skip to main content
OSTI.GOV title logo U.S. Department of Energy
Office of Scientific and Technical Information

Title: Incorporating comparative genomics into the design–test–learn cycle of microbial strain engineering

Abstract

Not provided.

Authors:
 [1];  [2]
  1. Great Lakes Bioenergy Research Center, Madison, WI 53706, USA
  2. Great Lakes Bioenergy Research Center, Madison, WI 53706, USA; Laboratory of Genetics, University of Wisconsin-Madison, Madison, WI 53706, USA
Publication Date:
Research Org.:
Univ. of Wisconsin, Madison, WI (United States)
Sponsoring Org.:
USDOE Office of Science (SC)
OSTI Identifier:
1535642
DOE Contract Number:  
FC02-07ER64494
Resource Type:
Journal Article
Journal Name:
FEMS Yeast Research
Additional Journal Information:
Journal Volume: 17; Journal Issue: 5; Journal ID: ISSN 1567-1364
Publisher:
Federation of European Microbiological Societies - Oxford University Press
Country of Publication:
United States
Language:
English
Subject:
Biotechnology & Applied Microbiology; Microbiology; Mycology

Citation Formats

Sardi, Maria, and Gasch, Audrey P. Incorporating comparative genomics into the design–test–learn cycle of microbial strain engineering. United States: N. p., 2017. Web. doi:10.1093/femsyr/fox042.
Sardi, Maria, & Gasch, Audrey P. Incorporating comparative genomics into the design–test–learn cycle of microbial strain engineering. United States. doi:10.1093/femsyr/fox042.
Sardi, Maria, and Gasch, Audrey P. Fri . "Incorporating comparative genomics into the design–test–learn cycle of microbial strain engineering". United States. doi:10.1093/femsyr/fox042.
@article{osti_1535642,
title = {Incorporating comparative genomics into the design–test–learn cycle of microbial strain engineering},
author = {Sardi, Maria and Gasch, Audrey P.},
abstractNote = {Not provided.},
doi = {10.1093/femsyr/fox042},
journal = {FEMS Yeast Research},
issn = {1567-1364},
number = 5,
volume = 17,
place = {United States},
year = {2017},
month = {6}
}

Works referenced in this record:

Increased tolerance and conversion of inhibitors in lignocellulosic hydrolysates by Saccharomyces cerevisiae
journal, January 2007

  • Almeida, Joao; Modig, Tobias; Petersson, Anneli
  • Journal of Chemical Technology & Biotechnology, Vol. 82, Issue 4, p. 340-349
  • DOI: 10.1002/jctb.1676

Engineering for biofuels: exploiting innate microbial capacity or importing biosynthetic potential?
journal, October 2009

  • Alper, Hal; Stephanopoulos, Gregory
  • Nature Reviews Microbiology, Vol. 7, Issue 10
  • DOI: 10.1038/nrmicro2186

Exploring the Saccharomyces cerevisiae Volatile Metabolome: Indigenous versus Commercial Strains
journal, November 2015


A trispecies Aspergillus microarray: Comparative transcriptomics of three Aspergillus species
journal, March 2008

  • Andersen, M. R.; Vongsangnak, W.; Panagiotou, G.
  • Proceedings of the National Academy of Sciences, Vol. 105, Issue 11
  • DOI: 10.1073/pnas.0709964105

Genome structure of a Saccharomyces cerevisiae strain widely used in bioethanol production
journal, October 2009

  • Argueso, J. L.; Carazzolle, M. F.; Mieczkowski, P. A.
  • Genome Research, Vol. 19, Issue 12
  • DOI: 10.1101/gr.091777.109

Metabolic engineering applications to renewable resource utilization
journal, April 2000


Toward a science of metabolic engineering
journal, June 1991


Comparative Transcriptomic Analysis Reveals Similarities and Dissimilarities in Saccharomyces cerevisiae Wine Strains Response to Nitrogen Availability
journal, April 2015


Closely related fungi employ diverse enzymatic strategies to degrade plant biomass
journal, August 2015

  • Benoit, Isabelle; Culleton, Helena; Zhou, Miaomiao
  • Biotechnology for Biofuels, Vol. 8, Issue 1
  • DOI: 10.1186/s13068-015-0285-0

Metabolic engineering for ricinoleic acid production in the oleaginous yeast Yarrowia lipolytica
journal, October 2013

  • Beopoulos, A.; Verbeke, J.; Bordes, F.
  • Applied Microbiology and Biotechnology, Vol. 98, Issue 1
  • DOI: 10.1007/s00253-013-5295-x

A High-Definition View of Functional Genetic Variation from Natural Yeast Genomes
journal, January 2014

  • Bergström, Anders; Simpson, Jared T.; Salinas, Francisco
  • Molecular Biology and Evolution, Vol. 31, Issue 4
  • DOI: 10.1093/molbev/msu037

Comparative genomic analysis of the thermophilic biomass-degrading fungi Myceliophthora thermophila and Thielavia terrestris
journal, October 2011

  • Berka, Randy M.; Grigoriev, Igor V.; Otillar, Robert
  • Nature Biotechnology, Vol. 29, Issue 10, p. 922-927
  • DOI: 10.1038/nbt.1976

Harnessing Yarrowia lipolytica lipogenesis to create a platform for lipid and biofuel production
journal, January 2014

  • Blazeck, John; Hill, Andrew; Liu, Leqian
  • Nature Communications, Vol. 5, Issue 1
  • DOI: 10.1038/ncomms4131

Whole-Genome Comparison Reveals Novel Genetic Elements That Characterize the Genome of Industrial Strains of Saccharomyces cerevisiae
journal, February 2011


Mapping Novel Traits by Array-Assisted Bulk Segregant Analysis in Saccharomyces cerevisiae
journal, April 2006


Genetic Basis of Metabolome Variation in Yeast
journal, March 2014


Assessing the Mechanisms Responsible for Differences between Nitrogen Requirements of Saccharomyces cerevisiae Wine Yeasts in Alcoholic Fermentation
journal, December 2013

  • Brice, Claire; Sanchez, Isabelle; Tesnière, Catherine
  • Applied and Environmental Microbiology, Vol. 80, Issue 4
  • DOI: 10.1128/AEM.03856-13

Contextualizing context for synthetic biology - identifying causes of failure of synthetic biological systems
journal, May 2012


Epistasis: too often neglected in complex trait studies?
journal, August 2004

  • Carlborg, Örjan; Haley, Chris S.
  • Nature Reviews Genetics, Vol. 5, Issue 8
  • DOI: 10.1038/nrg1407

Synthetic and systems biology for microbial production of commodity chemicals
journal, April 2016

  • Chubukov, Victor; Mukhopadhyay, Aindrila; Petzold, Christopher J.
  • npj Systems Biology and Applications, Vol. 2, Issue 1
  • DOI: 10.1038/npjsba.2016.9

Deconstruction of Lignocellulosic Biomass to Fuels and Chemicals
journal, July 2011


On the Prospects of Whole-Genome Association Mapping in Saccharomyces cerevisiae
journal, June 2012


Genomic Sequence Diversity and Population Structure of Saccharomyces cerevisiae Assessed by RAD-seq
journal, October 2013

  • Cromie, Gareth A.; Hyma, Katie E.; Ludlow, Catherine L.
  • G3: Genes|Genomes|Genetics, Vol. 3, Issue 12
  • DOI: 10.1534/g3.113.007492

High-titer production of astaxanthin by the semi-industrial fermentation of Xanthophyllomyces dendrorhous
journal, July 2010

  • de la Fuente, Juan Luis; Rodríguez-Sáiz, Marta; Schleissner, Carmen
  • Journal of Biotechnology, Vol. 148, Issue 2-3
  • DOI: 10.1016/j.jbiotec.2010.05.004

Quantitative trait loci mapped to single-nucleotide resolution in yeast
journal, November 2005

  • Deutschbauer, Adam M.; Davis, Ronald W.
  • Nature Genetics, Vol. 37, Issue 12
  • DOI: 10.1038/ng1674

Tolerance and stress response to ethanol in the yeast Saccharomyces cerevisiae
journal, September 2009

  • Ding, Junmei; Huang, Xiaowei; Zhang, Lemin
  • Applied Microbiology and Biotechnology, Vol. 85, Issue 2
  • DOI: 10.1007/s00253-009-2223-1

A Catalog of Neutral and Deleterious Polymorphism in Yeast
journal, August 2008


Unraveling the genetic basis of xylose consumption in engineered Saccharomyces cerevisiae strains
journal, December 2016

  • dos Santos, Leandro Vieira; Carazzolle, Marcelo Falsarella; Nagamatsu, Sheila Tiemi
  • Scientific Reports, Vol. 6, Issue 1
  • DOI: 10.1038/srep38676

Adaptive laboratory evolution – principles and applications for biotechnology
journal, January 2013


Hemiascomycetous yeasts at the forefront of comparative genomics
journal, December 2005


Dissection of genetically complex traits with extremely large pools of yeast segregants
journal, April 2010

  • Ehrenreich, Ian M.; Torabi, Noorossadat; Jia, Yue
  • Nature, Vol. 464, Issue 7291
  • DOI: 10.1038/nature08923

Introduction: Next generation biofuels
journal, June 2011


Selection and optimization of microbial hosts for biofuels production
journal, November 2008

  • Fischer, Curt R.; Klein-Marcuschamer, Daniel; Stephanopoulos, Gregory
  • Metabolic Engineering, Vol. 10, Issue 6, p. 295-304
  • DOI: 10.1016/j.ymben.2008.06.009

Biofuel alternatives to ethanol: pumping the microbial well
journal, July 2008

  • Fortman, J. L.; Chhabra, Swapnil; Mukhopadhyay, Aindrila
  • Trends in Biotechnology, Vol. 26, Issue 7, p. 375-381
  • DOI: 10.1016/j.tibtech.2008.03.008

Whole-Genome Sequencing and Intraspecific Analysis of the Yeast Species Lachancea quebecensis
journal, January 2016

  • Freel, Kelle C.; Friedrich, Anne; Sarilar, Véronique
  • Genome Biology and Evolution, Vol. 8, Issue 3
  • DOI: 10.1093/gbe/evv262

Domestication and Divergence of Saccharomyces cerevisiae Beer Yeasts
journal, September 2016


Improved xylose and arabinose utilization by an industrial recombinant Saccharomyces cerevisiae strain using evolutionary engineering
journal, January 2010

  • Garcia Sanchez, Rosa; Karhumaa, Kaisa; Fonseca, César
  • Biotechnology for Biofuels, Vol. 3, Issue 1
  • DOI: 10.1186/1754-6834-3-13

Genetic dissection of acetic acid tolerance in Saccharomyces cerevisiae
journal, July 2016

  • Geng, Peng; Xiao, Yin; Hu, Yun
  • World Journal of Microbiology and Biotechnology, Vol. 32, Issue 9
  • DOI: 10.1007/s11274-016-2101-9

Hybrid mouse diversity panel: a panel of inbred mouse strains suitable for analysis of complex genetic traits
journal, August 2012

  • Ghazalpour, Anatole; Rau, Christoph D.; Farber, Charles R.
  • Mammalian Genome, Vol. 23, Issue 9-10
  • DOI: 10.1007/s00335-012-9411-5

Functional profiling of the Saccharomyces cerevisiae genome
journal, July 2002


The genomics of microbial domestication in the fermented food environment
journal, December 2015


Life with 6000 Genes
journal, October 1996


Adaptive Evolution of a Lactose-Consuming Saccharomyces cerevisiae Recombinant
journal, February 2008

  • Guimaraes, P. M. R.; Francois, J.; Parrou, J. L.
  • Applied and Environmental Microbiology, Vol. 74, Issue 6
  • DOI: 10.1128/AEM.00186-08

Comparative transcriptome analysis between original and evolved recombinant lactose-consuming Saccharomyces cerevisiae strains
journal, December 2008

  • Guimarães, Pedro M. R.; Le Berre, Véronique; Sokol, Serguei
  • Biotechnology Journal, Vol. 3, Issue 12
  • DOI: 10.1002/biot.200800111

Comparative Genomics
journal, November 2003


Dosage compensation can buffer copy-number variation in wild yeast
journal, May 2015


Novel methods of genome shuffling in Saccharomyces cerevisiae
journal, January 2009


Genetic Dissection of Ethanol Tolerance in the Budding Yeast Saccharomyces cerevisiae
journal, December 2006


Gpd1 and Gpd2 Fine-Tuning for Sustainable Reduction of Glycerol Formation in Saccharomyces cerevisiae
journal, July 2011

  • Hubmann, Georg; Guillouet, Stephane; Nevoigt, Elke
  • Applied and Environmental Microbiology, Vol. 77, Issue 17
  • DOI: 10.1128/AEM.05338-11

Identification of multiple interacting alleles conferring low glycerol and high ethanol yield in Saccharomyces cerevisiae ethanolic fermentation
journal, January 2013

  • Hubmann, Georg; Mathé, Lotte; Foulquié-Moreno, Maria R.
  • Biotechnology for Biofuels, Vol. 6, Issue 1
  • DOI: 10.1186/1754-6834-6-87

Mapping Genetic Variants Underlying Differences in the Central Nitrogen Metabolism in Fermenter Yeasts
journal, January 2014


The genomic and phenotypic diversity of Schizosaccharomyces pombe
journal, February 2015

  • Jeffares, Daniel C.; Rallis, Charalampos; Rieux, Adrien
  • Nature Genetics, Vol. 47, Issue 3
  • DOI: 10.1038/ng.3215

Metabolic engineering for improved fermentation of pentoses by yeasts
journal, May 2004


Global Transcriptome and Deletome Profiles of Yeast Exposed to Transition Metals
journal, April 2008


The diploid genome sequence of Candida albicans
journal, May 2004

  • Jones, T.; Federspiel, N. A.; Chibana, H.
  • Proceedings of the National Academy of Sciences, Vol. 101, Issue 19
  • DOI: 10.1073/pnas.0401648101

Dissection of the genetic architecture of rice resistance to the blast fungus Magnaporthe oryzae : GWAS of rice blast resistance
journal, February 2016

  • Kang, Houxiang; Wang, Yue; Peng, Shasha
  • Molecular Plant Pathology, Vol. 17, Issue 6
  • DOI: 10.1111/mpp.12340

QTL mapping of sake brewing characteristics of yeast
journal, April 2009

  • Katou, Taku; Namise, Masahiro; Kitagaki, Hiroshi
  • Journal of Bioscience and Bioengineering, Vol. 107, Issue 4
  • DOI: 10.1016/j.jbiosc.2008.12.014

Manufacturing Molecules Through Metabolic Engineering
journal, December 2010


Synthetic biology: applications come of age
journal, May 2010

  • Khalil, Ahmad S.; Collins, James J.
  • Nature Reviews Genetics, Vol. 11, Issue 5
  • DOI: 10.1038/nrg2775

Evolutionary engineering of mixed-sugar utilization by a xylose-fermenting strain
journal, July 2005


Five hard truths for synthetic biology
journal, January 2010


Physiological and metabolic diversity in the yeast Kluyveromyces marxianus
journal, June 2011


Exploiting Natural Variation in Saccharomyces cerevisiae to Identify Genes for Increased Ethanol Resistance
journal, September 2010


Population genomics of domestic and wild yeasts
journal, February 2009

  • Liti, Gianni; Carter, David M.; Moses, Alan M.
  • Nature, Vol. 458, Issue 7236
  • DOI: 10.1038/nature07743

Advances in Quantitative Trait Analysis in Yeast
journal, August 2012


Genome scale engineering techniques for metabolic engineering
journal, November 2015


Improvement of robustness and ethanol production of ethanologenic Saccharomyces cerevisiae under co-stress of heat and inhibitors
journal, June 2011

  • Lu, Ying; Cheng, Yan-Fei; He, Xiu-Ping
  • Journal of Industrial Microbiology & Biotechnology, Vol. 39, Issue 1
  • DOI: 10.1007/s10295-011-1001-0

Developing Aspergillus as a host for heterologous expression
journal, January 2009


The Statistics of Bulk Segregant Analysis Using Next Generation Sequencing
journal, November 2011


Genome sequencing and analysis of the biomass-degrading fungus Trichoderma reesei (syn. Hypocrea jecorina)
journal, May 2008

  • Martinez, Diego; Berka, Randy M.; Henrissat, Bernard
  • Nature Biotechnology, Vol. 26, Issue 5
  • DOI: 10.1038/nbt1403

Single QTL mapping and nucleotide-level resolution of a physiologic trait in wine Saccharomyces cerevisiae strains
journal, September 2007


Quantitative Trait Loci (QTL)-Guided Metabolic Engineering of a Complex Trait
journal, November 2016

  • Maurer, Matthew J.; Sutardja, Lawrence; Pinel, Dominic
  • ACS Synthetic Biology, Vol. 6, Issue 3
  • DOI: 10.1021/acssynbio.6b00264

Production of α-cuprenene in Xanthophyllomyces dendrorhous: a step closer to a potent terpene biofactory
journal, January 2013

  • Melillo, Elena; Setroikromo, Rita; Quax, Wim J.
  • Microbial Cell Factories, Vol. 12, Issue 1
  • DOI: 10.1186/1475-2859-12-13

Metabolic engineering for the microbial production of 1,3-propanediol
journal, October 2003


From sequence to function: Insights from natural variation in budding yeasts
journal, October 2011

  • Nieduszynski, Conrad A.; Liti, Gianni
  • Biochimica et Biophysica Acta (BBA) - General Subjects, Vol. 1810, Issue 10
  • DOI: 10.1016/j.bbagen.2011.02.004

Metabolic engineering
journal, April 2001


Impact of systems biology on metabolic engineering of Saccharomyces cerevisiae
journal, February 2008


Metabolic engineering of yeast for production of fuels and chemicals
journal, June 2013

  • Nielsen, Jens; Larsson, Christer; van Maris, Antonius
  • Current Opinion in Biotechnology, Vol. 24, Issue 3
  • DOI: 10.1016/j.copbio.2013.03.023

Anaerobic and aerobic batch cultivations ofSaccharomyces cerevisiae mutants impaired in glycerol synthesis
journal, March 2000


Industrial systems biology
journal, February 2010

  • Otero, José Manuel; Nielsen, Jens
  • Biotechnology and Bioengineering, Vol. 105, Issue 3
  • DOI: 10.1002/bit.22592

High-level semi-synthetic production of the potent antimalarial artemisinin
journal, April 2013

  • Paddon, C. J.; Westfall, P. J.; Pitera, D. J.
  • Nature, Vol. 496, Issue 7446
  • DOI: 10.1038/nature12051

Genome Wide Association Identifies Novel Loci Involved in Fungal Communication
journal, August 2013


Revealing the genetic structure of a trait by sequencing a population under selection
journal, March 2011


Genome sequencing and analysis of the versatile cell factory Aspergillus niger CBS 513.88
journal, January 2007

  • Pel, Herman J.; de Winde, Johannes H.; Archer, David B.
  • Nature Biotechnology, Vol. 25, Issue 2, p. 221-231
  • DOI: 10.1038/nbt1282

Biodegradation and biological treatments of cellulose, hemicellulose and lignin: an overview
journal, April 2002


Analytics for Metabolic Engineering
journal, September 2015

  • Petzold, Christopher J.; Chan, Leanne Jade G.; Nhan, Melissa
  • Frontiers in Bioengineering and Biotechnology, Vol. 3
  • DOI: 10.3389/fbioe.2015.00135

OptStrain: A computational framework for redesign of microbial production systems
journal, November 2004


Death by a thousand cuts: the challenges and diverse landscape of lignocellulosic hydrolysate inhibitors
journal, March 2014


Heterosis Is Prevalent Among Domesticated but not Wild Strains of Saccharomyces cerevisiae
journal, December 2013

  • Plech, Marcin; de Visser, J. Arjan G. M.; Korona, Ryszard
  • G3: Genes|Genomes|Genetics, Vol. 4, Issue 2
  • DOI: 10.1534/g3.113.009381

The Path Forward for Biofuels and Biomaterials
journal, January 2006

  • Ragauskas, Arthur J.; Williams, Charlotte K.; Davison, Brian H.
  • Science, Vol. 311, Issue 5760, p. 484-489
  • DOI: 10.1126/science.1114736

Comparative genomics of biotechnologically important yeasts
journal, August 2016

  • Riley, Robert; Haridas, Sajeet; Wolfe, Kenneth H.
  • Proceedings of the National Academy of Sciences, Vol. 113, Issue 35
  • DOI: 10.1073/pnas.1603941113

Comparative Transcriptomic Approach To Investigate Differences in Wine Yeast Physiology and Metabolism during Fermentation
journal, August 2009

  • Rossouw, D.; Olivares-Hernandes, R.; Nielsen, J.
  • Applied and Environmental Microbiology, Vol. 75, Issue 20
  • DOI: 10.1128/AEM.01251-09

Comparative Transcriptomic and Proteomic Profiling of Industrial Wine Yeast Strains
journal, April 2010

  • Rossouw, D.; van den Dool, A. H.; Jacobson, D.
  • Applied and Environmental Microbiology, Vol. 76, Issue 12
  • DOI: 10.1128/AEM.00586-10

Engineering Yarrowia lipolytica for production of medium-chain fatty acids
journal, July 2015

  • Rutter, Charles D.; Zhang, Shuyan; Rao, Christopher V.
  • Applied Microbiology and Biotechnology, Vol. 99, Issue 17
  • DOI: 10.1007/s00253-015-6764-1

Leveraging Genetic-Background Effects in Saccharomyces cerevisiae To Improve Lignocellulosic Hydrolysate Tolerance
journal, July 2016

  • Sardi, Maria; Rovinskiy, Nikolay; Zhang, Yaoping
  • Applied and Environmental Microbiology, Vol. 82, Issue 19
  • DOI: 10.1128/AEM.01603-16

Comprehensive polymorphism survey elucidates population structure of Saccharomyces cerevisiae
journal, February 2009

  • Schacherer, Joseph; Shapiro, Joshua A.; Ruderfer, Douglas M.
  • Nature, Vol. 458, Issue 7236
  • DOI: 10.1038/nature07670

APJ1 and GRE3 Homologs Work in Concert to Allow Growth in Xylose in a Natural Saccharomyces sensu stricto Hybrid Yeast
journal, March 2012


An overview of second generation biofuel technologies
journal, March 2010


Complex Genetic Interactions in a Quantitative Trait Locus
journal, January 2006


Population perspectives on functional genomic variation in yeast
journal, October 2015

  • Skelly, Daniel A.; Magwene, Paul M.
  • Briefings in Functional Genomics, Vol. 15, Issue 2
  • DOI: 10.1093/bfgp/elv044

Large-scale robot-assisted genome shuffling yields industrial Saccharomyces cerevisiae yeasts with increased ethanol tolerance
journal, January 2015

  • Snoek, Tim; Picca Nicolino, Martina; Van den Bremt, Stefanie
  • Biotechnology for Biofuels, Vol. 8, Issue 1
  • DOI: 10.1186/s13068-015-0216-0

Early-branching gut fungi possess a large, comprehensive array of biomass-degrading enzymes
journal, February 2016

  • Solomon, Kevin V.; Haitjema, Charles H.; Henske, John K.
  • Science, Vol. 351, Issue 6278
  • DOI: 10.1126/science.aad1431

Evolutionary Engineering of Saccharomyces cerevisiae for Anaerobic Growth on Xylose
journal, April 2003


Fermentation performance of engineered and evolved xylose-fermenting Saccharomyces cerevisiae strains : Xylose-Fermenting
journal, June 2004

  • Sonderegger, Marco; Jeppsson, Marie; Larsson, Christer
  • Biotechnology and Bioengineering, Vol. 87, Issue 1
  • DOI: 10.1002/bit.20094

Generation and characterisation of stable ethanol-tolerant mutants of Saccharomyces cerevisiae
journal, November 2009

  • Stanley, Dragana; Fraser, Sarah; Chambers, Paul J.
  • Journal of Industrial Microbiology & Biotechnology, Vol. 37, Issue 2
  • DOI: 10.1007/s10295-009-0655-3

Dissecting the architecture of a quantitative trait locus in yeast
journal, March 2002

  • Steinmetz, Lars M.; Sinha, Himanshu; Richards, Dan R.
  • Nature, Vol. 416, Issue 6878
  • DOI: 10.1038/416326a

Network rigidity and metabolic engineering in metabolite overproduction
journal, June 1991


QTL mapping of the production of wine aroma compounds by yeast
journal, January 2012


The 100-genomes strains, an S. cerevisiae resource that illuminates its natural phenotypic and genotypic variation and emergence as an opportunistic pathogen
journal, April 2015

  • Strope, Pooja K.; Skelly, Daniel A.; Kozmin, Stanislav G.
  • Genome Research, Vol. 25, Issue 5
  • DOI: 10.1101/gr.185538.114

Metabolic peculiarities of Aspergillus niger disclosed by comparative metabolic genomics
journal, January 2007


Genetic mapping of quantitative phenotypic traits in Saccharomyces cerevisiae
journal, January 2012


Phenotypic characterization and comparative transcriptomics of evolved Saccharomyces cerevisiae strains with improved tolerance to lignocellulosic derived inhibitors
journal, September 2016

  • Thompson, Olivia A.; Hawkins, Gary M.; Gorsich, Steven W.
  • Biotechnology for Biofuels, Vol. 9, Issue 1
  • DOI: 10.1186/s13068-016-0614-y

From the first drop to the first truckload: commercialization of microbial processes for renewable chemicals
journal, December 2013


Adaptive evolution of an industrial strain of Saccharomyces cerevisiae for combined tolerance to inhibitors and temperature
journal, January 2013

  • Wallace-Salinas, Valeria; Gorwa-Grauslund, Marie F.
  • Biotechnology for Biofuels, Vol. 6, Issue 1
  • DOI: 10.1186/1754-6834-6-151

Genome shuffling to improve fermentation properties of top-fermenting yeast by the improvement of stress tolerance
journal, February 2010


Surprisingly diverged populations of Saccharomyces cerevisiae in natural environments remote from human activity
journal, August 2012


Bulk Segregant Analysis by High-Throughput Sequencing Reveals a Novel Xylose Utilization Gene from Saccharomyces cerevisiae
journal, May 2010


Metabolome, transcriptome and metabolic flux analysis of arabinose fermentation by engineered Saccharomyces cerevisiae
journal, November 2010


Novel Evolutionary Engineering Approach for Accelerated Utilization of Glucose, Xylose, and Arabinose Mixtures by Engineered Saccharomyces cerevisiae Strains
journal, December 2008

  • Wisselink, H. W.; Toirkens, M. J.; Wu, Q.
  • Applied and Environmental Microbiology, Vol. 75, Issue 4
  • DOI: 10.1128/AEM.02268-08

Comparative genomics of xylose-fermenting fungi for enhanced biofuel production
journal, July 2011

  • Wohlbach, D. J.; Kuo, A.; Sato, T. K.
  • Proceedings of the National Academy of Sciences, Vol. 108, Issue 32, p. 13212-13217
  • DOI: 10.1073/pnas.1103039108

The genome sequence of Schizosaccharomyces pombe
journal, February 2002

  • Wood, V.; Gwilliam, R.; Rajandream, M. -A.
  • Nature, Vol. 415, Issue 6874
  • DOI: 10.1038/nature724

Bridging high-throughput genetic and transcriptional data reveals cellular responses to alpha-synuclein toxicity
journal, February 2009

  • Yeger-Lotem, Esti; Riva, Laura; Su, Linhui Julie
  • Nature Genetics, Vol. 41, Issue 3
  • DOI: 10.1038/ng.337

Comparative functional genomics to reveal the molecular basis of phenotypic diversities and guide the genetic breeding of industrial yeast strains
journal, January 2013

  • Zheng, Dao-Qiong; Liu, Tian-Zhe; Chen, Jie
  • Applied Microbiology and Biotechnology, Vol. 97, Issue 5
  • DOI: 10.1007/s00253-013-4698-z