Publications

Profiling of the peripheral leukocyte transcriptome of dairy cattle reveals gene expression patterns associated with genetic potential for milk production - (Abstract)

(14-Jan-09)

Tolerant ethanologenic yeast for low-cost lignocellulosic biomass conversion to ethanol - (Abstract)

(28-Nov-08)

Conversion of Extracted Oil Cake Fibers into Bioethanol including DDGS, Canola, Sunflower, Seasame, Soy, and Peanut for Integrated Biodiesel Processing - (Peer Reviewed Journal)

Balan, V., Rogers, C.A., Chundawat, S.P., Sousa, L.D., Slininger, P.J., Gupta, R., Dale, B.E. 2008. Conversion of extracted oil cake fibers into bioethanol including DDGS, canola, sunflower, seasame, soy, and peanut for integrated biodiesel processing. Journal of the American Oil Chemists' Society. 86:157-165.

Mechanisms of tolerance and in situ detoxification of biomass conversion inhibitors by Saccharomyces cerevisiae - (Abstract)

(24-Oct-08)

Discrete dynamic system modeling for gene regulatory networks of HMF tolerance for ethanologenic yeast - (Peer Reviewed Journal)

(21-Oct-08)

Genomic mechanisms of inhibitor-detoxification for low-cost lignocellulosic bioethanol conversion - (Abstract)

Liu, Z., Moon, J., Mingzhou, S.J. 2008. Genomic mechanisms of inhibitor-detoxification for low-cost lignocellulosic bioethanol conversion [abstract]. Journal of Biotechnology 136S:S218.

Culture conditions supporting inhibitor tolerance and rapid production of ethanol by P. stipitis NRRL Y-7124 - (Abstract)

(23-Sep-08)

Multiple gene mediated NAD(P)H-dependent aldehyde reduction is a mechanism of in situ detoxification of furfural and HMF by Saccharomyces cerevisiae - (Peer Reviewed Journal)

Liu, Z., Moon, J., Andersh, B.J., Slininger, P.J., Weber, S.A. 2008. Multiple gene mediated NAD(P)H-dependent aldehyde reduction is a mechanism of in situ detoxification of furfural and HMF by Saccharomyces cerevisiae. Applied Microbiology and Biotechnology. 81:743-753.

Change your conventional practice of qRT-PCR: A simple robust quality control standard for yeast mRNA quantification analysis - (Abstract)

Liu, Z. 2008. Change your conventional practice of qRT-PCR: A simple robust quality control standard for yeast mRNA quantification analysis [abstract]. 12th International Conference on Yeasts. p. 140.

Culture nutrition and physiology impact the inhibitor tolerance of the yeast Pichia stipitis NRRL Y-7124 - (Peer Reviewed Journal)

Slininger, P.J., Gorsich, S.W., Liu, Z. 2009. Culture nutrition and physiology impact the inhibitor tolerance of the yeast Pichia stipitis NRRL Y-7124. Biotechnology and Bioengineering. 102(3):788-790.

Polysaccharide benefits dry storage survival of the biocontrol agent Pseudomonas fluorescens S11:P:12 effective against several maladies of stored potatoes - (Abstract)

Slininger, P.J., Dunlap, C.A., Schisler, D.A. 2008. Polysaccharide benefits dry storage survival of the biocontrol agent Pseudomonas fluorescens S11:P:12 effective against several maladies of stored potatoes [abstract]. Phytopathology 98(6):S147. . American Phytopathological Society.

Colored and white sectors of petunia flowers display differential resistance to insect herbivores - (Abstract)

Johnson, E.T., Berhow, M.A., Dowd, P.F. 2008. Colored and white sectors of petunia flowers display differential resistance to insect herbivores [abstract]. Phytochemical Society of North America Proceedings. Abstract No. S9-3. p. 57.

Functional genomic studies lead in situ detoxification of fermentation inhibitors for low-cost cellulosic ethanol production - (Abstract)

(21-May-08)

Impact of inoculum production conditions on stress tolerance and fermentation efficiency of natural xylose-fermenting yeasts presented xylose and glucose - (Abstract)

Slininger, P.J., Liu, Z. 2008. Impact of inoculum production conditions on stress tolerance and fermentation efficiency of natural xylose-fermenting yeasts presented xylose and glucose [abstract]. Biotechnology for Fuels and Chemicals Symposium Proceedings. Abstract No. 5734

Validation and standardization of gene expression data for microarray and real time quantitative PCR using universal external RNA controls - (Abstract)

Liu, Z. 2007. Validation and standardization of gene expression data for microarray and real time quantitative PCR using universal external RNA controls [abstract]. Cambridge Healthtech Institute Conference on Quantitative PCR, Microarrays, and Biological Validation.

Enhanced L-(+)-lactic acid production by an adapted strain of Rhizopus oryzae using corncob hydrolysate - (Peer Reviewed Journal)

Bai, D., Li, S., Liu, Z., Cui, Z. 2007. Enhanced L-(+)-lactic acid production by an adapted strain of Rhizopus oryzae using corncob hydrolysate. Applied Biochemistry and Biotechnology. 144:79-85.

Impact of culture nutrition on tolerance of furan inhibitors and the conversion of high xylose concentrations to ethanol by Pichia stipitis NRRL Y-7124 - (Abstract)

Slininger, P.J. 2007. Impact of culture nutrition on tolerance of furan inhibitors and the conversion of high xylose concentrations to ethanol by Pichia stipitis NRRL Y-7124 [abstract]. Proceeding of the Chicago Section of the American Institute of Chemical Engineers. p. 26.

Absolute mRNA quantification of Pseudomonas fluorescens Pf-5 by qRT-PCR using universal RNA controls - (Abstract)

Liu, Z., Slininger, P.J. 2007. Absolute mRNA quantification of Pseudomonas fluorescens Pf-5 by qRT-PCR using universal RNA controls [abstract]. American Society for Microbiology.

Genomic engineering of Saccharomyces cerevisiae for biomass conversion to ethanol - (Abstract)

(03-Aug-07)

Multiple gene mediated aldehyde reduction is a mechanism of in situ detoxification of furfural and 5-hydroxymethylfurfural by Saccharomyces cerevisiae - (Abstract)

Liu, Z., Moon, J., Andersh, B.J., Slininger, P.J., Weber, S.A. 2007. Multiple gene mediated aldehyde reduction is a mechanism of in situ detoxification of furfural and 5-hydroxymethylfurfural by Saccharomyces cerevisiae [abstract]. Yeasts International Symposium. Abstract No. S-134.

A robust standard for absolute mRNA quantification of Saccharomyces cerevisiae by qRT-PCR using the universal RNA controls - (Abstract)

Liu, Z., Palmquist, D.E. 2007. A robust standard for absolute mRNA quantification of Saccharomyces cerevisiae by qRT-PCR using the universal RNA controls [abstract]. Yeasts International Symposium. Abstract No. S-84.

Lignocellulosic biomass conversion to ethanol by Saccharomyces - (Book/Chapter)

Liu, Z., Saha, B.C., Slininger, P.J. 2008. Lignocellulosic biomass conversion to ethanol by Saccharomyces. In: Wall, J., Harwood, C., Demain, A., editors. Bioenergy. Chapter 4. Washington, DC: ASM Press. p. 17-36.

Mechanisms of in situ detoxification of furfural and HMF by ethanologenic yeast Saccharomyces cerevisiae - (Abstract)

Liu, Z., Andersh, B.J., Slininger, P.J. 2007. Mechanisms of in situ detoxification of furfural and HMF by ethanologenic yeast Saccharomyces cerevisiae [abstract]. Biotechnology for Fuels and Chemicals Symposium Proceedings. Abstract No. 1B-28, p. 85.

Impact of culture nutrition on inhibitor tolerance and the conversion of high xylose concentrations to ethanol by Pichia stipitis NRRL Y-7124 - (Abstract)

Slininger, P.J., Liu, Z., Gorsich, S.W. 2007. Impact of culture nutrition on inhibitor tolerance and the conversion of high xylose concentrations to ethanol by Pichia stipitis NRRL Y-7124 [abstract]. Biotechnology for Fuels and Chemicals Symposium Proceedings. p. 88. Paper No. 1B-38.

Enhanced L(+)-lactic acid production from corncob hydrolysate by an adapted strain of Rhizopus oryzae - (Abstract)

Bai, D., Li, S., Liu, Z., Cui, Z. 2007. Enhanced L(+)-lactic acid production from corncob hydrolysate by an adapted strain of Rhizopus oryzae [abstract]. Biotechnology for Fuels and Chemicals Symposium Proceedings. Abstract No. 1B-44, p. 90.

Biological control of post-harvest late blight of potatoes - (Peer Reviewed Journal)

Slininger, P.J., Schisler, D.A., Ericsson, L.D., Brandt, T., Frazier, M.J., Woodell, L., Olson, N., Kleinkopf, G. 2007. Biological control of post-harvest late blight of potatoes. Biocontrol Science and Technology. 17(5/6):647-663.

Gene expression profiling for genetic merit in dairy cattle - (Abstract)

Rabel, C., Everts-Vam Der Womd, A., Everts, R., Band, M.R., Wallace, R.L., Liu, Z., Rodriguez-Zas, S., Lewin, H.A. 2007. Gene expression profiling for genetic merit in dairy cattle [abstract]. Plant and Animal Genome VX Conference Abstracts.

A linear discrete dynamic system model for temporal gene interaction and regulatory network influence in response to bioethanol conversion inhibitor HMF for ethanologenic yeast - (Abstract)

(03-Dec-06)

Impact of culture nutrition on tolerance of furan inhibitors and the conversion of high xylose concentrations to ethanol by Pichia stipitis NRRL Y-7124 - (Abstract)

Slininger, P.J., Liu, Z., Gorsich, S.W. 2006. Impact of culture nutrition on tolerance of furan inhibitors and the conversion of high xylose concentrations to ethanol by Pichia stipitis NRRL Y-7124 [abstract]. American Institute of Chemical Engineers Annual Meeting. Paper No. 531d.

A linear discrete dynamic system model for temporal gene interaction and regulatory network influence in response to bioethanol conversion inhibitor HMF for ethanologenic yeast - (Peer Reviewed Journal)

Song, M., Liu, Z. 2007. A linear discrete dynamic system model for temporal gene interaction and regulatory network influence in response to bioethanol conversion inhibitor HMF for ethanologenic yeast. Lecture Notes in Bioinformatics. 4532:77-95.

Universal external RNA controls for microbial gene expression analysis using microarray and qRT-PCR - (Peer Reviewed Journal)

Liu, Z., Slininger, P.J. 2007. Universal external RNA controls for microbial gene expression analysis using microarray and qRT-PCR. Journal of Microbiological Methods. 68:486-496.

Transcriptional regulatory analysis reveals PDR3 and GCR1 as regulators of significantly induced genes by 5-hydroxymethylfurfural stress involved in bioethanol conversion for ethanologenic yeast Saccharomyces cerevisiae - (Abstract)

Liu, Z., Sinha, S. 2007. Transcriptional regulatory analysis reveals PDR3 and GCR1 as regulators of significantly induced genes by 5-hydroxymethylfurfural stress involved in bioethanol conversion for ethanologenic yeast saccharomyces cerevisiae [abstract]. Microarray Gene Expression Data Society (MGED 9) Meeting.

The growth inhibitor, furfural, induces cellular stress signals in Saccharomyces cerevisiae - (Abstract)

Gorsich, S.W., Mccaffery, J.M. 2006. The growth inhibitor, furfural, induces cellular stress signals in Saccharomyces cerevisiae [abstract]. Yeast Genetics and Molecular Biology Meeting. Paper No. 99C.

Genomic adaptation of ethanologenic yeast to biomass conversion inhibitors - (Review Article)

Liu, Z. 2006. Genomic adaptation of ethanologenic yeast to biomass conversion inhibitors. Applied Microbiology and Biotechnology. 73(1):27-36.

IN SITU DETOXIFICATION OF FERMENTATION INHIBITORS BY STRESS TOLERANT ETHANOLOGENIC YEAST FOR LOW-COST BIOMASS CONVERSION TO ETHANOL - (Abstract)

Liu, Z., Slininger, P.J. 2006. In situ detoxification of fermentation inhibitors by stress tolerant ethanologenic yeast for low-cost biomass conversion to ethanol [abstract]. World Bio-Energy 2006 Proceedings. p. 121.

PROLINE-BASED MODULATION OF 2,4-DIACETYLPHLOROGLUCINOL AND VIABLE CELL YIELDS IN CULTURES OF PSEUDOMONAS FLUORESCENS WILD AND OVER-PRODUCING STRAINS - (Abstract)

Slininger, P.J., Shea Andersh, M.A. 2006. Proline-based modulation of 2,4-diacetylphloroglucinol and viable cell yields in cultures of Pseudomonas fluorescens wild and over-producing strains [abstract]. International Plant Growth Promoting Rhizobacteria Workshop. Paper No. P57.

THE FERMENTATION INHIBITOR FURFURAL CAUSES CELLULAR DAMAGE TO SACCHAROMYCES CEREVISIAE - (Abstract)

Gorsich, S.W., Slininger, P.J., McCaffery, J. 2006. The fermentation inhibitor furfural causes cellular damage to Saccharomyces cerevisiae [abstract]. Biotechnology for Fuels and Chemicals Symposium Proceedings. Paper No. 4-17.

NITROGEN SOURCE AND MINERAL OPTIMIZATION ENHANCE D-XYLOSE CONVERSION TO ETHANOL BY THE YEAST PICHIA STIPITIS NRRL Y-7124 - (Peer Reviewed Journal)

Slininger, P.J., Dien, B.S., Gorsich, S.W., Liu, Z. 2006. Nitrogen source and mineral optimization enhance D-xylose conversion to ethanol by the yeast Pichia stipitis NRRL Y-7124. Applied Microbiology and Biotechnology. 72(6):1285-1296.

ENGINEERING STRESS-TOLERANT MICROBES FOR LOWER COST PRODUCTION OF BIOFUELS AND BIOPRODUCTS - (Abstract)

Slininger, P.J., Liu, Z., Gorsich, S.W. 2005. Engineering stress-tolerant microbes for lower cost production of biofuels and bioproducts [abstract]. American Institute of Chemical Engineers Annual Meeting. Paper No. 303a.

PROPOSED METHODS FOR TESTING AND SELECTING THE ERCC EXTERNAL RNA CONTROLS - (Peer Reviewed Journal)

Liu, Z., Members of ERCC. 2005. Proposed methods for testing and selecting the ERCC external RNA controls. Biomed Central (BMC) Genomics. 6:150.

NOVEL GENES THAT PROVIDE INCREASED STRESS TOLERANCE IN SACCHAROMYCES CEREVISIAE - (Abstract)

Gorsich, S.W. 2005. Novel genes that provide increased stress tolerance in Saccharomyces cerevisiae [abstract]. Southern Great Lakes Local Section of the Society for Industrial Microbiology. Paper No. 2.

THE EXTERNAL RNA CONTROLS CONSORTIUM: A PROGRESS REPORT - (Peer Reviewed Journal)

Liu, Z.L., External RNA Control Consortium. 2005. The external RNA controls consortium: A progress report. Nature Methods. 2(10):731-734.

UNIVERSAL EXTERNAL RNA QUALITY CONTROLS FOR MRNA EXPRESSION ANALYSIS USING MICROBIAL DNA OLIGO MICROARRAY AND REAL TIME QUANTITATIVE RT-PCR - (Abstract)

Liu, Z., Slininger, P.J. 2005. Universal external RNA quality controls for mRNA expression analysis using microbial DNA oligo microarray and real time quantitative RT-PCR [abstract]. Eighth International Meeting of the Microarray Gene Expression Data Society. Poster #P161, p. 45-46.

MINERAL AND NITROGEN SOURCE OPTIMIZATION ENHANCE D-XYLOSE CONVERSION TO ETHANOL BY THE YEAST PICHIA STIPITIS - (Abstract)

Slininger, P.J., Dien, B.S., Gorsich, S.W., Liu, Z. 2005. Mineral and nitrogen source optimization enhance d-xylose conversion to ethanol by the yeast Pichia stipitis [abstract]. Society of Industrial Microbiology Annual Meeting. Paper No. P07.

GENOMIC ADAPTIVE RESPONSE OF YEAST TO BIOFUEL FERMENTATION INHIBITORS - (Abstract)

Liu, Z. 2005. Genomic adaptive response of yeast to biofuel fermentation inhibitors [abstract]. Society of Industrial Microbiology Annual Meeting. Abstract No. S37.

PHYSIOLOGICAL RESPONSES TO FURFURAL AND HMF AND THE LINK TO OTHER STRESS PATHWAYS - (Abstract)

Gorsich, S.W., Slininger, P.J., Liu, Z. 2005. Physiological responses to furfural and HMF and the link to other stress pathways [abstract]. European Congress on Biotechnology. Paper No. G.4.4.

A 7872 CDNA MICROARRAY AND ITS USE IN BOVINE FUNCTIONAL GENOMICS - (Peer Reviewed Journal)

Everts, R.E., Band, M.R., Liu, Z., Kumar, C.G., Liu, L., Loor, J.J., Oliveria, R., Lewin, H.A. 2005. A 7872 cNDA microarray and its use in bovine functional genomics. Veterinary Immunology and Immunopathology. 105:235-245

TOLERANCE TO FURFURAL-INDUCED STRESS IS ASSOCIATED WITH PENTOSE PHOSPHATE PATHWAY GENES ZWF1, GND1, RPE1,AND TKL1 IN SACCHAROMYCES CEREVISIAE - (Peer Reviewed Journal)

Gorsich, S.W., Dien, B.S., Nichols, N.N., Slininger, P.J., Liu, Z., Skory, C.D. 2005. Tolerance to furfural-induced stress is associated with pentose phosphate pathway genes ZWF1, GND1, RPEL, and TKL1 in Saccharomyces cerevisiae. Applied Microbiology and Biotechnology. 71(3):339-349.

A NEW DNA OLIGO MICROARRAY FOR COMPLETE GENOME OF PSEUDOMONAS FLUORESCENS PF-5 - (Abstract)

Liu, Z., Duboy, R.T., Press, C., Loper, J.E., Paulsen, I.T., Slininger, P.J. 2005. A new DNA oligo microarray for complete genome of Pseudomonas fluorescens pf-5 [abstract]. International Union of Microbiological Societies. Abstract No. B-1258, p. 63-64.

STRESS TOLERANCE IN SACCHAROMYCES CEREVISIAE CELLS OVEREXPRESSING FURFURAL-STRESS GENES - (Proceedings/Symposium)

Gorsich, S.W. 2005. Stress tolerance in Saccharomyces cerevisiae cells overexpressing furfural-stress genes [abstract]. Gordon Research Conference Proceedings. Abstract No. 19.

BIOLOGICAL CONTROL OF POST HARVEST LATE BLIGHT OF POTATOES IN STORAGE BY BACTERIA SUPPRESSIVE TO FUNGAL DRY ROT AND SPROUTING - (Abstract)

Slininger, P.J., Schisler, D.A., Kleinkopf, G. 2005. Biological control of post harvest late blight of potatoes in storage by bacteria suppressive to fungal dry rot and sprouting. In: Potato Association of America Annual Meeting Proceedings, July 17-22, 2005, Calgary, Alberta, Canada. Paper No. G39.

BIOLOGICAL SOLUTIONS TO CROP PROTECTION: A SHIFT FROM THE CHEMICAL PARADIGM - (Abstract)

Slininger, P.J. 2005. Biological solutions to crop protection: A shift from the chemical paradigm. In: Kendra, D., Harper, R., editors. Corn Dry Milling Conference Proceedings. North American Millers Associaton, June 2-3, 2005, Peoria, IL. p. 12.

INDUCTION OF PLEIOTROPIC DRUG RESISTANCE GENE EXPRESSION INDICATES IMPORTANT ROLES OF PDR TO COPE WITH FURFURAL AND 5-HYDROXYMETHYLFURFURAL STRESS IN ETHANOLOGENIC YEAST - (Abstract)

Liu, Z., Slininger, P.J. 2005. Induction of pleiotropic drug resistance gene expression indicates important roles of pdr to cope with furfural and 5-hydroxymethylfurfural stress in ethanologenic yeast [abstract]. Biotechnology for Fuels and Chemicals Symposium Proceedings. Abstract No. 169.

THE ROLE OF THE PENTOSE PHOSPHATE PATHWAY IN FERMENTATION INHIBITOR TOLERANCE - (Abstract)

Gorsich, S.W., Liu, Z., Slininger, P.J. 2005. The role of the pentose phosphate pathway in fermentation inhibitor tolerance. Biotechnology for Fuels and Chemicals Symposium Proceedings. Abstract No. 5-33.

TRANSCRIPTOME DYNAMICS OF ETHANOLOGENIC YEAST IN RESPONSE TO 5-HYDROXYMETHYLFURFURAL STRESS RELATED TO BIOMASS CONVERSION TO ETHANOL - (Proceedings/Symposium)

Liu, Z., Slininger, P.J. 2005. Transcriptome dynamics of ethanologenic yeast in response to 5-hydroxymethylfurfural stress related to biomass conversion to ethanol [abstract]. Abstract Book. p. 991.

TRANSCRIPTOME DYNAMICS OF ETHANOLOGENIC YEAST IN RESPONSE TO 5-HYDROXYMETHYLFURFURAL STRESS RELATED TO BIOMASS CONVERSION TO ETHANOL - (Abstract)

Liu, Z., Slininger, P.J. 2005. Transcriptome dynamics of ethanologenic yeast in response to 5-hydroxymethylfurfural stress related to biomass conversion to ethanol [abstract]. Paper No. 177C.

BIOLOGICAL SOLUTIONS TO CROP PROTECTION. A SHIFT FROM THE CHEMICAL PARADIGM - (Abstract)

(11-Feb-05)

FUNCTIONAL GENOMICS OF MICROBIAL STRESS TOLERANCE - (Abstract)

(02-Dec-04)

DEVELOPMENT OF GENETICALLY ENGINEERED STRESS TOLERANT ETHANOLOGENIC YEASTS USING INTEGRATED FUNCTIONAL GENOMICS FOR EFFECTIVE BIOMASS CONVERSION TO ETHANOL - (Book/Chapter)

Liu, Z., Slininger, P.J. 2005. Development of genetically engineered stress tolerant ethanologenic yeasts using integrated functional genomics for effective biomass conversion to ethanol. In: Collins, K., Duffield, J., Outlaw, J., editors. Agriculture as a Producer and Consumer of Energy. Wallingford, UK: CAB International, p. 283-294.