-
1
-
-
33645870422
-
Production of the antimalarial drug precursor artemisinic acid in engineered yeast
-
Ro, D.-K. et al. Production of the antimalarial drug precursor artemisinic acid in engineered yeast. Nature 440, 940-943 (2006).
-
(2006)
Nature
, vol.440
, pp. 940-943
-
-
Ro, D.-K.1
-
2
-
-
84855246842
-
Synthetic Escherichia coli consortia engineered for syntrophy demonstrate enhanced biomass productivity
-
Bernstein, H. C., Paulson, S. D., Carlson, R. P. Synthetic Escherichia coli consortia engineered for syntrophy demonstrate enhanced biomass productivity. J. Biotechnol. 157, 159-166 (2012).
-
(2012)
J. Biotechnol.
, vol.157
, pp. 159-166
-
-
Bernstein, H.C.1
Paulson, S.D.2
Carlson, R.P.3
-
3
-
-
49049105130
-
Engineering microbial consortia: A new frontier in synthetic biology
-
Brenner, K., You, L., Arnold, F. H. Engineering microbial consortia: a new frontier in synthetic biology. Trends Biotechnol. 26, 483-489 (2008).
-
(2008)
Trends Biotechnol.
, vol.26
, pp. 483-489
-
-
Brenner, K.1
You, L.2
Arnold, F.H.3
-
4
-
-
79953697356
-
Using artificial systems to explore the ecology and evolution of symbioses
-
Momeni, B., Chen, C.-C., Hillesland, K. L., Waite, A., Shou, W. Using artificial systems to explore the ecology and evolution of symbioses. Cell. Mol. Life Sci. 68, 1353-1368 (2011).
-
(2011)
Cell. Mol. Life Sci.
, vol.68
, pp. 1353-1368
-
-
Momeni, B.1
Chen, C.-C.2
Hillesland, K.L.3
Waite, A.4
Shou, W.5
-
5
-
-
77958571424
-
Biosystems analysis and engineering of microbial consortia for industrial biotechnology
-
Sabra, W., Dietz, D., Tjahjasari, D., Zeng, A.-P. Biosystems analysis and engineering of microbial consortia for industrial biotechnology. Eng. Life Sci. 10, 407-421 (2010).
-
(2010)
Eng. Life Sci.
, vol.10
, pp. 407-421
-
-
Sabra, W.1
Dietz, D.2
Tjahjasari, D.3
Zeng, A.-P.4
-
6
-
-
84894282258
-
A defined co-culture of Geobacter sulfurreducens and Escherichia coli in a membraneless microbial fuel cell
-
Bourdakos, N., Marsili, E., Mahadevan, R. A defined co-culture of Geobacter sulfurreducens and Escherichia coli in a membraneless microbial fuel cell. Biotechnol. Bioeng. 111, 709-781 (2014).
-
(2014)
Biotechnol. Bioeng.
, vol.111
, pp. 709-781
-
-
Bourdakos, N.1
Marsili, E.2
Mahadevan, R.3
-
7
-
-
84943199312
-
Biodegradation of diesel oil by a novel microbial consortium: Comparison between co-inoculation with biosurfactantproducing strain and exogenously added biosurfactants
-
Mnif, I. et al. Biodegradation of diesel oil by a novel microbial consortium: comparison between co-inoculation with biosurfactantproducing strain and exogenously added biosurfactants. Environ. Sci. Pollut. Res. Int. 22, 14852-14861 (2015).
-
(2015)
Environ. Sci. Pollut. Res. Int.
, vol.22
, pp. 14852-14861
-
-
Mnif, I.1
-
9
-
-
84918534542
-
Evolutionary limits to cooperation in microbial communities
-
Oliveira, N. M., Niehus, R., Foster, K. R. Evolutionary limits to cooperation in microbial communities. Pnas 111, 17941-17946 (2014).
-
(2014)
Pnas
, vol.111
, pp. 17941-17946
-
-
Oliveira, N.M.1
Niehus, R.2
Foster, K.R.3
-
10
-
-
77953618954
-
Metabolic modelling of syntrophic-like growth of a 1,3-propanediol producer, Clostridium butyricum, and a methanogenic archeon, Methanosarcina mazei, under anaerobic conditions
-
Bizukojc, M., Dietz, D., Sun, J., Zeng, A. P. Metabolic modelling of syntrophic-like growth of a 1,3-propanediol producer, Clostridium butyricum, and a methanogenic archeon, Methanosarcina mazei, under anaerobic conditions. Bioprocess Biosyst. Engin. 33, 507-523 (2010).
-
(2010)
Bioprocess Biosyst. Engin.
, vol.33
, pp. 507-523
-
-
Bizukojc, M.1
Dietz, D.2
Sun, J.3
Zeng, A.P.4
-
11
-
-
84899012698
-
D-OptCom: Dynamic multi-level and multi-objective metabolic modeling of microbial communities
-
Zomorrodi, A. R., Islam, M. M., Maranas, C. D. D-OptCom: dynamic multi-level and multi-objective metabolic modeling of microbial communities. ACS Synth. Biol. 3, 247-257 (2014).
-
(2014)
ACS Synth. Biol.
, vol.3
, pp. 247-257
-
-
Zomorrodi, A.R.1
Islam, M.M.2
Maranas, C.D.3
-
12
-
-
84861180223
-
OptCom: A multi-level optimization framework for the metabolic modeling and analysis of microbial communities
-
Zomorrodi, A. R., Maranas, C. D. OptCom: A multi-level optimization framework for the metabolic modeling and analysis of microbial communities. PLoS Computational Biology 8 (2012).
-
(2012)
PLoS Computational Biology
, vol.8
-
-
Zomorrodi, A.R.1
Maranas, C.D.2
-
13
-
-
84977163097
-
An algorithm for designing minimal microbial communities with desired metabolic capacities
-
Eng, A., Borenstein, E. An algorithm for designing minimal microbial communities with desired metabolic capacities. Bioinformatics (2016).
-
(2016)
Bioinformatics
-
-
Eng, A.1
Borenstein, E.2
-
14
-
-
38149070096
-
The complexity ecology of parameters: An illustration using bounded max leaf number
-
Springer
-
Fellows, M., Rosamond, F. The complexity ecology of parameters: an illustration using bounded max leaf number. In Computation And Logic In The Real World, 268-277 (Springer, 2007).
-
(2007)
Computation and Logic in the Real World
, pp. 268-277
-
-
Fellows, M.1
Rosamond, F.2
-
15
-
-
70349489116
-
The complexity ecology of parameters: An illustration using bounded max leaf number
-
Fellows, M. et al. The complexity ecology of parameters: An illustration using bounded max leaf number. Theory Comput. Syst. 45, 822-848 (2009).
-
(2009)
Theory Comput. Syst.
, vol.45
, pp. 822-848
-
-
Fellows, M.1
-
16
-
-
84924033499
-
Clingo = ASP + Control: Preliminary Report
-
Gebser, M., Kaminski, R., Kaufmann, B., Schaub, T. Clingo = ASP + Control: Preliminary Report. Technical Communications of the Thirtieth International Conference on Logic Programming (ICLP'14) 1-9 (2014).
-
(2014)
Technical Communications of the Thirtieth International Conference on Logic Programming (ICLP'14)
, pp. 1-9
-
-
Gebser, M.1
Kaminski, R.2
Kaufmann, B.3
Schaub, T.4
-
18
-
-
0033982936
-
KEGG: Kyoto encyclopaedia of genes and genomes
-
Kanehisa, M., Goto, S. KEGG: Kyoto Encyclopaedia of Genes and Genomes. Nucl. Acids Res. 28, 27-30 (2000).
-
(2000)
Nucl. Acids Res.
, vol.28
, pp. 27-30
-
-
Kanehisa, M.1
Goto, S.2
-
19
-
-
77954253893
-
MetExplore: A web server to link metabolomic experiments and genome-scale metabolic networks
-
Cottret, L. et al. MetExplore: a web server to link metabolomic experiments and genome-scale metabolic networks. Nucl. Acids Res. 38, W132-W137 (2010).
-
(2010)
Nucl. Acids Res.
, vol.38
, pp. W132-W137
-
-
Cottret, L.1
-
20
-
-
84958123243
-
Natural product discovery: Past, present, and future
-
Katz, L., Baltz, R. H. Natural product discovery: past, present, and future. J. Ind. Microbiol. Biotechnol. 43, 155-176 (2016).
-
(2016)
J. Ind. Microbiol. Biotechnol.
, vol.43
, pp. 155-176
-
-
Katz, L.1
Baltz, R.H.2
-
21
-
-
0036714783
-
Microbial cellulose utilization: Fundamentals and biotechnology
-
Lynd, L. R., Weimer, P. J., VanZyl, W. H., Pretorius, I. S. Microbial cellulose utilization: fundamentals and biotechnology. Microbiol. Mol. Biol. Rev. 66, 506-577 (2002).
-
(2002)
Microbiol. Mol. Biol. Rev.
, vol.66
, pp. 506-577
-
-
Lynd, L.R.1
Weimer, P.J.2
Vanzyl, W.H.3
Pretorius, I.S.4
-
22
-
-
84884275445
-
Non-streptomycete actinomycetes nourish the current microbial antibiotic drug discovery
-
Jose, P. A., Robinson, S., Jebakumar, D. Non-streptomycete actinomycetes nourish the current microbial antibiotic drug discovery. Front. Microbiol. 4, 2008-2010 (2013).
-
(2013)
Front. Microbiol.
, vol.4
, pp. 2008-2010
-
-
Jose, P.A.1
Robinson, S.2
Jebakumar, D.3
-
23
-
-
70349985735
-
Microbial production of 1,3-propanediol: Recent developments and emerging opportunities
-
Saxena, R., Anand, P., Saran, S., Isar, J. Microbial production of 1,3-propanediol: recent developments and emerging opportunities. Biotechnol. Adv. 27, 895-913 (2009).
-
(2009)
Biotechnol. Adv.
, vol.27
, pp. 895-913
-
-
Saxena, R.1
Anand, P.2
Saran, S.3
Isar, J.4
-
24
-
-
57349088282
-
Glycerol: A promising and abundant carbon source for industrial microbiology
-
Da Silva, G. P., Mack, M., Contiero, J. Glycerol: a promising and abundant carbon source for industrial microbiology. Biotechnol. Adv. 27, 30-39 (2009).
-
(2009)
Biotechnol. Adv.
, vol.27
, pp. 30-39
-
-
Da Silva, G.P.1
MacK, M.2
Contiero, J.3
-
25
-
-
84907029409
-
Improvement of 2,3-butanediol yield in Klebsiella pneumoniae by deletion of the pyruvate formatelyase gene
-
Jung, M.-Y. et al. Improvement of 2,3-butanediol yield in Klebsiella pneumoniae by deletion of the pyruvate formatelyase gene. Appl. Environ. Microbiol. 80, 6195-203 (2014).
-
(2014)
Appl. Environ. Microbiol.
, vol.80
, pp. 6195-6203
-
-
Jung, M.-Y.1
-
26
-
-
13844257280
-
Multiple growth inhibition of Klebsiella pneumoniae in 1,3-propanediol fermentation
-
Cheng, K.-k. K., Liu, H.-j. J., Liu, D.-h. H. Multiple growth inhibition of Klebsiella pneumoniae in 1,3-propanediol fermentation. Cell 27, 19-22 (2005).
-
(2005)
Cell
, vol.27
, pp. 19-22
-
-
Cheng, K.-K.K.1
Liu, H.-J.J.2
Liu, D.-H.H.3
-
27
-
-
0036268235
-
Characterization of the citrate/acetate antiporter CitW of Klebsiella pneumoniae
-
Kästner, C. N., Schneider, K., Dimroth, P., Pos, K. M. Characterization of the citrate/acetate antiporter CitW of Klebsiella pneumoniae. Arch. Microbiol. 177, 500-506 (2002).
-
(2002)
Arch. Microbiol.
, vol.177
, pp. 500-506
-
-
Kästner, C.N.1
Schneider, K.2
Dimroth, P.3
Pos, K.M.4
-
28
-
-
0018419825
-
Methanogens: Reevaluation of a unique biological group
-
Balch, W. E., Fox, G. E., Magrum, L. J., Woese, C. R., Wolfe, R. S. Methanogens: reevaluation of a unique biological group. Microbiol. Rev. 43, 260-296 (1979).
-
(1979)
Microbiol. Rev.
, vol.43
, pp. 260-296
-
-
Balch, W.E.1
Fox, G.E.2
Magrum, L.J.3
Woese, C.R.4
Wolfe, R.S.5
-
29
-
-
0028097631
-
Pyruvate-A novel substrate for growth and methane formation in Methanosarcina barkeri
-
Bock, A-K., Prieger-Kraft, A., Schönheit, P. Pyruvate-a novel substrate for growth and methane formation in Methanosarcina barkeri. Arch. Microbiol. 161, 33-46 (1994).
-
(1994)
Arch. Microbiol.
, vol.161
, pp. 33-46
-
-
Bock, A.-K.1
Prieger-Kraft, A.2
Schönheit, P.3
-
30
-
-
84888990232
-
Comparative genomics of transport proteins in developmental bacteria: Myxococcus xanthus and Streptomyces coelicolor
-
Getsin, I. et al. Comparative genomics of transport proteins in developmental bacteria: Myxococcus xanthus and Streptomyces coelicolor. BMC Microbiol. 13, 279 (2013).
-
(2013)
BMC Microbiol.
, vol.13
, pp. 279
-
-
Getsin, I.1
-
31
-
-
0035896645
-
Identification of the human mitochondrial oxodicarboxylate carrier. Bacterial expression, reconstitution, functional characterization, tissue distribution, and chromosomal location
-
Fiermonte, G. et al. Identification of the human mitochondrial oxodicarboxylate carrier. Bacterial expression, reconstitution, functional characterization, tissue distribution, and chromosomal location. J. Biol. Chem. 276, 8225-8230 (2001).
-
(2001)
J. Biol. Chem.
, vol.276
, pp. 8225-8230
-
-
Fiermonte, G.1
-
32
-
-
0035910408
-
Identification in Saccharomyces cerevisiae of two isoforms of a novel mitochondrial transporter for 2-oxoadipate and 2-oxoglutarate
-
Palmieri, L. et al. Identification in Saccharomyces cerevisiae of two isoforms of a novel mitochondrial transporter for 2-oxoadipate and 2-oxoglutarate. J. Biol. Chem. 276, 1916-1922 (2001).
-
(2001)
J. Biol. Chem.
, vol.276
, pp. 1916-1922
-
-
Palmieri, L.1
-
33
-
-
84978760261
-
Chapter 2. Regulation of bacterial antibiotic production
-
products of secondary metabolism VCH, Weinheim
-
Chater, K., Bibb, M. Chapter 2. Regulation of bacterial antibiotic production. In Biotechnology vol. 6: products of secondary metabolism. 57-105 (VCH, Weinheim, 1997).
-
(1997)
Biotechnology
, vol.6
, pp. 57-105
-
-
Chater, K.1
Bibb, M.2
-
34
-
-
0031855642
-
Investigation of the Streptomyces clavuligerus cephamycin C gene cluster and its regulation by the CcaR protein
-
Alexander, D. C., Jensen, S. E. Investigation of the Streptomyces clavuligerus cephamycin C gene cluster and its regulation by the CcaR protein. J. Bacteriol. 180, 4068-4079 (1998).
-
(1998)
J. Bacteriol.
, vol.180
, pp. 4068-4079
-
-
Alexander, D.C.1
Jensen, S.E.2
-
35
-
-
0037398367
-
The biosynthetic gene cluster for the beta-lactam carbapenem thienamycin in Streptomyces cattleya
-
Nuñez, L., Méndez, C., Branã, A., Blanco, G., Salas, J. A. The biosynthetic gene cluster for the beta-lactam carbapenem thienamycin in Streptomyces cattleya. Chem. Biol. 10, 301-311 (2003).
-
(2003)
Chem. Biol.
, vol.10
, pp. 301-311
-
-
Nuñez, L.1
Méndez, C.2
Branã, A.3
Blanco, G.4
Salas, J.A.5
-
36
-
-
0028852947
-
Enhanced biodegradation of aromatic pollutants in cocultures of anaerobic and aerobic bacterial consortia
-
Field, J. a., Stams, A. J. M., Kato, M., Schraa, G. Enhanced biodegradation of aromatic pollutants in cocultures of anaerobic and aerobic bacterial consortia. Antonie van Leeuwenhoek 67, 47-77 (1995).
-
(1995)
Antonie Van Leeuwenhoek
, vol.67
, pp. 47-77
-
-
Field, J.A.1
Stams, A.J.M.2
Kato, M.3
Schraa, G.4
-
37
-
-
84879812830
-
A functional approach to uncover the low-temperature adaptation strategies of the archaeon Methanosarcina barkeri
-
Gunnigle, E. et al. A functional approach to uncover the low-temperature adaptation strategies of the archaeon Methanosarcina barkeri. Appl. Environ. Microbiol. 79, 4210-4219 (2013).
-
(2013)
Appl. Environ. Microbiol.
, vol.79
, pp. 4210-4219
-
-
Gunnigle, E.1
-
38
-
-
80054973992
-
Development of a gene cloning system in a fast-growing and moderately thermophilic Streptomyces species and heterologous expression of Streptomyces antibiotic biosynthetic gene clusters
-
Chen, W., Qin, Z. Development of a gene cloning system in a fast-growing and moderately thermophilic Streptomyces species and heterologous expression of Streptomyces antibiotic biosynthetic gene clusters. BMC Microbiol. 11, 243 (2011).
-
(2011)
BMC Microbiol.
, vol.11
, pp. 243
-
-
Chen, W.1
Qin, Z.2
-
39
-
-
0025644348
-
Methanogenesis of glucose by defined thermophilic coculture of Clostridium thermoaceticum and Methanosarcina sp
-
Koesnandar, Nishio, N., Kuroda, K., Nagai, S. Methanogenesis of glucose by defined thermophilic coculture of Clostridium thermoaceticum and Methanosarcina sp. J. Ferment. Bioeng. 70, 398-403 (1990).
-
(1990)
J. Ferment. Bioeng.
, vol.70
, pp. 398-403
-
-
Koesnandar Nishio, N.1
Kuroda, K.2
Nagai, S.3
-
41
-
-
79961116083
-
A retrosynthetic biology approach to metabolic pathway design for therapeutic production
-
Carbonell, P., Planson, A.-G., Fichera, D., Faulon, J.-L. A retrosynthetic biology approach to metabolic pathway design for therapeutic production. BMC Syst. Biol. 5, 122 (2011).
-
(2011)
BMC Syst. Biol.
, vol.5
, pp. 122
-
-
Carbonell, P.1
Planson, A.-G.2
Fichera, D.3
Faulon, J.-L.4
-
42
-
-
77749320898
-
What is flux balance analysis
-
Orth, J. D., Thiele, I., Palsson, B. ∅. What is flux balance analysis? Nat. Biotechnol. 28, 245-248 (2010).
-
(2010)
Nat. Biotechnol.
, vol.28
, pp. 245-248
-
-
Orth, J.D.1
Thiele, I.2
Palsson, B.3
-
43
-
-
0037069467
-
Analysis of optimality in natural and perturbed metabolic networks
-
Segrè, D., Vitkup, D., Church, G. M. Analysis of optimality in natural and perturbed metabolic networks. Proc. Natl. Acad. Sci. USA 99, 15112-15117 (2002).
-
(2002)
Proc. Natl. Acad. Sci. USA
, vol.99
, pp. 15112-15117
-
-
Segrè, D.1
Vitkup, D.2
Church, G.M.3
-
44
-
-
84908326327
-
Bilevel optimization techniques in computational strain design
-
Chowdhury, A., Zomorrodi, A. R., Maranas, C. D. Bilevel optimization techniques in computational strain design. Comput. Chem. Eng. 72, 363-372 (2014).
-
(2014)
Comput. Chem. Eng.
, vol.72
, pp. 363-372
-
-
Chowdhury, A.1
Zomorrodi, A.R.2
Maranas, C.D.3
-
45
-
-
29544436058
-
An optimization framework for identifying reaction activation/inhibition or elimination candidates for overproduction in microbial systems
-
Pharkya, P., Maranas, C. D. An optimization framework for identifying reaction activation/inhibition or elimination candidates for overproduction in microbial systems. Metab. Eng. 8, 1-13 (2006).
-
(2006)
Metab. Eng.
, vol.8
, pp. 1-13
-
-
Pharkya, P.1
Maranas, C.D.2
-
46
-
-
77949495880
-
Predicting metabolic engineering knockout strategies for chemical production: Accounting for competing pathways
-
Tepper, N., Shlomi, T. Predicting metabolic engineering knockout strategies for chemical production: accounting for competing pathways. Bioinformatics 26, 536-543 (2009).
-
(2009)
Bioinformatics
, vol.26
, pp. 536-543
-
-
Tepper, N.1
Shlomi, T.2
-
47
-
-
84961286195
-
Predicting compositions of microbial communities from stoichiometric models with applications for the biogas process
-
Koch, S., Benndorf, D., Fronk, K., Reichl, U., Klamt, S. Predicting compositions of microbial communities from stoichiometric models with applications for the biogas process. Biotechnol Biofuels 9, 1-16 (2016).
-
(2016)
Biotechnol Biofuels
, vol.9
, pp. 1-16
-
-
Koch, S.1
Benndorf, D.2
Fronk, K.3
Reichl, U.4
Klamt, S.5
-
48
-
-
84904613895
-
Design of synthetic microbial communities for biotechnological production processes
-
Jagmann, N., Philipp, B. Design of synthetic microbial communities for biotechnological production processes. J. Biotechnol. 184, 209-218 (2014).
-
(2014)
J. Biotechnol.
, vol.184
, pp. 209-218
-
-
Jagmann, N.1
Philipp, B.2
-
49
-
-
33846936445
-
Synthetic cooperation in engineered yeast populations
-
Shou, W., Ram, S., Vilar, J. M. G. Synthetic cooperation in engineered yeast populations. Proc. Natl. Acad. Sci. USA 104, 1877-82 (2007).
-
(2007)
Proc. Natl. Acad. Sci. USA
, vol.104
, pp. 1877-1882
-
-
Shou, W.1
Ram, S.2
Vilar, J.M.G.3
-
50
-
-
79951938948
-
Cooperative adaptation to establishment of a synthetic bacterial mutualism
-
Hosoda, K. et al. Cooperative adaptation to establishment of a synthetic bacterial mutualism. PLoS One 6, 1-9 (2011).
-
(2011)
PLoS One
, vol.6
, pp. 1-9
-
-
Hosoda, K.1
|