pathways of penicillin synthesis and their molar yields. Biotechnol Bioeng 113 (2016), 173–181, 10.1002/bit.25694.
-
(2016)
Biotechnol Bioeng
, vol.113
, pp. 173-181
-
-
Prauße, M.T.E.1
Schäuble, S.2
Guthke, R.3
Schuster, S.4
-
87
-
-
84920194778
-
Microbial acetyl-CoA metabolism and metabolic engineering
-
[87] Krivoruchko, A., Zhang, Y., Siewers, V., Chen, Y., Nielsen, J., Microbial acetyl-CoA metabolism and metabolic engineering. Metab Eng 28 (2015), 28–42, 10.1016/j.ymben.2014.11.009.
-
(2015)
Metab Eng
, vol.28
, pp. 28-42
-
-
Krivoruchko, A.1
Zhang, Y.2
Siewers, V.3
Chen, Y.4
Nielsen, J.5
-
88
-
-
80052600481
-
Engineering strategy of yeast metabolism for higher alcohol production
-
[88] Matsuda, F., Furusawa, C., Kondo, T., Ishii, J., Shimizu, H., Kondo, A., Engineering strategy of yeast metabolism for higher alcohol production. Microb Cell Fact, 10, 2011, 70, 10.1186/1475-2859-10-70.
-
(2011)
Microb Cell Fact
, vol.10
, pp. 70
-
-
Matsuda, F.1
Furusawa, C.2
Kondo, T.3
Ishii, J.4
Shimizu, H.5
Kondo, A.6
-
89
-
-
84919797930
-
Production of natural products through metabolic engineering of Saccharomyces cerevisiae
-
[89] Krivoruchko, A., Nielsen, J., Production of natural products through metabolic engineering of Saccharomyces cerevisiae. Curr Opin Biotechnol 35 (2015), 7–15, 10.1016/j.copbio.2014.12.004.
-
(2015)
Curr Opin Biotechnol
, vol.35
, pp. 7-15
-
-
Krivoruchko, A.1
Nielsen, J.2
-
90
-
-
84963545878
-
Genomic mutational analysis of the impact of the classical strain improvement program on β-lactam producing Penicillium chrysogenum
-
[90] Salo, O.V., Ries, M., Medema, M.H., Lankhorst, P.P., Vreeken, R.J., Bovenberg, R.a.L., et al. Genomic mutational analysis of the impact of the classical strain improvement program on β-lactam producing Penicillium chrysogenum. BMC Genomics, 16, 2015, 937, 10.1186/s12864-015-2154-4.
-
(2015)
BMC Genomics
, vol.16
, pp. 937
-
-
Salo, O.V.1
Ries, M.2
Medema, M.H.3
Lankhorst, P.P.4
Vreeken, R.J.5
Bovenberg, R.A.L.6
-
91
-
-
77249153701
-
Genome-minimized Streptomyces host for the heterologous expression of secondary metabolism
-
[91] Komatsu, M., Uchiyama, T., Omura, S., Cane, D.E., Ikeda, H., Genome-minimized Streptomyces host for the heterologous expression of secondary metabolism. Proc Natl Acad Sci U. S. A 107 (2010), 2646–2651, 10.1073/pnas.0914833107.
-
(2010)
Proc Natl Acad Sci U. S. A
, vol.107
, pp. 2646-2651
-
-
Komatsu, M.1
Uchiyama, T.2
Omura, S.3
Cane, D.E.4
Ikeda, H.5
-
92
-
-
79951846247
-
Engineering Streptomyces coelicolor for heterologous expression of secondary metabolite gene clusters
-
[92] Gomez-Escribano, J.P., Bibb, M.J., Engineering Streptomyces coelicolor for heterologous expression of secondary metabolite gene clusters. Microb Biotechnol 4 (2011), 207–215, 10.1111/j.1751-7915.2010.00219.x.
-
(2011)
Microb Biotechnol
, vol.4
, pp. 207-215
-
-
Gomez-Escribano, J.P.1
Bibb, M.J.2
-
93
-
-
84905016966
-
Overproduction of fatty acids in engineered Saccharomyces cerevisiae
-
[93] Li, X., Guo, D., Cheng, Y., Zhu, F., Deng, Z., Liu, T., Overproduction of fatty acids in engineered Saccharomyces cerevisiae. Biotechnol Bioeng 111 (2014), 1841–1852, 10.1002/bit.25239.
-
(2014)
Biotechnol Bioeng
, vol.111
, pp. 1841-1852
-
-
Li, X.1
Guo, D.2
Cheng, Y.3
Zhu, F.4
Deng, Z.5
Liu, T.6
-
94
-
-
84884351687
-
Improving biobutanol production in engineered Saccharomyces cerevisiae by manipulation of acetyl-CoA metabolism
-
[94] Krivoruchko, A., Serrano-Amatriain, C., Chen, Y., Siewers, V., Nielsen, J., Improving biobutanol production in engineered Saccharomyces cerevisiae by manipulation of acetyl-CoA metabolism. J Ind Microbiol Biotechnol 40 (2013), 1051–1056, 10.1007/s10295-013-1296-0.
-
(2013)
J Ind Microbiol Biotechnol
, vol.40
, pp. 1051-1056
-
-
Krivoruchko, A.1
Serrano-Amatriain, C.2
Chen, Y.3
Siewers, V.4
Nielsen, J.5
-
95
-
-
84875279038
-
Establishing a platform cell factory through engineering of yeast acetyl-CoA metabolism
-
[95] Chen, Y., Daviet, L., Schalk, M., Siewers, V., Nielsen, J., Establishing a platform cell factory through engineering of yeast acetyl-CoA metabolism. Metab Eng 15 (2013), 48–54, 10.1016/j.ymben.2012.11.002.
-
(2013)
Metab Eng
, vol.15
, pp. 48-54
-
-
Chen, Y.1
Daviet, L.2
Schalk, M.3
Siewers, V.4
Nielsen, J.5
-
96
-
-
50249105159
-
Production of the polyketide 6-MSA in yeast engineered for increased malonyl-CoA supply
-
[96] Wattanachaisaereekul, S., Lantz, A.E., Nielsen, M.L., Nielsen, J., Production of the polyketide 6-MSA in yeast engineered for increased malonyl-CoA supply. Metab Eng 10 (2008), 246–254, 10.1016/j.ymben.2008.04.005.
-
(2008)
Metab Eng
, vol.10
, pp. 246-254
-
-
Wattanachaisaereekul, S.1
Lantz, A.E.2
Nielsen, M.L.3
Nielsen, J.4
-
97
-
-
0031905709
-
Production of a polyketide natural product in nonpolyketide-producing prokaryotic and eukaryotic hosts
-
[97] Kealey, J.T., Liu, L., Santi, D.V., Betlach, M.C., Barr, P.J., Production of a polyketide natural product in nonpolyketide-producing prokaryotic and eukaryotic hosts. Proc Natl Acad Sci U. S. A 95 (1998), 505–509, 10.1073/pnas.95.2.505.
-
(1998)
Proc Natl Acad Sci U. S. A
, vol.95
, pp. 505-509
-
-
Kealey, J.T.1
Liu, L.2
Santi, D.V.3
Betlach, M.C.4
Barr, P.J.5
-
98
-
-
84905818450
-
Improving polyketide and fatty acid synthesis by engineering of the yeast acetyl-CoA carboxylase
-
[98] Choi, J.W., Da Silva, N.A., Improving polyketide and fatty acid synthesis by engineering of the yeast acetyl-CoA carboxylase. J Biotechnol 187 (2014), 56–59, 10.1016/j.jbiotec.2014.07.430.
-
(2014)
J Biotechnol
, vol.187
, pp. 56-59
-
-
Choi, J.W.1
Da Silva, N.A.2
-
99
-
-
84961599119
-
Engineering cofactor and transport mechanisms in Saccharomyces cerevisiae for enhanced acetyl-CoA and polyketide biosynthesis
-
[99] Cardenas, J., Da Silva, N.A., Engineering cofactor and transport mechanisms in Saccharomyces cerevisiae for enhanced acetyl-CoA and polyketide biosynthesis. Metab Eng 36 (2016), 80–89, 10.1016/j.ymben.2016.02.009.
-
(2016)
Metab Eng
, vol.36
, pp. 80-89
-
-
Cardenas, J.1
Da Silva, N.A.2
-
100
-
-
84863615074
-
Synthetic Biology of secondary metabolite biosynthesis in actinomycetes: engineering precursor supply as a way to optimize antibiotic production
-
[100] Wohlleben, W., Mast, Y., Muth, G., Röttgen, M., Stegmann, E., Weber, T., Synthetic Biology of secondary metabolite biosynthesis in actinomycetes: engineering precursor supply as a way to optimize antibiotic production. FEBS Lett 586 (2012), 2171–2176, 10.1016/j.febslet.2012.04.025.
-
(2012)
FEBS Lett
, vol.586
, pp. 2171-2176
-
-
Wohlleben, W.1
Mast, Y.2
Muth, G.3
Röttgen, M.4
Stegmann, E.5
Weber, T.6
-
101
-
-
0029995755
-
δ-( L -α-Aminoadipyl)- L -cysteinyl- D -valine synthetase is a rate limiting enzyme for penicillin production in Aspergillus nidulans
-
[101] Kennedy, J., Turner, G., δ-( L -α-Aminoadipyl)- L -cysteinyl- D -valine synthetase is a rate limiting enzyme for penicillin production in Aspergillus nidulans. Mol Gen Genet MGG 253 (1996), 189–197, 10.1007/s004380050312.
-
(1996)
Mol Gen Genet MGG
, vol.253
, pp. 189-197
-
-
Kennedy, J.1
Turner, G.2
-
102
-
-
84878214376
-
An efficient system for heterologous expression of secondary metabolite genes in Aspergillus nidulans
-
[102] Chiang, Y.-M., Oakley, C.E., Ahuja, M., Entwistle, R., Schultz, A., Chang, S.-L., et al. An efficient system for heterologous expression of secondary metabolite genes in Aspergillus nidulans. J Am Chem Soc 135 (2013), 7720–7731, 10.1021/ja401945a.
-
(2013)
J Am Chem Soc
, vol.135
, pp. 7720-7731
-
-
Chiang, Y.-M.1
Oakley, C.E.2
Ahuja, M.3
Entwistle, R.4
Schultz, A.5
Chang, S.-L.6
-
103
-
-
20444502568
-
Secretion systems for secondary metabolites: how producer cells send out messages of intercellular communication
-
[103] Martín, J.F., Casqueiro, J., Liras, P., Secretion systems for secondary metabolites: how producer cells send out messages of intercellular communication. Curr Opin Microbiol 8 (2005), 282–293, 10.1016/j.mib.2005.04.009.
-
(2005)
Curr Opin Microbiol
, vol.8
, pp. 282-293
-
-
Martín, J.F.1
Casqueiro, J.2
Liras, P.3
-
104
-
-
73349096953
-
A key role for vesicles in fungal secondary metabolism
-
[104] Chanda, A., Roze, L.V., Kang, S., Artymovich, K.A., Hicks, G.R., Raikhel, N.V., et al. A key role for vesicles in fungal secondary metabolism. Proc Natl Acad Sci U. S. A 106 (2009), 19533–19538, 10.1073/pnas.0907416106.
-
(2009)
Proc Natl Acad Sci U. S. A
, vol.106
, pp. 19533-19538
-
-
Chanda, A.1
Roze, L.V.2
Kang, S.3
Artymovich, K.A.4
Hicks, G.R.5
Raikhel, N.V.6
-
105
-
-
84943273814
-
Heterologous expression of MlcE in Saccharomyces cerevisiae provides resistance to natural and semi-synthetic statins
-
[105] Ley, A., Coumou, H.C., Frandsen, R.J.N., Heterologous expression of MlcE in Saccharomyces cerevisiae provides resistance to natural and semi-synthetic statins. Metab Eng Commun 2 (2015), 117–123, 10.1016/j.meteno.2015.09.003.
-
(2015)
Metab Eng Commun
, vol.2
, pp. 117-123
-
-
Ley, A.1
Coumou, H.C.2
Frandsen, R.J.N.3
-
106
-
-
85014864418
-
BeReTa: a systematic method for identifying target transcriptional regulators to enhance microbial production of chemicals
-
[106] Kim, M., Sun, G., Lee, D.-Y., Kim, B.-G., BeReTa: a systematic method for identifying target transcriptional regulators to enhance microbial production of chemicals. Bioinformatics 33 (2016), 87–94, 10.1093/bioinformatics/btw557.
-
(2016)
Bioinformatics
, vol.33
, pp. 87-94
-
-
Kim, M.1
Sun, G.2
Lee, D.-Y.3
Kim, B.-G.4
-
107
-
-
33947308882
-
Genomics-driven discovery of PKS-NRPS hybrid metabolites from Aspergillus nidulans
-
[107] Bergmann, S., Schümann, J., Scherlach, K., Lange, C., Brakhage, A.A., Hertweck, C., Genomics-driven discovery of PKS-NRPS hybrid metabolites from Aspergillus nidulans. Nat Chem Biol 3 (2007), 213–217, 10.1038/nchembio869.
-
(2007)
Nat Chem Biol
, vol.3
, pp. 213-217
-
-
Bergmann, S.1
Schümann, J.2
Scherlach, K.3
Lange, C.4
Brakhage, A.A.5
Hertweck, C.6
-
108
-
-
70149109184
-
Intimate bacterial-fungal interaction triggers biosynthesis of archetypal polyketides in Aspergillus nidulans
-
[108] Schroeckh, V., Scherlach, K., Nützmann, H.-W., Shelest, E., Schmidt-Heck, W., Schuemann, J., et al. Intimate bacterial-fungal interaction triggers biosynthesis of archetypal polyketides in Aspergillus nidulans. Proc Natl Acad Sci U. S. A 106 (2009), 14558–14563, 10.1073/pnas.0901870106.
-
(2009)
Proc Natl Acad Sci U. S. A
, vol.106
, pp. 14558-14563
-
-
Schroeckh, V.1
Scherlach, K.2
Nützmann, H.-W.3
Shelest, E.4
Schmidt-Heck, W.5
Schuemann, J.6
-
109
-
-
84872353481
-
New strategies for drug discovery: activation of silent or weakly expressed microbial gene clusters
-
[109] Ochi, K., Hosaka, T., New strategies for drug discovery: activation of silent or weakly expressed microbial gene clusters. Appl Microbiol Biotechnol 97 (2013), 87–98, 10.1007/s00253-012-4551-9.
-
(2013)
Appl Microbiol Biotechnol
, vol.97
, pp. 87-98
-
-
Ochi, K.1
Hosaka, T.2
|