Yeast metabolic engineering for hemicellulosic ethanol production

Towards industrial pentose-fermenting yeast strains

Hahn‐Hägerdal, B., Karhumaa, K., Fonseca, C., Spencer‐Martins, I., & Gorwa‐Grauslund, M. F. (2007) · Applied Microbiology and Biotechnology · doi:10.1007/s00253-006-0827-2 · Cited by 784

Genome sequence of the lignocellulose-bioconverting and xylose-fermenting yeast Pichia stipitis

Jeffries, T. W., Grigoriev, I. V., Grimwood, J., Laplaza, J. M., Aerts, A. L., Salamov, A. A., Schmutz, J., Lindquist, E., Dehal, P., Shapiro, H., et al. (2007) · Nature Biotechnology · doi:10.1038/nbt1290 · Cited by 492

Comparison of the xylose reductase-xylitol dehydrogenase and the xylose isomerase pathways for xylose fermentation by recombinant Saccharomyces cerevisiae

Karhumaa, K., Sánchez, R. G., Hahn‐Hägerdal, B., & Gorwa‐Grauslund, M. F. (2007) · Microbial Cell Factories · doi:10.1186/1475-2859-6-5 · Cited by 292

Metabolic Engineering for Pentose Utilization in Saccharomyces cerevisiae

Hahn‐Hägerdal, B., Karhumaa, K., Jeppsson, M., & Gorwa‐Grauslund, M. F. (2007) · Springer eBooks · doi:10.1007/10_2007_062 · Cited by 280

Rapid whole-genome mutational profiling using next-generation sequencing technologiesPreprint

Smith, D. R., Quinlan, A. R., Peckham, H. E., Makowsky, K., Tao, W., Woolf, B., Shen, L., Donahue, W. F., Tusneem, N. A., Strömberg, M. P., et al. (2008) · Genome Research · doi:10.1101/gr.077776.108 · Cited by 260

Novel Evolutionary Engineering Approach for Accelerated Utilization of Glucose, Xylose, and Arabinose Mixtures by Engineered Saccharomyces cerevisiae Strains

Wisselink, H. W., Toirkens, M. J., Wu, Q., Pronk, J. T., & van Maris, A. J. A. (2009) · Applied and Environmental Microbiology · doi:10.1128/aem.02268-08 · Cited by 247

Development of Efficient Xylose Fermentation in Saccharomyces cerevisiae: Xylose Isomerase as a Key Component

van Maris, A. J. A., Winkler, A. A., Kuyper, M., de Laat, W. T. A. M., van Dijken, J. P., & Pronk, J. T. (2007) · Advances in biochemical engineering, biotechnology · doi:10.1007/10_2007_057 · Cited by 245

Xylose transport studies with xylose-utilizing Saccharomyces cerevisiae strains expressing heterologous and homologous permeases

Saloheimo, A., Rauta, J., Stasyk, O. V., Sibirny, A. А., Penttilä, M. E., & Ruohonen, L. (2006) · Applied Microbiology and Biotechnology · doi:10.1007/s00253-006-0747-1 · Cited by 210

Complete Reversal of Coenzyme Specificity of Xylitol Dehydrogenase and Increase of Thermostability by the Introduction of Structural Zinc

Watanabe, S., Kodaki, T., & Makino, K. (2004) · Journal of Biological Chemistry · doi:10.1074/jbc.m409443200 · Cited by 195

Ethanol production from xylose by recombinant Saccharomyces cerevisiae expressing protein-engineered NADH-preferring xylose reductase from Pichia stipitis

Watanabe, S., Saleh, A. A., Pack, S. P., Annaluru, N., Kodaki, T., & Makino, K. (2007) · Microbiology · doi:10.1099/mic.0.2007/007856-0 · Cited by 189

Xylose isomerase from polycentric fungus Orpinomyces: gene sequencing, cloning, and expression in Saccharomyces cerevisiae for bioconversion of xylose to ethanol

Madhavan, A., Tamalampudi, S., Ushida, K., Kanai, D., Katahira, S., Srivastava, A., Fukuda, H., Bisaria, V. S., & Kondo, A. (2008) · Applied Microbiology and Biotechnology · doi:10.1007/s00253-008-1794-6 · Cited by 180

Two glucose/xylose transporter genes from the yeast Candida intermedia: first molecular characterization of a yeast xylose–H+ symporter

Leandro, M. J., Gonçalves, P. M., & Spencer‐Martins, I. (2006) · Biochemical Journal · doi:10.1042/bj20051465 · Cited by 168

High activity of xylose reductase and xylitol dehydrogenase improves xylose fermentation by recombinant Saccharomyces cerevisiae

Karhumaa, K., Fromanger, R., Hahn‐Hägerdal, B., & Gorwa‐Grauslund, M. F. (2006) · Applied Microbiology and Biotechnology · doi:10.1007/s00253-006-0575-3 · Cited by 151

Altering the coenzyme preference of xylose reductase to favor utilization of NADH enhances ethanol yield from xylose in a metabolically engineered strain of Saccharomyces cerevisiae

Petschacher, B., & Nidetzky, B. (2008) · Microbial Cell Factories · doi:10.1186/1475-2859-7-9 · Cited by 146

Expression of a heterologous xylose transporter in a Saccharomyces cerevisiae strain engineered to utilize xylose improves aerobic xylose consumption

Hector, R. E., Qureshi, N., Hughes, S. R., & Cotta, M. A. (2008) · Applied Microbiology and Biotechnology · doi:10.1007/s00253-008-1583-2 · Cited by 136

Characterisation of glucose transport inSaccharomyces cerevisiaewith plasma membrane vesicles (countertransport) and intact cells (initial uptake) with single Hxt1, Hxt2, Hxt3, Hxt4, Hxt6, Hxt7 or Gal2 transporters

Maier, A., Völker, B., Boles, E., & Fuhrmann, G. F. (2002) · FEMS Yeast Research · doi:10.1111/j.1567-1364.2002.tb00121.x · Cited by 136

Bioethanol production performance of five recombinant strains of laboratory and industrial xylose-fermenting Saccharomyces cerevisiae

Matsushika, A., Inoue, H., Murakami, K., Takimura, O., & Sawayama, S. (2009) · Bioresource Technology · doi:10.1016/j.biortech.2008.11.047 · Cited by 131

Improvement of ethanol productivity during xylose and glucose co-fermentation by xylose-assimilating S. cerevisiae via expression of glucose transporter Sut1

Katahira, S., Ito, M., Takema, H., Fujita, Y., Tanino, T., Tanaka, T., Fukuda, H., & Kondo, A. (2008) · Enzyme and Microbial Technology · doi:10.1016/j.enzmictec.2008.03.001 · Cited by 130

The coenzyme specificity of Candida tenuis xylose reductase (AKR2B5) explored by site-directed mutagenesis and X-ray crystallography

Petschacher, B., Leitgeb, S., Kavanagh, K. L., Wilson, D. K., & Nidetzky, B. (2004) · Biochemical Journal · doi:10.1042/bj20040363 · Cited by 123

Expression of the Gxf1 transporter from Candida intermedia improves fermentation performance in recombinant xylose-utilizing Saccharomyces cerevisiae

Runquist, D., Fonseca, C., Rådström, P., Spencer‐Martins, I., & Hahn‐Hägerdal, B. (2008) · Applied Microbiology and Biotechnology · doi:10.1007/s00253-008-1773-y · Cited by 123

Genome‐scale analysis of Saccharomyces cerevisiae metabolism and ethanol production in fed‐batch culture

Hjersted, J. L., Henson, M. A., & Mahadevan, R. (2007) · Biotechnology and Bioengineering · doi:10.1002/bit.21332 · Cited by 122

Ethanol production from xylose by recombinant Saccharomyces cerevisiae expressing protein engineered NADP+-dependent xylitol dehydrogenase

Watanabe, S., Saleh, A. A., Pack, S. P., Annaluru, N., Kodaki, T., & Makino, K. (2007) · Journal of Biotechnology · doi:10.1016/j.jbiotec.2007.04.019 · Cited by 115

Expression of protein engineered NADP+-dependent xylitol dehydrogenase increases ethanol production from xylose in recombinant Saccharomyces cerevisiae

Matsushika, A., Watanabe, S., Kodaki, T., Makino, K., Inoue, H., Murakami, K., Takimura, O., & Sawayama, S. (2008) · Applied Microbiology and Biotechnology · doi:10.1007/s00253-008-1649-1 · Cited by 114

Regulation of xylose metabolism in recombinant Saccharomyces cerevisiae

Salusjärvi, L., Kankainen, M., Soliymani, R., Pitkänen, J., Penttilä, M. E., & Ruohonen, L. (2008) · Microbial Cell Factories · doi:10.1186/1475-2859-7-18 · Cited by 109

Bioethanol production from xylose by recombinant Saccharomyces cerevisiae expressing xylose reductase, NADP+-dependent xylitol dehydrogenase, and xylulokinase

Matsushika, A., Watanabe, S., Kodaki, T., Makino, K., & Sawayama, S. (2008) · Journal of Bioscience and Bioengineering · doi:10.1263/jbb.105.296 · Cited by 104

Deleting the para-nitrophenyl phosphatase (pNPPase), PHO13, in recombinant Saccharomyces cerevisiae improves growth and ethanol production on d-xylose

Vleet, J. R. H. V., Jeffries, T. W., & Olsson, L. (2008) · Metabolic Engineering · doi:10.1016/j.ymben.2007.12.002 · Cited by 98

Production of ethanol from corn stover hemicellulose hydrolyzate using Pichia stipitis

Agbogbo, F. K., & Wenger, K. S. (2007) · Journal of Industrial Microbiology & Biotechnology · doi:10.1007/s10295-007-0247-z · Cited by 90

Alcoholic fermentation of xylose and mixed sugars using recombinant Saccharomyces cerevisiae engineered for xylose utilization

Madhavan, A., Tamalampudi, S., Srivastava, A., Fukuda, H., Bisaria, V. S., & Kondo, A. (2009) · Applied Microbiology and Biotechnology · doi:10.1007/s00253-008-1818-2 · Cited by 87

Transposon Mutagenesis To Improve the Growth of Recombinant Saccharomyces cerevisiae on d -Xylose

Ni, H., Laplaza, J. M., & Jeffries, T. W. (2007) · Applied and Environmental Microbiology · doi:10.1128/aem.02564-06 · Cited by 84

Modeling simultaneous glucose and xylose uptake in Saccharomyces cerevisiae from kinetics and gene expression of sugar transporters

Bertilsson, M., Andersson, J., & Lidén, G. (2007) · Bioprocess and Biosystems Engineering · doi:10.1007/s00449-007-0169-1 · Cited by 82

Comparing the xylose reductase/xylitol dehydrogenase and xylose isomerase pathways in arabinose and xylose fermenting Saccharomyces cerevisiae strains

Bettiga, M., Hahn‐Hägerdal, B., & Gorwa‐Grauslund, M. F. (2008) · Biotechnology for Biofuels · doi:10.1186/1754-6834-1-16 · Cited by 80

Altering coenzyme specificity of Pichia stipitis xylose reductase by the semi-rational approach CASTing

Liang, L., Zhang, J., & Lin, Z. (2007) · Microbial Cell Factories · doi:10.1186/1475-2859-6-36 · Cited by 77

Eukaryotic and Bacterial Gene Clusters Related to an Alternative Pathway of Nonphosphorylated L-Rhamnose Metabolism

Watanabe, S., Saimura, M., & Makino, K. (2008) · Journal of Biological Chemistry · doi:10.1074/jbc.m801065200 · Cited by 75

Efficient bioethanol production from xylose by recombinant saccharomyces cerevisiae requires high activity of xylose reductase and moderate xylulokinase activity

Matsushika, A., & Sawayama, S. (2008) · Journal of Bioscience and Bioengineering · doi:10.1263/jbb.106.306 · Cited by 72

Pichia stipitis xylose reductase helps detoxifying lignocellulosic hydrolysate by reducing 5-hydroxymethyl-furfural (HMF)

de Almeida, J. R. M., Modig, T., Röder, A., Lidén, G., & Gorwa‐Grauslund, M. F. (2008) · Biotechnology for Biofuels · doi:10.1186/1754-6834-1-12 · Cited by 72

Overexpression of pyruvate decarboxylase in the yeastHansenula polymorpharesults in increased ethanol yield in high-temperature fermentation of xylose

Ishchuk, O. P., Voronovsky, A. Y., Stasyk, O. V., Gayda, G. Z., Gonchar, M. V., Abbas, C. A., & Sibirny, A. А. (2008) · FEMS Yeast Research · doi:10.1111/j.1567-1364.2008.00429.x · Cited by 69

Overexpression of bacterial xylose isomerase and yeast host xylulokinase improves xylose alcoholic fermentation in the thermotolerant yeastHansenula polymorpha

Dmytruk, O. V., Voronovsky, A. Y., Abbas, C. A., Dmytruk, K. V., Ishchuk, O. P., & Sibirny, A. А. (2007) · FEMS Yeast Research · doi:10.1111/j.1567-1364.2007.00289.x · Cited by 58

Insights from modeling the 3D structure of NAD(P)H-dependent d-xylose reductase of Pichia stipitis and its binding interactions with NAD and NADP

Wang, J., Wei, D., Lin, Y. C., Wang, Y., Du, H., Li, Y.-X., & Chou, K. (2007) · Biochemical and Biophysical Research Communications · doi:10.1016/j.bbrc.2007.05.101 · Cited by 55

Engineering of xylose reductase and overexpression of xylitol dehydrogenase and xylulokinase improves xylose alcoholic fermentation in the thermotolerant yeast Hansenula polymorpha

Dmytruk, O. V., Dmytruk, K. V., Abbas, C. A., Voronovsky, A. Y., & Sibirny, A. А. (2008) · Microbial Cell Factories · doi:10.1186/1475-2859-7-21 · Cited by 55

Identification of common traits in improved xylose‐growing Saccharomyces cerevisiae for inverse metabolic engineering

Bengtsson, O., Jeppsson, M., Sonderegger, M., Parachin, N. S., Sauer, U., Hahn‐Hägerdal, B., & Gorwa‐Grauslund, M. F. (2008) · Yeast · doi:10.1002/yea.1638 · Cited by 50

The Positive Effect of the Decreased NADPH-Preferring Activity of Xylose Reductase fromPichia stipitison Ethanol Production Using Xylose-Fermenting RecombinantSaccharomyces cerevisiae

Watanabe, S., Pack, S. P., Saleh, A. A., Annaluru, N., Kodaki, T., & Makino, K. (2007) · Bioscience Biotechnology and Biochemistry · doi:10.1271/bbb.70104 · Cited by 47

Structure-Guided Engineering of Xylitol Dehydrogenase Cosubstrate Specificity

Ehrensberger, A. H., Elling, R. A., & Wilson, D. K. (2006) · Structure · doi:10.1016/j.str.2005.11.016 · Cited by 46

The expression in Saccharomyces cerevisiae of a glucose/xylose symporter from Candida intermedia is affected by the presence of a glucose/xylose facilitator

Leandro, M. J., Spencer‐Martins, I., & Gonçalves, P. M. (2008) · Microbiology · doi:10.1099/mic.0.2007/015511-0 · Cited by 45

Transcription of hexose transporters of Saccharomyces cerevisiae is affected by change in oxygen provision

Rintala, E., Wiebe, M. G., Tamminen, A., Ruohonen, L., & Penttilä, M. E. (2008) · BMC Microbiology · doi:10.1186/1471-2180-8-53 · Cited by 40

Culture nutrition and physiology impact the inhibitor tolerance of the yeast Pichia stipitis NRRL Y‐7124

Slininger, P. J., Gorsich, S. W., & Liu, Z. L. (2008) · Biotechnology and Bioengineering · doi:10.1002/bit.22110 · Cited by 39

Effect of the reversal of coenzyme specificity by expression of mutated Pichia stipitis xylitol dehydrogenase in recombinant Saccharomyces cerevisiae

Hou, J., Shen, Y., Li, X. P., & Bao, X. M. (2007) · Letters in Applied Microbiology · doi:10.1111/j.1472-765x.2007.02165.x · Cited by 32

Engineering the Pichia stipitis Genome for Fermentation of Hemicellulose Hydrolysates

Jeffries, T. W. (2014) · Bioenergy · doi:10.1128/9781555815547.ch3 · Cited by 24

Identification in the yeast Pichia stipitis of the first l ‐rhamnose‐1‐dehydrogenase gene

Koivistoinen, O. M., Hilditch, S., Voutilainen, S. P., Boer, H., Penttilä, M. E., & Richard, P. (2008) · FEBS Journal · doi:10.1111/j.1742-4658.2008.06392.x · Cited by 24

Metabolic fate of l ‐lactaldehyde derived from an alternative l ‐rhamnose pathway

Watanabe, S., Sommani, P., & Makino, K. (2008) · FEBS Journal · doi:10.1111/j.1742-4658.2008.06645.x · Cited by 20

Construction of a Recombinant S. cerevisiae Expressing a Fusion Protein and Study on the Effect of Converting Xylose and Glucose to Ethanol

Zhang, J., Tian, S., Zhang, Y., & Yang, X. (2008) · Applied Biochemistry and Biotechnology · doi:10.1007/s12010-008-8203-6 · Cited by 9

Hemicelluloses for fuel ethanol: A review

Gírio, F. M., Fonseca, C., Carvalheiro, F., Duarte, L. C., Marques, S., & Bogel‐Łukasik, R. (2010) · Bioresource Technology · doi:10.1016/j.biortech.2010.01.088 · Cited by 1,648

Deconstruction of lignocellulosic biomass with ionic liquids

Brandt, A., Gräsvik, J., Hallett, J. P., & Welton, T. (2013) · Green Chemistry · doi:10.1039/c2gc36364j · Cited by 1,557

Technological trends, global market, and challenges of bio-ethanol production

Mussatto, S. I., Dragone, G., Guimarães, P. M. R., Silva, J. P. A., Carneiro, L. M., Roberto, I. C., Vicente, A. A., Domingues, L., & Teixeira, J. A. (2010) · Biotechnology Advances · doi:10.1016/j.biotechadv.2010.07.001 · Cited by 730

The emergence of adaptive laboratory evolution as an efficient tool for biological discovery and industrial biotechnology

Sandberg, T. E., Salazar, M. J., Weng, L. L., Palsson, B. Ø., & Feist, A. M. (2019) · Metabolic Engineering · doi:10.1016/j.ymben.2019.08.004 · Cited by 585

Improving industrial yeast strains: exploiting natural and artificial diversity

Steensels, J., Snoek, T., Meersman, E., Nicolino, M. P., Voordeckers, K., & Verstrepen, K. J. (2014) · FEMS Microbiology Reviews · doi:10.1111/1574-6976.12073 · Cited by 513

Hemicellulose fermentation by industrial yeast Saccharomyces cerevisiae

Narasimhan, R. A., Murthy, G. S., & Beatty, C. C. (2010) · 2010 Pittsburgh, Pennsylvania, June 20 - June 23, 2010 · doi:10.13031/2013.29920

Production of fuels and chemicals from xylose by engineered Saccharomyces cerevisiae: a review and perspective

Kwak, S., & Jin, Y. (2017) · Microbial Cell Factories · doi:10.1186/s12934-017-0694-9 · Cited by 272

Engineering of sugar transporters for improvement of xylose utilization during high-temperature alcoholic fermentation in Ogataea polymorpha yeast

Vasylyshyn, R. V., Kurylenko, O. O., Ruchała, J., Shevchuk, N., Kuliešienė, N., Khroustalyova, G., Rapoport, A. I., Daugelavičius, R., Dmytruk, K. V., & Sibirny, A. А. (2020) · Microbial Cell Factories · doi:10.1186/s12934-020-01354-9 · Cited by 42

Improved xylose fermentation by expression of a putative xylose transporter encoding gene HXT2.4 in Saccharomyces cerevisiae

Kuanyshev, N. (2013) · Illinois Digital Environment for Access to Learning and Scholarship (University of Illinois at Urbana-Champaign)

High expression of XYL2 coding for xylitol dehydrogenase is necessary for efficient xylose fermentation by engineered Saccharomyces cerevisiae

Kim, S. R., Ha, S.-J., Kong, I. I., & Jin, Y. (2012) · Metabolic Engineering · doi:10.1016/j.ymben.2012.04.001 · Cited by 86