TY - JOUR AU - Hahn-Hägerdal, B. AU - Galbe, M. AU - Gorwa-Grauslund, M. F. AU - Lidén, G. AU - Zacchi, G. PY - 2006 DA - 2006// TI - Bio-ethanol—the fuel of tomorrow from the residues of today JO - Trends Biotechnol VL - 24 UR - https://doi.org/10.1016/j.tibtech.2006.10.004 DO - 10.1016/j.tibtech.2006.10.004 ID - Hahn-Hägerdal2006 ER - TY - JOUR AU - Tilman, D. AU - Socolow, R. AU - Foley, J. A. AU - Hill, J. AU - Larson, E. AU - Lynd, L. AU - Pacala, S. AU - Reilly, J. AU - Searchinger, T. AU - Somerville, C. AU - Williams, R. PY - 2009 DA - 2009// TI - Beneficial biofuels-the food, energy, and environment trilemma JO - Science VL - 325 UR - https://doi.org/10.1126/science.1177970 DO - 10.1126/science.1177970 ID - Tilman2009 ER - TY - JOUR AU - Lynd, L. R. AU - Zyl, W. H. AU - McBride, J. E. AU - Laser, M. PY - 2005 DA - 2005// TI - Consolidated bioprocessing of cellulosic biomass: an update JO - Curr Opin Biotechnol VL - 16 UR - https://doi.org/10.1016/j.copbio.2005.08.009 DO - 10.1016/j.copbio.2005.08.009 ID - Lynd2005 ER - TY - JOUR AU - Somerville, C. AU - Youngs, H. AU - Taylor, C. AU - Davis, S. C. AU - Long, S. P. PY - 2008 DA - 2008// TI - Feedstocks for lignocellulosic biofuels JO - Science VL - 329 UR - https://doi.org/10.1126/science.1189268 DO - 10.1126/science.1189268 ID - Somerville2008 ER - TY - JOUR AU - Lu, Y. AU - Warner, R. AU - Sedlak, M. AU - Ho, N. AU - Mosier, N. S. PY - 2009 DA - 2009// TI - Comparison of glucose/xylose cofermentation of poplar hydrolysates processed by different pretreatment technologies JO - Biotechnol Prog VL - 25 UR - https://doi.org/10.1002/btpr.158 DO - 10.1002/btpr.158 ID - Lu2009 ER - TY - JOUR AU - Olsson, L. AU - Hähn-Hagerdal, B. PY - 1993 DA - 1993// TI - Fermentative performance of bacteria and yeasts in lignocellulose hydrolysates JO - Process Biochem VL - 28 UR - https://doi.org/10.1016/0032-9592(93)80041-E DO - 10.1016/0032-9592(93)80041-E ID - Olsson1993 ER - TY - JOUR AU - Klinke, H. B. AU - Thomsen, A. B. AU - Ahring, B. K. PY - 2004 DA - 2004// TI - Inhibition of ethanol-producing yeast and bacteria by degradation products produced during pre-treatment of biomass JO - Appl Microbiol Biotechnol VL - 66 UR - https://doi.org/10.1007/s00253-004-1642-2 DO - 10.1007/s00253-004-1642-2 ID - Klinke2004 ER - TY - JOUR AU - Almeida, J. R. M. AU - Modig, T. AU - Petersson, A. AU - Hahn-Hägerdal, B. AU - Lidén, G. AU - Gorwa-Grauslund, M. F. PY - 2007 DA - 2007// TI - Increased tolerance and conversion of inhibitors in lignocellulosic hydrolysates by Saccharomyces cerevisiae JO - J Chem Technol Biotechnol VL - 82 UR - https://doi.org/10.1002/jctb.1676 DO - 10.1002/jctb.1676 ID - Almeida2007 ER - TY - JOUR AU - Jonsson, L. J. AU - Alriksson, B. AU - Nilvebrant, N. O. PY - 2013 DA - 2013// TI - Bioconversion of lignocellulose: inhibitors and detoxification JO - Biotechnol Biofuels VL - 6 UR - https://doi.org/10.1186/1754-6834-6-16 DO - 10.1186/1754-6834-6-16 ID - Jonsson2013 ER - TY - JOUR AU - Palmqvist, E. AU - Hahn-Hägerdal, B. PY - 2000 DA - 2000// TI - Fermentation of lignocellulosic hydrolysates. II: inhibitors and mechanisms of inhibition JO - Bioresour Technol VL - 74 UR - https://doi.org/10.1016/S0960-8524(99)00161-3 DO - 10.1016/S0960-8524(99)00161-3 ID - Palmqvist2000 ER - TY - JOUR AU - Carroll, A. AU - Somerville, C. PY - 2009 DA - 2009// TI - Cellulosic biofuels JO - Annu Rev Plant Biol VL - 60 UR - https://doi.org/10.1146/annurev.arplant.043008.092125 DO - 10.1146/annurev.arplant.043008.092125 ID - Carroll2009 ER - TY - JOUR AU - Scheller, H. V. AU - Ulvskov, P. PY - 2010 DA - 2010// TI - Hemicelluloses JO - Annu Rev Plant Biol VL - 61 UR - https://doi.org/10.1146/annurev-arplant-042809-112315 DO - 10.1146/annurev-arplant-042809-112315 ID - Scheller2010 ER - TY - JOUR AU - Palmqvist, E. AU - Hahn-Hägerdal, B. PY - 2000 DA - 2000// TI - Fermentation of lignocellulosic hydrolysates. I: inhibition and detoxification JO - Bioresour Technol VL - 74 UR - https://doi.org/10.1016/S0960-8524(99)00160-1 DO - 10.1016/S0960-8524(99)00160-1 ID - Palmqvist2000 ER - TY - JOUR AU - García-Aparicio, M. P. AU - Ballesteros, I. AU - González, A. AU - Oliva, J. M. AU - Ballesteros, M. AU - Negro, M. J. PY - 2006 DA - 2006// TI - Effect of inhibitors released during steam-explosion pretreatment of barley straw on enzymatic hydrolysis JO - Appl Biochem Biotechnol VL - 278 ID - García-Aparicio2006 ER - TY - JOUR AU - Martin, C. AU - Alriksson, B. AU - Sjöde, A. AU - Nilvebrant, N. O. AU - Jönsson, L. J. PY - 2007 DA - 2007// TI - Dilute sulfuric acid pretreatment of agricultural and agro-industrial residues for ethanol production JO - Appl Biochem Biotechnol VL - 137 ID - Martin2007 ER - TY - JOUR AU - Schmidt, A. S. AU - Thomsen, A. B. PY - 1998 DA - 1998// TI - Optimization of wet oxidation pretreatment of wheat straw JO - Bioresour Technol VL - 64 UR - https://doi.org/10.1016/S0960-8524(97)00164-8 DO - 10.1016/S0960-8524(97)00164-8 ID - Schmidt1998 ER - TY - BOOK AU - Fang, Z. PY - 2013 DA - 2013// TI - Pretreatment techniques for biofuels and biorefineries PB - Springer CY - Berlin UR - https://doi.org/10.1007/978-3-642-32735-3 DO - 10.1007/978-3-642-32735-3 ID - Fang2013 ER - TY - JOUR AU - Tengborg, C. AU - Galbe, M. AU - Zacchi, G. PY - 2001 DA - 2001// TI - Reduced inhibition of enzymatic hydrolysis of steam-pretreated softwood JO - Enzyme Microb Technol VL - 28 UR - https://doi.org/10.1016/S0141-0229(01)00342-8 DO - 10.1016/S0141-0229(01)00342-8 ID - Tengborg2001 ER - TY - JOUR AU - Hong, K. K. AU - Nielsen, J. PY - 2012 DA - 2012// TI - Metabolic engineering of Saccharomyces cerevisiae: a key cell factory platform for future biorefineries JO - Cell Mol Life Sci VL - 69 UR - https://doi.org/10.1007/s00018-012-0945-1 DO - 10.1007/s00018-012-0945-1 ID - Hong2012 ER - TY - JOUR AU - Krivoruchko, A. AU - Siewers, V. AU - Nielsen, J. PY - 2011 DA - 2011// TI - Opportunities for yeast metabolic engineering: lessons from synthetic biology JO - Biotechnol J VL - 6 UR - https://doi.org/10.1002/biot.201000308 DO - 10.1002/biot.201000308 ID - Krivoruchko2011 ER - TY - JOUR AU - Pampulha, M. E. AU - Loureiro-Dias, M. C. PY - 1989 DA - 1989// TI - Combined effect of acetic acid, pH and ethanol on intracellular pH of fermenting yeast JO - Appl Microbiol Biotechnol VL - 31 UR - https://doi.org/10.1007/BF00270792 DO - 10.1007/BF00270792 ID - Pampulha1989 ER - TY - JOUR AU - Piper, P. AU - Calderon, C. O. AU - Hatzixanthis, K. AU - Mollapour, M. PY - 2001 DA - 2001// TI - Weak acid adaptation: the stress response that confers yeasts with resistance to organic acid food preservatives JO - Microbiology VL - 147 UR - https://doi.org/10.1099/00221287-147-10-2635 DO - 10.1099/00221287-147-10-2635 ID - Piper2001 ER - TY - JOUR AU - Verduyn, C. AU - Postma, E. AU - Scheffers, W. A. AU - Dijken, J. P. PY - 1992 DA - 1992// TI - Effect of benzoic acid on metabolic fluxes in yeasts: a continuous-culture study on the regulation of respiration and alcoholic fermentation JO - Yeast VL - 8 UR - https://doi.org/10.1002/yea.320080703 DO - 10.1002/yea.320080703 ID - Verduyn1992 ER - TY - JOUR AU - Eraso, P. AU - Gancedo, C. PY - 1987 DA - 1987// TI - Activation of yeast plasma membrane ATPase by acid pH during growth JO - FEBS Lett VL - 224 UR - https://doi.org/10.1016/0014-5793(87)80445-3 DO - 10.1016/0014-5793(87)80445-3 ID - Eraso1987 ER - TY - JOUR AU - Russell, J. B. PY - 1992 DA - 1992// TI - Another explanation for the toxicity of fermentation acids at low pH—anion accumulation versus uncoupling JO - J Appl Bacteriol VL - 73 UR - https://doi.org/10.1111/j.1365-2672.1992.tb04990.x DO - 10.1111/j.1365-2672.1992.tb04990.x ID - Russell1992 ER - TY - JOUR AU - Casal, M. AU - Cardoso, H. AU - Leao, C. PY - 1996 DA - 1996// TI - Mechanisms regulating the transport of acetic acid in Saccharomyces cerevisiae JO - Microbiology VL - 142 UR - https://doi.org/10.1099/13500872-142-6-1385 DO - 10.1099/13500872-142-6-1385 ID - Casal1996 ER - TY - JOUR AU - Modig, T. AU - Liden, G. AU - Taherzadeh, M. J. PY - 2002 DA - 2002// TI - Inhibition effects of furfural on alcohol dehydrogenase, aldehyde dehydrogenase and pyruvate dehydrogenase JO - Biochem J VL - 363 UR - https://doi.org/10.1042/bj3630769 DO - 10.1042/bj3630769 ID - Modig2002 ER - TY - JOUR AU - Palmqvist, E. AU - Almeida, J. S. AU - Hahn-Hägerdal, B. PY - 1999 DA - 1999// TI - Influence of furfural on anaerobic glycolytic kinetics of Saccharomyces cerevisiae in batch culture JO - Biotechnol Bioeng VL - 62 UR - https://doi.org/3.0.CO;2-0 DO - 3.0.CO;2-0 ID - Palmqvist1999 ER - TY - JOUR AU - Taherzadeh, M. J. AU - Gustafsson, L. AU - Niklasson, C. AU - Liden, G. PY - 2000 DA - 2000// TI - Physiological effects of 5-hydroxymethylfurfural on Saccharomyces cerevisiae JO - Appl Microbiol Biotechnol VL - 53 UR - https://doi.org/10.1007/s002530000328 DO - 10.1007/s002530000328 ID - Taherzadeh2000 ER - TY - JOUR AU - Horvath, I. S. AU - Franzen, C. J. AU - Taherzadeh, M. J. AU - Niklasson, C. AU - Lidén, G. PY - 2003 DA - 2003// TI - Effects of furfural on the respiratory metabolism of Saccharomyces cerevisiae in glucose-limited chemostats JO - Appl Environ Microbiol VL - 69 UR - https://doi.org/10.1128/AEM.69.7.4076-4086.2003 DO - 10.1128/AEM.69.7.4076-4086.2003 ID - Horvath2003 ER - TY - JOUR AU - Taherzadeh, M. J. AU - Gustafsson, L. AU - Niklasson, C. AU - Lidén, G. PY - 1999 DA - 1999// TI - Conversion of furfural in aerobic and anaerobic batch fermentation of glucose by Saccharomyces cerevisiae JO - J Biosci Bioeng VL - 87 UR - https://doi.org/10.1016/S1389-1723(99)89007-0 DO - 10.1016/S1389-1723(99)89007-0 ID - Taherzadeh1999 ER - TY - JOUR AU - Diaz De Villegas, M. E. AU - Villa, P. AU - Guerra, M. AU - Rodriguez, E. AU - Redondo, D. AU - Martinez, A. PY - 1992 DA - 1992// TI - Conversion of furfural into furfuryl alcohol by Saccharomyces cervisiae 354 JO - Acta Biotechnol VL - 12 UR - https://doi.org/10.1002/abio.370120420 DO - 10.1002/abio.370120420 ID - Diaz De Villegas1992 ER - TY - JOUR AU - Mussatto, S. I. AU - Roberto, I. C. PY - 2004 DA - 2004// TI - Alternatives for detoxification of diluted-acid lignocellulosic hydrolyzates for use in fermentative processes: a review JO - Bioresour Technol VL - 93 UR - https://doi.org/10.1016/j.biortech.2003.10.005 DO - 10.1016/j.biortech.2003.10.005 ID - Mussatto2004 ER - TY - JOUR AU - Ling, H. AU - Teo, W. AU - Chen, B. AU - Leong, S. S. J. AU - Chang, M. W. PY - 2014 DA - 2014// TI - Microbial tolerance engineering toward biochemical production: from lignocellulose to products JO - Curr Opin Biotechnol VL - 29 UR - https://doi.org/10.1016/j.copbio.2014.03.005 DO - 10.1016/j.copbio.2014.03.005 ID - Ling2014 ER - TY - JOUR AU - Petersson, A. AU - Almeida, J. R. M. AU - Modig, T. AU - Karhumaa, K. AU - Hahn-Hägerdal, B. AU - Gorwa-Grauslund, M. F. AU - Lidén, G. PY - 2006 DA - 2006// TI - A 5-hydroxymethyl furfural reducing enzyme encoded by the Saccharomyces cerevisiaeADH6 gene conveys HMF tolerance JO - Yeast VL - 23 UR - https://doi.org/10.1002/yea.1370 DO - 10.1002/yea.1370 ID - Petersson2006 ER - TY - JOUR AU - Liu, Z. L. AU - Moon, J. PY - 2009 DA - 2009// TI - A novel NADPH-dependent aldehyde reductase gene from Saccharomyces cerevisiae NRRL Y-12632 involved in the detoxification of aldehyde inhibitors derived from lignocellulosic biomass conversion JO - Gene VL - 446 UR - https://doi.org/10.1016/j.gene.2009.06.018 DO - 10.1016/j.gene.2009.06.018 ID - Liu2009 ER - TY - JOUR AU - Kim, S. K. AU - Jin, Y. S. AU - Choi, I. G. AU - Park, Y. C. AU - Seo, J. H. PY - 2015 DA - 2015// TI - Enhanced tolerance of Saccharomyces cerevisiae to multiple lignocellulose-derived inhibitors through modulation of spermidine contents JO - Metab Eng VL - 29 UR - https://doi.org/10.1016/j.ymben.2015.02.004 DO - 10.1016/j.ymben.2015.02.004 ID - Kim2015 ER - TY - JOUR AU - Gorsich, S. W. AU - Dien, B. S. AU - Nichols, N. N. AU - Slininger, P. J. AU - Liu, Z. L. AU - Skory, C. D. PY - 2006 DA - 2006// TI - Tolerance to furfural-induced stress is associated with pentose phosphate pathway genes ZWF1, GND1, RPE1, and TKL1 in Saccharomyces cerevisiae JO - Appl Microbiol Biotechnol VL - 71 UR - https://doi.org/10.1007/s00253-005-0142-3 DO - 10.1007/s00253-005-0142-3 ID - Gorsich2006 ER - TY - JOUR AU - Hasunuma, T. AU - Ismail, K. S. K. AU - Nambu, Y. AU - Kondo, A. PY - 2014 DA - 2014// TI - Co-expression of TAL1 and ADH1 in recombinant xylose-fermenting Saccharomyces cerevisiae improves ethanol production from lignocellulosic hydrolysates in the presence of furfural JO - J Biosci Bioeng VL - 117 UR - https://doi.org/10.1016/j.jbiosc.2013.07.007 DO - 10.1016/j.jbiosc.2013.07.007 ID - Hasunuma2014 ER - TY - JOUR AU - Kim, S. R. AU - Skerker, J. M. AU - Kang, W. AU - Lesmana, A. L. AU - Wei, N. AU - Arkin, A. P. AU - Jin, Y. S. PY - 2013 DA - 2013// TI - Rational and evolutionary engineering approaches uncover a small set of genetic changes efficient for rapid xylose fermentation in Saccharomyces cerevisiae JO - PLoS One VL - 8 UR - https://doi.org/10.1371/journal.pone.0057048 DO - 10.1371/journal.pone.0057048 ID - Kim2013 ER - TY - JOUR AU - Santos, S. AU - Sá-Correia, I. PY - 2009 DA - 2009// TI - Genome-wide identification of genes required for yeast growth under imatinib stress: vacuolar H+-ATPase function is an important target of this anticancer drug JO - OMICS VL - 13 UR - https://doi.org/10.1089/omi.2008.0086 DO - 10.1089/omi.2008.0086 ID - Santos2009 ER - TY - JOUR AU - Mira, N. P. AU - Palma, M. AU - Guerreiro, J. F. AU - Sá-Correia, I. PY - 2010 DA - 2010// TI - Genome-wide identification of Saccharomyces cerevisiae genes required for tolerance to acetic acid JO - Microb Cell Fact VL - 9 UR - https://doi.org/10.1186/1475-2859-9-79 DO - 10.1186/1475-2859-9-79 ID - Mira2010 ER - TY - JOUR AU - Mira, N. P. AU - Teixeira, M. C. AU - Sá-Correia, I. PY - 2010 DA - 2010// TI - Adaptive response and tolerance to weak acids in Saccharomyces cerevisiae: a genome-wide view JO - OMICS VL - 14 UR - https://doi.org/10.1089/omi.2010.0072 DO - 10.1089/omi.2010.0072 ID - Mira2010 ER - TY - JOUR AU - Fernandes, A. R. AU - Mira, N. P. AU - Vargas, R. C. AU - Canelhas, I. AU - Sá-Correia, I. PY - 2005 DA - 2005// TI - Saccharomyces cerevisiae adaptation to weak acids involves the transcription factor Haa1p and Haa1p-regulated genes JO - Biochem Biophys Res Commun VL - 337 UR - https://doi.org/10.1016/j.bbrc.2005.09.010 DO - 10.1016/j.bbrc.2005.09.010 ID - Fernandes2005 ER - TY - JOUR AU - Tanaka, K. AU - Ishii, Y. AU - Ogawa, J. AU - Shima, J. PY - 2012 DA - 2012// TI - Enhancement of acetic acid tolerance in Saccharomyces cerevisiae by overexpression of the HAA1 gene, encoding a transcriptional activator JO - Appl Environ Microbiol VL - 78 UR - https://doi.org/10.1128/AEM.02356-12 DO - 10.1128/AEM.02356-12 ID - Tanaka2012 ER - TY - JOUR AU - Sasano, Y. AU - Watanabe, D. AU - Ukibe, K. AU - Inai, T. AU - Ohtsu, I. AU - Shimoi, H. AU - Takagi, H. PY - 2012 DA - 2012// TI - Overexpression of the yeast transcription activator Msn2 confers furfural resistance and increases the initial fermentation rate in ethanol production JO - J Biosci Bioeng VL - 113 UR - https://doi.org/10.1016/j.jbiosc.2011.11.017 DO - 10.1016/j.jbiosc.2011.11.017 ID - Sasano2012 ER - TY - JOUR AU - Ma, C. AU - Wei, X. AU - Sun, C. AU - Zhang, F. AU - Xu, J. AU - Zhao, X. AU - Bai, F. PY - 2015 DA - 2015// TI - Improvement of acetic acid tolerance of Saccharomyces cerevisiae using a zinc-finger-based artificial transcription factor and identification of novel genes involved in acetic acid tolerance JO - Appl Microbiol Biotechnol VL - 99 UR - https://doi.org/10.1007/s00253-014-6343-x DO - 10.1007/s00253-014-6343-x ID - Ma2015 ER - TY - JOUR AU - Kim, D. AU - Hahn, J. -. S. PY - 2013 DA - 2013// TI - Roles of the Yap1 transcription factor and antioxidants in Saccharomyces cerevisiae’s tolerance to furfural and 5-hydroxymethylfurfural, which function as thiol-reactive electrophiles generating oxidative stress JO - Appl Environ Microbiol VL - 79 UR - https://doi.org/10.1128/AEM.00643-13 DO - 10.1128/AEM.00643-13 ID - Kim2013 ER - TY - JOUR AU - Smith, J. AU - Rensburg, E. AU - Görgens, J. F. PY - 2014 DA - 2014// TI - Simultaneously improving xylose fermentation and tolerance to lignocellulosic inhibitors through evolutionary engineering of recombinant Saccharomyces cerevisiae harbouring xylose isomerase JO - BMC Biotechnol VL - 14 UR - https://doi.org/10.1186/1472-6750-14-41 DO - 10.1186/1472-6750-14-41 ID - Smith2014 ER - TY - JOUR AU - Pereira, S. R. AU - Nogué, V. S. I. AU - Frazão, C. J. R. AU - Serafim, L. S. AU - Gorwa-Grauslund, M. F. AU - Xavier, A. PY - 2015 DA - 2015// TI - Adaptation of Scheffersomyces stipitis to hardwood spent sulfite liquor by evolutionary engineering JO - Biotechnol Biofuels VL - 8 UR - https://doi.org/10.1186/s13068-015-0234-y DO - 10.1186/s13068-015-0234-y ID - Pereira2015 ER - TY - JOUR AU - Almario, M. P. AU - Reyes, L. H. AU - Kao, K. C. PY - 2013 DA - 2013// TI - Evolutionary engineering of Saccharomyces cerevisiae for enhanced tolerance to hydrolysates of lignocellulosic biomass JO - Biotechnol Bioeng VL - 110 UR - https://doi.org/10.1002/bit.24938 DO - 10.1002/bit.24938 ID - Almario2013 ER - TY - JOUR AU - Bajwa, P. K. AU - Ho, C. Y. AU - Chan, C. K. AU - Martin, V. J. J. AU - Trevors, J. T. AU - Lee, H. PY - 2013 DA - 2013// TI - Transcriptional profiling of Saccharomyces cerevisiae T2 cells upon exposure to hardwood spent sulphite liquor: comparison to acetic acid, furfural and hydroxymethylfurfural JO - Anton Leeuw Int J G VL - 103 UR - https://doi.org/10.1007/s10482-013-9909-1 DO - 10.1007/s10482-013-9909-1 ID - Bajwa2013 ER - TY - JOUR AU - Lin, F. M. AU - Qiao, B. AU - Yuan, Y. J. PY - 2009 DA - 2009// TI - Comparative proteomic analysis of tolerance and adaptation of ethanologenic Saccharomyces cerevisiae to furfural, a lignocellulosic inhibitory compound JO - Appl Environ Microbiol VL - 75 UR - https://doi.org/10.1128/AEM.02594-08 DO - 10.1128/AEM.02594-08 ID - Lin2009 ER - TY - JOUR AU - Lv, Y. J. AU - Wang, X. AU - Ma, Q. AU - Bai, X. AU - Li, B. Z. AU - Zhang, W. AU - Yuan, Y. J. PY - 2014 DA - 2014// TI - Proteomic analysis reveals complex metabolic regulation in Saccharomyces cerevisiae cells against multiple inhibitors stress JO - Appl Microbiol Biotechnol VL - 98 UR - https://doi.org/10.1007/s00253-014-5519-8 DO - 10.1007/s00253-014-5519-8 ID - Lv2014 ER - TY - JOUR AU - Pereira, F. B. AU - Teixeira, M. C. AU - Mira, N. P. AU - Sá-Correia, I. AU - Domingues, L. PY - 2014 DA - 2014// TI - Genome-wide screening of Saccharomyces cerevisiae genes required to foster tolerance towards industrial wheat straw hydrolysates JO - J Ind Microbiol Biotechnol VL - 41 UR - https://doi.org/10.1007/s10295-014-1519-z DO - 10.1007/s10295-014-1519-z ID - Pereira2014 ER - TY - JOUR AU - Cunha, J. T. AU - Aguiar, T. Q. AU - Romani, A. AU - Oliveira, C. AU - Domingues, L. PY - 2015 DA - 2015// TI - Contribution of PRS3, RPB4 and ZWF1 to the resistance of industrial Saccharomyces cerevisiae CCUG53310 and PE-2 strains to lignocellulosic hydrolysate-derived inhibitors JO - Bioresour Technol VL - 191 UR - https://doi.org/10.1016/j.biortech.2015.05.006 DO - 10.1016/j.biortech.2015.05.006 ID - Cunha2015 ER - TY - STD TI - Chen Y, Stabryla L, Wei N. Improved acetic acid resistance in Saccharomyces cerevisiae by overexpression of the WHI2 gene identified through inverse metabolic engineering. Appl Environ Microbiol. 2016 (In press). ID - ref57 ER - TY - STD TI - Aronesty E. ea-utils: Command-line tools for processing biological sequencing data. http://code.google.com/p/ea-utils. 2011. Accessed 1 Dec 2014. UR - http://code.google.com/p/ea-utils ID - ref58 ER - TY - JOUR AU - Kong, Y. PY - 2011 DA - 2011// TI - Btrim: a fast, lightweight adapter and quality trimming program for next-generation sequencing technologies JO - Genomics VL - 98 UR - https://doi.org/10.1016/j.ygeno.2011.05.009 DO - 10.1016/j.ygeno.2011.05.009 ID - Kong2011 ER - TY - JOUR AU - Langmead, B. AU - Salzberg, S. PY - 2012 DA - 2012// TI - Fast gapped-read alignment with Bowtie 2 JO - Nat Methods VL - 9 UR - https://doi.org/10.1038/nmeth.1923 DO - 10.1038/nmeth.1923 ID - Langmead2012 ER - TY - JOUR AU - Anders, S. AU - Pyl, P. T. AU - Huber, W. PY - 2015 DA - 2015// TI - HTSeq–a Python framework to work with high-throughput sequencing data JO - Bioinformatics VL - 31 UR - https://doi.org/10.1093/bioinformatics/btu638 DO - 10.1093/bioinformatics/btu638 ID - Anders2015 ER - TY - JOUR AU - Love, M. AU - Huber, W. AU - Anders, S. PY - 2014 DA - 2014// TI - Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2 JO - Genome Biol VL - 15 UR - https://doi.org/10.1186/s13059-014-0550-8 DO - 10.1186/s13059-014-0550-8 ID - Love2014 ER - TY - JOUR AU - Feng, X. AU - Zhao, H. PY - 2013 DA - 2013// TI - Investigating host dependence of xylose utilization in recombinant Saccharomyces cerevisiae strains using RNA-seq analysis JO - Biotechnol Biofuels VL - 6 UR - https://doi.org/10.1186/1754-6834-6-96 DO - 10.1186/1754-6834-6-96 ID - Feng2013 ER - TY - JOUR AU - Saul, D. J. AU - Walton, E. F. AU - Sudbery, P. E. AU - Carter, B. L. A. PY - 1985 DA - 1985// TI - Saccharomyces cerevisiae whi2 mutants in stationary phase retain the properties of exponentially growing cells JO - J Gen Microbiol VL - 131 ID - Saul1985 ER - TY - JOUR AU - Sudbery, P. E. AU - Goodey, A. R. AU - Carter, B. L. A. PY - 1980 DA - 1980// TI - Genes which control cell-proliferation in the yeast Saccharomyces cerevisiae JO - Nature VL - 288 UR - https://doi.org/10.1038/288401a0 DO - 10.1038/288401a0 ID - Sudbery1980 ER - TY - JOUR AU - Li, B. Z. AU - Yuan, Y. J. PY - 2010 DA - 2010// TI - Transcriptome shifts in response to furfural and acetic acid in Saccharomyces cerevisiae JO - Appl Microbiol Biotechnol VL - 86 UR - https://doi.org/10.1007/s00253-010-2518-2 DO - 10.1007/s00253-010-2518-2 ID - Li2010 ER - TY - JOUR AU - Kaida, D. AU - Yashiroda, H. AU - Toh-e, A. AU - Kikuchi, Y. PY - 2002 DA - 2002// TI - Yeast Whi2 and Psr1-phosphatase form a complex and regulate STRE-mediated gene expression JO - Genes Cells VL - 7 UR - https://doi.org/10.1046/j.1365-2443.2002.00538.x DO - 10.1046/j.1365-2443.2002.00538.x ID - Kaida2002 ER - TY - JOUR AU - Yu, H. AU - Braun, P. AU - Yildirim, M. A. AU - Lemmens, I. AU - Venkatesan, K. AU - Sahalie, J. AU - Hirozane-Kishikawa, T. AU - Gebreab, F. AU - Li, N. AU - Simonis, N. AU - Hao, T. AU - Rual, J. F. AU - Dricot, A. AU - Vazquez, A. AU - Murray, R. R. AU - Simon, C. AU - Tardivo, L. AU - Tam, S. AU - Svrzikapa, N. AU - Fan, C. AU - Smet, A. S. AU - Motyl, A. AU - Hudson, M. E. AU - Park, J. AU - Xin, X. AU - Cusick, M. E. AU - Moore, T. AU - Boone, C. AU - Snyder, M. AU - Roth, F. P. AU - Barabási, A. L. AU - Tavernier, J. AU - Hill, D. E. AU - Vidal, M. PY - 2008 DA - 2008// TI - High-quality binary protein interaction map of the yeast interactome network JO - Science VL - 322 UR - https://doi.org/10.1126/science.1158684 DO - 10.1126/science.1158684 ID - Yu2008 ER - TY - JOUR AU - King, L. AU - Butler, G. PY - 1998 DA - 1998// TI - Ace2p, a regulator of (chitinase) expression, affects pseudohyphal production in Saccharomyces cerevisiae JO - Curr Genet VL - 34 UR - https://doi.org/10.1007/s002940050384 DO - 10.1007/s002940050384 ID - King1998 ER - TY - JOUR AU - Marion, R. M. AU - Regev, A. AU - Segal, E. AU - Barash, Y. AU - Koller, D. AU - Friedman, N. AU - O’Shea, E. K. PY - 2004 DA - 2004// TI - Sfp1 is a stress- and nutrient-sensitive regulator of ribosomal protein gene expression JO - Proc Natl Acad Sci USA VL - 101 UR - https://doi.org/10.1073/pnas.0405353101 DO - 10.1073/pnas.0405353101 ID - Marion2004 ER - TY - JOUR AU - Bähler, J. PY - 2005 DA - 2005// TI - Cell-cycle control of gene expression in budding and fission yeast JO - Annu Rev Genet VL - 39 UR - https://doi.org/10.1146/annurev.genet.39.110304.095808 DO - 10.1146/annurev.genet.39.110304.095808 ID - Bähler2005 ER - TY - JOUR AU - Ask, M. AU - Bettiga, M. AU - Duraiswamy, V. R. AU - Olsson, L. PY - 2013 DA - 2013// TI - Pulsed addition of HMF and furfural to batch-grown xylose-utilizing Saccharomyces cerevisiae results in different physiological responses in glucose and xylose consumption phase JO - Biotechnol Biofuels VL - 6 UR - https://doi.org/10.1186/1754-6834-6-181 DO - 10.1186/1754-6834-6-181 ID - Ask2013 ER - TY - JOUR AU - Wallace-Salinas, V. AU - Signori, L. AU - Li, Y. Y. AU - Ask, M. AU - Bettiga, M. AU - Porro, D. AU - Thevelein, J. M. AU - Branduardi, P. AU - Foulquié-Moreno, M. R. AU - Gorwa-Grauslund, M. PY - 2014 DA - 2014// TI - Re-assessment of YAP1 and MCR1 contributions to inhibitor tolerance in robust engineered Saccharomyces cerevisiae fermenting undetoxified lignocellulosic hydrolysate JO - Amb Express VL - 4 UR - https://doi.org/10.1186/s13568-014-0056-5 DO - 10.1186/s13568-014-0056-5 ID - Wallace-Salinas2014 ER - TY - JOUR AU - Salusjärvi, L. AU - Kankainen, M. AU - Soliymani, R. AU - Pitkänen, J. P. AU - Penttilä, M. AU - Ruohonen, L. PY - 2008 DA - 2008// TI - Regulation of xylose metabolism in recombinant Saccharomyces cerevisiae JO - Microb Cell Fact VL - 7 UR - https://doi.org/10.1186/1475-2859-7-18 DO - 10.1186/1475-2859-7-18 ID - Salusjärvi2008 ER - TY - JOUR AU - Matsushika, A. AU - Goshima, T. AU - Hoshino, T. PY - 2014 DA - 2014// TI - Transcription analysis of recombinant industrial and laboratory Saccharomyces cerevisiae strains reveals the molecular basis for fermentation of glucose and xylose JO - Microb Cell Fact VL - 13 UR - https://doi.org/10.1186/1475-2859-13-16 DO - 10.1186/1475-2859-13-16 ID - Matsushika2014 ER - TY - JOUR AU - Mumberg, D. AU - Müller, R. AU - Funk, M. PY - 1995 DA - 1995// TI - Yeast vectors for the controlled expression of heterologous proteins in different genetic backgrounds JO - Gene VL - 156 UR - https://doi.org/10.1016/0378-1119(95)00037-7 DO - 10.1016/0378-1119(95)00037-7 ID - Mumberg1995 ER - TY - JOUR AU - Nikawa, J. I. AU - Tsukagoshi, Y. AU - Yamashita, S. PY - 1991 DA - 1991// TI - Isolation and characterization of two distinct myo-inositol transporter genes of Saccharomyces cerevisiae JO - J Biol Chem VL - 266 ID - Nikawa1991 ER -