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Regulatory and metabolic rewiring during laboratory evolution of ethanol tolerance in E. coli.

Goodarzi H, Bennett BD, Amini S, Reaves ML, Hottes AK, Rabinowitz JD, Tavazoie S.

Mol Syst Biol. 2010 Jun 8;6:378. doi: 10.1038/msb.2010.33.


Transcriptome analysis of parallel-evolved Escherichia coli strains under ethanol stress.

Horinouchi T, Tamaoka K, Furusawa C, Ono N, Suzuki S, Hirasawa T, Yomo T, Shimizu H.

BMC Genomics. 2010 Oct 19;11:579. doi: 10.1186/1471-2164-11-579.


Adaptive evolution of Saccharomyces cerevisiae with enhanced ethanol tolerance for Chinese rice wine fermentation.

Chen S, Xu Y.

Appl Biochem Biotechnol. 2014 Aug;173(7):1940-54. doi: 10.1007/s12010-014-0978-z. Epub 2014 May 31.


Global metabolomic and network analysis of Escherichia coli responses to exogenous biofuels.

Wang J, Chen L, Tian X, Gao L, Niu X, Shi M, Zhang W.

J Proteome Res. 2013 Nov 1;12(11):5302-12. doi: 10.1021/pr400640u. Epub 2013 Sep 24.


Phenotypic convergence in bacterial adaptive evolution to ethanol stress.

Horinouchi T, Suzuki S, Hirasawa T, Ono N, Yomo T, Shimizu H, Furusawa C.

BMC Evol Biol. 2015 Sep 3;15:180. doi: 10.1186/s12862-015-0454-6.


Improving ethanol tolerance of Escherichia coli by rewiring its global regulator cAMP receptor protein (CRP).

Chong H, Huang L, Yeow J, Wang I, Zhang H, Song H, Jiang R.

PLoS One. 2013;8(2):e57628. doi: 10.1371/journal.pone.0057628. Epub 2013 Feb 28.


Adaptive evolution of nontransgenic Escherichia coli KC01 for improved ethanol tolerance and homoethanol fermentation from xylose.

Wang Y, Manow R, Finan C, Wang J, Garza E, Zhou S.

J Ind Microbiol Biotechnol. 2011 Sep;38(9):1371-7. doi: 10.1007/s10295-010-0920-5. Epub 2010 Dec 29.


Improved ethanol tolerance in Escherichia coli by changing the cellular fatty acids composition through genetic manipulation.

Luo LH, Seo PS, Seo JW, Heo SY, Kim DH, Kim CH.

Biotechnol Lett. 2009 Dec;31(12):1867-71. doi: 10.1007/s10529-009-0092-4. Epub 2009 Aug 15.


Genome-scale identification and characterization of ethanol tolerance genes in Escherichia coli.

Woodruff LB, Pandhal J, Ow SY, Karimpour-Fard A, Weiss SJ, Wright PC, Gill RT.

Metab Eng. 2013 Jan;15:124-33. doi: 10.1016/j.ymben.2012.10.007. Epub 2012 Nov 17.


Cumulative number of cell divisions as a meaningful timescale for adaptive laboratory evolution of Escherichia coli.

Lee DH, Feist AM, Barrett CL, Palsson BØ.

PLoS One. 2011;6(10):e26172. doi: 10.1371/journal.pone.0026172. Epub 2011 Oct 18.


Experimental Evolution of Escherichia coli Persister Levels Using Cyclic Antibiotic Treatments.

Van den Bergh B, Michiels JE, Michiels J.

Methods Mol Biol. 2016;1333:131-43. doi: 10.1007/978-1-4939-2854-5_12.


Systems biology. The scale of prediction.

Baliga NS.

Science. 2008 Jun 6;320(5881):1297-8. doi: 10.1126/science.1159485. No abstract available.


Metabolic engineering of Escherichia coli for efficient conversion of glycerol to ethanol.

Trinh CT, Srienc F.

Appl Environ Microbiol. 2009 Nov;75(21):6696-705. doi: 10.1128/AEM.00670-09. Epub 2009 Sep 4.


Predictive behavior within microbial genetic networks.

Tagkopoulos I, Liu YC, Tavazoie S.

Science. 2008 Jun 6;320(5881):1313-7. doi: 10.1126/science.1154456. Epub 2008 May 8.


Laboratory-evolved mutants of an exogenous global regulator, IrrE from Deinococcus radiodurans, enhance stress tolerances of Escherichia coli.

Chen T, Wang J, Yang R, Li J, Lin M, Lin Z.

PLoS One. 2011 Jan 18;6(1):e16228. doi: 10.1371/journal.pone.0016228.


Trade-Offs of Escherichia coli Adaptation to an Intracellular Lifestyle in Macrophages.

Azevedo M, Sousa A, Moura de Sousa J, Thompson JA, Proença JT, Gordo I.

PLoS One. 2016 Jan 11;11(1):e0146123. doi: 10.1371/journal.pone.0146123. eCollection 2016.


Significant rewiring of the transcriptome and proteome of an Escherichia coli strain harboring a tailored exogenous global regulator IrrE.

Chen T, Wang J, Zeng L, Li R, Li J, Chen Y, Lin Z.

PLoS One. 2012;7(7):e37126. doi: 10.1371/journal.pone.0037126. Epub 2012 Jul 5.


An integrative, multi-scale, genome-wide model reveals the phenotypic landscape of Escherichia coli.

Carrera J, Estrela R, Luo J, Rai N, Tsoukalas A, Tagkopoulos I.

Mol Syst Biol. 2014 Jul 1;10:735. doi: 10.15252/msb.20145108.


Adaptation to High Ethanol Reveals Complex Evolutionary Pathways.

Voordeckers K, Kominek J, Das A, Espinosa-Cantú A, De Maeyer D, Arslan A, Van Pee M, van der Zande E, Meert W, Yang Y, Zhu B, Marchal K, DeLuna A, Van Noort V, Jelier R, Verstrepen KJ.

PLoS Genet. 2015 Nov 6;11(11):e1005635. doi: 10.1371/journal.pgen.1005635. eCollection 2015 Nov.


Genetic determinants for n-butanol tolerance in evolved Escherichia coli mutants: cross adaptation and antagonistic pleiotropy between n-butanol and other stressors.

Reyes LH, Abdelaal AS, Kao KC.

Appl Environ Microbiol. 2013 Sep;79(17):5313-20. doi: 10.1128/AEM.01703-13. Epub 2013 Jun 28.

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