Publications

2014

Pinu, F. R., Edwards, P. J.B., Gardner, R. C. and Villas-Boas, S. G. 2014. Nitrogen and carbon assimilation by Saccharomyces cerevisiae during Sauvignon blanc juice fermentation. FEMS Yeast Research. doi:10.1111/1567-1364.12222 >>>

Roager, H.; Sulek, K.; Skov, K.; Frandsen, H.; Smedsgaard, J.; Wilcks, A.; Skov, T.; Villas-Bôas, S.G.; Licht, T. 2014. Lactobacillus acidophilus NCFM affects vitamin E acetate metabolism and intestinal bile acid signature in monocolonized mice. Gut Microbes 10.4161/gmic.28806. doi:10.4161/gmic.28806 >>>

Portela, C.A.F.; Smart, K.F.; Tumanov, S.; Cook, G.M.; Villas-Bôas, S.G. 2014. The global metabolic response of Enterococcus faecalis to oxygen. Journal of Bacteriology 196: 2012 – 2022. doi:10.1128/JB.01354-13 >>>

Anasontzis, G. E.; Kourtoglou, E.; Mamma, D.; Villas-Bôas, S.G.; Hatzinikolaou, D. G.; Christakopoulos, P. 2014. Constitutive homologous expression of phosphoglucomutase and transaldolase increases the metabolic flux of Fusarium oxysporum. Microbial Cell Factories 13: 43. doi:10.1186/1475-2859-13-43 >>>

2013

Portela, C.; Villas-Bôas, S.G.; Rocha, I.; Ferreira, E.C. 2013. Genome scale metabolic network reconstruction of the pathogen Enterococcus faecalis. International Federation of Automatic Control - Proceedings Volumes (IFAC-PapersOnline) 12: 131 – 136. doi:10.3182/20131216-3-IN-2044.00067 >>>

Erogbogbo, F.; May, J.; Swihart, M.; Prasad, P.N.; Smart, K.; El Jack, S.; Korcyk, D.; Webster, M.; Stewart, R.; Zeng, I.; Jullig, M.; Bakeev, K.; Jamieson, M.; Kasabov, N.; Gopalan, B.; Liang, L.; Hu, R.; Schliebs, S.; Villas-Bôas, S.G.; Gladding, P. 2013. Bioengineering silicon quantum dot theranostics using a network analysis of metabolomic and proteomic data in cardiac ischemia. Theranostics 3: 719 – 728. doi:10.7150/thno.5010 >>>

Pinu, F.R., Edwards, P.J. B. S., Jouanneau, Kilmartin, P.A., Gardner, R.C. and Villas-Boas, S. G. Sauvignon blanc metabolomics: grape juice metabolites affecting the development of varietal thiols and other aroma compounds in wines. 2013. Metabolomics. Vol.9. Issue 6. doi:10.1007/s11306-013-0615-9 >>>

Han T-L, Tumanov S, Cannon RD, Villas-Boas SG (2013) Metabolic Response of Candida albicans to Phenylethyl Alcohol under Hyphae-Inducing Conditions. PLoS ONE 8(8): e71364. doi:10.1371/journal.pone.0071364 >>>

Bruheim, P.; Kvitvang, H. F. N.; Villas-Boas, S.G.  2013. Stable isotope coded derivatizing reagents as internal standards in metabolite profiling. Journal of Chromatography A 1296: 196– 203. DOI: 10.1016/j.chroma.2013.03.072 >>>

Villas-Boas, S.G. 2013. Editorial note: Analytical techniques and applications of metabolomics in systems medicine and systems biotechnology. Computational and Structural Biotechnology Journal 4: e201301001. DOI: 10.5936/csbj.201301001 >>>

2012

Carneiro, S.; Villas-Boas, S.G.; Ferreira, E. C.; Rocha, I. 2012. Influence of the RelA activity on E. coli metabolism by metabolite profiling of glucose-limited chemostat cultures. Metabolites 2:717-732. DOI:10.3390/metabo2040717 >>>

Han, T.; Cannon, R.D.; Villas-Boas, S.G. 2012. The metabolic response of Candida albicans to farnesol under hyphae-inducing conditions. FEMS Yeast Research 12: 879 – 889. DOI:10.1111/j.1567-1364.2012.00837.x >>>

Click for downloadingPinu, F.R.; Jouanneau, S.; Nicolau, L.; Gardner, R.C.; Villas-Boas, S.G. 2012. Concentrations of the volatile thiol 3-mercaptohexanol in Sauvignon Blanc wines: No correlation with juice precursors. American Journal of Enology and Viticulture 63: 407 – 413. DOI:10.5344/ajev.2012.11126 >>>

Click for downloadingFrampton, R.; Aggio, R. B. M.; Villas-Bôas, S. G.; Arcus, V.  L.; and Cook, G. M. 2012. Toxin-antitoxin systems of Mycobacterium smegmatis are essential for cell survival. Journal of Biological Chemistry 287: 5340–5356. DOI: 10.1074/jbc.M111.286856.

Click for downloadingDuportet, X.; Aggio, R.; Carneiro, S. and Villas-Bôas, S. G. 2012. The biological interpretation of metabolomic data can be misled by the extraction method used. Metabolomics 8:410–421. DOI: 10.1007/s11306-011-0324-1.

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Han, T.; Cannon, R.D. and Villas-Bôas, S.G. 2012. Metabolome analysis during the morphological transition of Candida albicans. Metabolomics. DOI: 10.1007/s11306+012+0416+6.

Click for downloadingCharlotte M. Wilson; Raphael B.M. Aggio; Paul W. O'Toole; Silas G. Villas-Bôas and Gerald W. 2012. Tannock. Transcriptional and metabolomic consequences of luxS inactivation reveal a metabolic rather than quorum sensing role for LuxS in Lactobacillus reuteri 100-23. Journal of Bacteriology . DOI: 10.1128/ JB.06318-11.

Click for downloadingScott Harrison; Hong Xue; Geoff Lane; Silas Villas-Bôas and Susanne Rasmussen. 2012. Linear Ion Trap MSn of Enzymatically Synthesized 13C-Labeled Fructans Revealing Differentiating Fragmentation Patterns of β (1-2) and β (1-6) Fructans and Providing a Tool for Oligosaccharide Identification in Complex Mixtures. Analytical Chemistry 84: 1540–1548. DOI: 10.1021/ac202816y.

Click for downloadingHarrision, S.; Lane, G.; Villas-Bôas, S.G. and Rasmussen, S. 2012. Automated High-Throughput Analysis of Fractions Generated during the Isolation of Natural Products. New Zealand Journal of Agricultural Research 55: 15-20. DOI: 10.1080/00288233.2011.629662.

2011

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Sue, T; Obolonkin, V; Griffiths, H. and Villas-Bôas, S.G. 2011. An exometabolomics approach to monitoring microbial contamination in microalgal fermentation processes by using metabolic footprint analysis. Applied and Environmental Microbiology 77: 7605-7610.

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Dhami, M; Gardner-Gee, R; Van Houtte, J; Villas-Bôas, S.G. and Beggs, J. 2011. Species-specific chemical signatures in scale insect honeydew. Journal of Chemical Ecology 37: 1231-1241. DOI: 10.1007/s10886-011-0030-5

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Harrison, S; Fraser, K; Lane, G; Villas-Bôas, S.G. and Rasmussen, S. 2011. Analysis of high molecular weight fructan polymers in crude plant extracts by high resolution LC-MS. Analytical  and Bioanalytical Chemistry 401: 2955-2963. DOI: 10.1007/s00216-011-5374-8.

Click for downloadingAggio, R.; Obolonkin, V. and Villas-Bôas, S.G. 2011. Sonic vibration affects the metabolism of yeast cells growing in liquid culture: a metabolomic study. Metabolomics. DOI: 10.1007/s11306-011-0360-x.

Click for downloading Kvitvang , H. F. N.; Andreassen, T.; Adam, T.; Villas-Bôas, S. G. and Bruheim, P. 2011. Highly Sensitive GC/MS/MS Method for Quantitation of Amino and Nonamino Organic Acids. Analytical chemistry. DOI: 10.1021/ac103245b.

Click for downloadingAggio, R.; Villas-Bôas, S. G. and Ruggiero, K. 2011. Metab: an R package for high-throughput analysis of metabolomics data generated by GC-MS. Bioinformatics. DOI: 10.1093/bioinformatics/btq379.

Click for downloadingDuportet, X.; Aggio, R.; Carneiro, S. and Villas-Bôas, S. G. 2011. The biological interpretation of metabolomic data can be misled by the extraction method used. Metabolomics. DOI: 10.1007/s11306-011-0324-1.

Click for downloadingHan, T.; Cannon, R. D. and Villas-Bôas, S. G. 2011. The metabolic basis of Candida albicans morphogenesis and quorum sensing. Fungal Genetics and Biology. DOI: 10.1016/j.fgb.2011.04.002.

Click for downloadingVillas-Bôas, S.G.; Smart, K. F.; Sivakumaran, S.; and Lane, G.A. 2011. Alkylation or silylation for analysis of amino and non-amino organic acids by GC-MS? Metabolites 1: 3–20.

2010

Click for downloadingCarneiro, S.; Villas-Bôas, S.G.; Rocha, I.; and Ferreira, E. C. 2010. Applying a Metabolic Footprinting Approach to Characterize the Impact of the Recombinant Protein Production in Escherichia coli. Advances in Bioinformatics. DOI: 10.1007/978-3-642-13214-8_25.

Click for downloadingNones K., Villas-Bôas, S.G. 2010. Evaluation of the beneficial effects of phytonutrients by metabolomics. In: Engelken S. ed. Genomics, proteomics and metabolomics in nutriceuticals and functional foods. Wiley-Blackwell, Ames, Iowa, USA, p. 287 – 296.

Click for downloadingCarneiro, S.; Villas-Bôas, S.G.; Rocha, I.; and Ferreira, E. C. 2010. Metabolic footprint analysis of recombinant Escherichia coli strains during fed-batch fermentations. Mol BioSyst DOI: 10.1039/C0MB00143K.

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Aggio, R. M. B.; Ruggiero, K.; and Villas-Bôas, S.G. 2010. Pathway Activity Profiling (PAPi): from the metabolite profile to the metabolic pathway activity. Bioinformatics 26: 2969–2976.

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Smart, K. F.; Aggio, R. M. B.; VanHoutte, J. R. and Villas-Bôas, S.G. 2010. Analytical platform for metabolome analysis of microbial cells using methyl chloroformate derivatization followed by gas chromatography-mass spectrometry (GC-MS). Nature Protocols 5: 1709 – 1729.

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Goldstone, D.; Villas-Boas, S.G.; Kelly, W. J.; Attwood, G. T.; and Arcus, V. L. 2010. Structural and functional characterization of a promiscuous feruloyl esterase from Clostridium proteoclasticum. Proteins 78: 1457 – 1469.

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Nones K., Villas-Bôas, S.G. 2010. Evaluation of the beneficial effects of phytonutrients by metabolomics. In: Engelken S ed. Genomics, proteomics and metabolomics in nutriceuticals and functional foods. Wiley-Blackwell, Ames, Iowa, USA, p. 287 – 296.

2009

Click for downloadingVillas-Boas, S.G.; and Roessner, U. 2009. 1st Australasian Symposium on Metabolomics. Bioanalysis 1: 1521 – 1522.

 

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Harrison, S.J.; Fraser, K.; Lane, G. A.; Villas-Boas, S.G.; and Rasmussen, S. 2009. A reverse phase LC/MS method for the analysis of high molecular weight fructooligosaccharides. Analytical Biochemistry 395: 113 – 115.

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Moxley, J. F.; Jewett, M.C.; Villas-Boas, S.G.; Antoniewicz, M.R.; Alper, H; Wheeler, R.T.; Hinnebusch, A.G.; Ideker, T.; Nielsen, J.; and Stephanopoulos, G. 2009. Linking transcriptional regulation and high resolution metabolic phenotypes modulated by the global regulator Gcn4p. Proc Nat Acad Sci USA 106: 6477 – 6482.

2008

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Goldstone, D.; Villas-Bôas, S.G.; Till, M.; Kelly, W. J.; Attwood, G. T.; and Arcus, V. L. 2008. Novel esterase and uses thereof. C12N9/16, Patent Office Journal 1550, page 27

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Stanley, T., Rickard, D., Wickens, K., Villas-Boas, S. 2008. Gut permeability in infantile eczema: relationship to severity, patch test responses and clinical history. Allergy 63: 321 – 322.

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Villas-Boas, S. G.; Moon, C. D.; Noel, S.; Hussein, H.; Kelly, W. J. ; Cao, M.; Lane, G. A.; Cookson, A. L.; and Attwood, G. T. 2008. Phenotypic characterization of transposon-inserted mutants of Clostridium proteoclasticum B316T using extracellular metabolomics. Journal of Biotechnology 134: 55 – 63.

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Goldstone, D.; Villas-Bôas, S.G.; Till, M.; Kelly, W. J.; Attwood, G. T.; and Arcus, V. L. 2008. Novel esterase and uses thereof. C12N9/16, Patent Office Journal 1550, p 27. 2007.

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Villas-Boas, S. G.; and Bruheim, P. 2007. The potential of metabolomics tools for bioremediation studies. OMICS: A Journal of Integrative Biology 11: 305 – 313.

Click for downloadingVillas-Bôas, S.G.; Koulman, A.; and Lane G.A. 2007. Analytical Methods from the perspective of method standardization. In: Topics in Current genetics – Metabolomics, Jewett, M.C.; and Nielsen J. (Eds). Elsevier-Verlag, Berlin, Germany, p. 11 – 52.

Click for downloadingVillas-Bôas, S.G. 2007. Sampling and sample preparation. In: Villas-Bôas, S.G.; Roessner, U; Hansen, M. A. E.; Smedsgaard, J, and Nielsen, J. (Eds), Metabolome Analysis: An Introduction. Wiley-Interscience, New Jersey, USA, p. 15 – 145.

Click for downloadingVillas-Bôas, S.G. 2007. Yeast metabolomics: the discovery of new metabolic pathways in Saccharomyces cerevisiae. In: Villas-Bôas, S.G.; Roessner, U; Hansen, M. A. E.; Smedsgaard, J, and Nielsen, J. (Eds), Metabolome Analysis: An Introduction. Wiley-Interscience, New Jersey, USA, p. 191 – 202.

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Villas-Bôas, S.G. 2007. Microbial metabolomics: rapid sampling techniques to investigate intracellular metabolite dynamics – an overview. In: Villas-Bôas, S.G.; Roessner, U; Hansen, M. A. E.; Smedsgaard, J, and Nielsen, J. (Eds), Metabolome Analysis: An Introduction. Wiley Interscience, New Jersey, USA, p 203 – 214.

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Villas-Bôas, S.G.; Roessner, U; Hansen, M; Smedsgaard, J, and Nielsen, J. (Eds). 2007. Metabolome Analysis: An Introduction. Wiley-Interscience, New Jersey, USA. 320p.

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Villas-Boas, S.G.; and Bruheim, P. 2007. Cold glycerol-saline: the promising quenching solution for accurate intracellular metabolite analysis of microbial cells. Analytical Biochemistry 370: 87 - 97.

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Mas, S.; Villas-Boas, S.G.; Hansen, M.E.; Еkesson, M; Nielsen, J. 2007. A comparison of direct infusion MS and GC-MS for metabolic footprinting of yeast mutants. Biotechnology and Bioengineering 96: 1014 – 1022.

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Villas-Boas, S.G.; Sivakumaran, S.; Attwood, G.; Lane, G.A.; and Cookson, A. 2007. Rapid estimation of polysaccharide content in microbial complex culture media. World Journal of Microbiology and Biotechnology 23: 873 – 876.


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