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Journal articles on the topic 'Metabolic footprinting'

Author: Grafiati

Published: 4 June 2021

Last updated: 3 February 2022

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1

Chumnanpuen, Pramote, Michael Adsetts Edberg Hansen, Jørn Smedsgaard, and Jens Nielsen. "Dynamic Metabolic Footprinting Reveals the Key Components of Metabolic Network in YeastSaccharomyces cerevisiae." International Journal of Genomics 2014 (2014): 1–14. http://dx.doi.org/10.1155/2014/894296.

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Metabolic footprinting offers a relatively easy approach to exploit the potentials of metabolomics for phenotypic characterization of microbial cells. To capture the highly dynamic nature of metabolites, we propose the use of dynamic metabolic footprinting instead of the traditional method which relies on analysis at a single time point. Using direct infusion-mass spectrometry (DI-MS), we could observe the dynamic metabolic footprinting in yeastS. cerevisiaeBY4709 (wild type) cultured on 3 different C-sources (glucose, glycerol, and ethanol) and sampled along 10 time points with 5 biological r

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Pope, G. A., D. A. MacKenzie, M. Defernez, and I. N. Roberts. "Metabolic Footprinting for the Study of Microbial Biodiversity." Cold Spring Harbor Protocols 2009, no. 5 (2009): pdb.prot5222. http://dx.doi.org/10.1101/pdb.prot5222.

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Surrati, Amal, Rob Linforth, Ian D. Fisk, Virginie Sottile, and Dong-Hyun Kim. "Non-destructive characterisation of mesenchymal stem cell differentiation using LC-MS-based metabolite footprinting." Analyst 141, no. 12 (2016): 3776–87. http://dx.doi.org/10.1039/c6an00170j.

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4

Pope, Georgina A., Donald A. MacKenzie, Marianne Defernez, et al. "Metabolic footprinting as a tool for discriminating between brewing yeasts." Yeast 24, no. 8 (2007): 667–79. http://dx.doi.org/10.1002/yea.1499.

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Kell, Douglas B., Marie Brown, Hazel M. Davey, Warwick B. Dunn, Irena Spasic, and Stephen G. Oliver. "Metabolic footprinting and systems biology: the medium is the message." Nature Reviews Microbiology 3, no. 7 (2005): 557–65. http://dx.doi.org/10.1038/nrmicro1177.

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Honoré, Anders H., Stina D. Aunsbjerg, Parvaneh Ebrahimi, et al. "Metabolic footprinting for investigation of antifungal properties of Lactobacillus paracasei." Analytical and Bioanalytical Chemistry 408, no. 1 (2015): 83–96. http://dx.doi.org/10.1007/s00216-015-9103-6.

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7

Behrends, Volker, Tim M. D. Ebbels, Huw D. Williams, and Jacob G. Bundy. "Time-Resolved Metabolic Footprinting for Nonlinear Modeling of Bacterial Substrate Utilization." Applied and Environmental Microbiology 75, no. 8 (2009): 2453–63. http://dx.doi.org/10.1128/aem.01742-08.

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ABSTRACT Untargeted profiling of small-molecule metabolites from microbial culture supernatants (metabolic footprinting) has great potential as a phenotyping tool. We used time-resolved metabolic footprinting to compare one Escherichia coli and three Pseudomonas aeruginosa strains growing on complex media and show that considering metabolite changes over the whole course of growth provides much more information than analyses based on data from a single time point. Most strikingly, there was pronounced selectivity in metabolite uptake, even when the bacteria were growing apparently exponentiall

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Dowlatabadi, Reza, Aalim M. Weljie, Trevor A. Thorpe, Edward C. Yeung, and Hans J. Vogel. "Metabolic footprinting study of white spruce somatic embryogenesis using NMR spectroscopy." Plant Physiology and Biochemistry 47, no. 5 (2009): 343–50. http://dx.doi.org/10.1016/j.plaphy.2008.12.023.

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9

Baran, Richard, Benjamin P. Bowen, Morgan N. Price, Adam P. Arkin, Adam M. Deutschbauer, and Trent R. Northen. "Metabolic Footprinting of Mutant Libraries to Map Metabolite Utilization to Genotype." ACS Chemical Biology 8, no. 1 (2012): 189–99. http://dx.doi.org/10.1021/cb300477w.

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10

Pimentel, Grégory, Kathryn J. Burton, Ueli von Ah, et al. "Metabolic Footprinting of Fermented Milk Consumption in Serum of Healthy Men." Journal of Nutrition 148, no. 6 (2018): 851–60. http://dx.doi.org/10.1093/jn/nxy053.

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11

Szeto, Samuel S. W., Stacey N. Reinke, Brian D. Sykes, and Bernard D. Lemire. "Mutations in theSaccharomyces cerevisiaeSuccinate Dehydrogenase Result in Distinct Metabolic Phenotypes Revealed Through1H NMR-Based Metabolic Footprinting." Journal of Proteome Research 9, no. 12 (2010): 6729–39. http://dx.doi.org/10.1021/pr100880y.

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12

Mapelli, Valeria, Lisbeth Olsson, and Jens Nielsen. "Metabolic footprinting in microbiology: methods and applications in functional genomics and biotechnology." Trends in Biotechnology 26, no. 9 (2008): 490–97. http://dx.doi.org/10.1016/j.tibtech.2008.05.008.

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13

Resmer, Kelly L., and Robert L. White. "Metabolic footprinting of the anaerobic bacterium Fusobacterium varium using 1H NMR spectroscopy." Molecular BioSystems 7, no. 7 (2011): 2220. http://dx.doi.org/10.1039/c1mb05105a.

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14

Allen, Jess, Hazel M. Davey, David Broadhurst, et al. "High-throughput classification of yeast mutants for functional genomics using metabolic footprinting." Nature Biotechnology 21, no. 6 (2003): 692–96. http://dx.doi.org/10.1038/nbt823.

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15

Behrends, Volker, Benedikt Geier, Huw D. Williams, and Jacob G. Bundy. "Direct Assessment of Metabolite Utilization by Pseudomonas aeruginosa during Growth on Artificial Sputum Medium." Applied and Environmental Microbiology 79, no. 7 (2013): 2467–70. http://dx.doi.org/10.1128/aem.03609-12.

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ABSTRACTWe grewPseudomonas aeruginosain LB and artificial sputum medium (ASM) (filtered and unfiltered) and quantified metabolite utilization and excretion by nuclear magnetic resonance (NMR) spectroscopy (metabolic footprinting or extracellular metabolomics). Utilization rates were similar between media, but there were differences in excretion—e.g., acetate was produced only in unfiltered ASM.

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Allen, Jess, Hazel M. Davey, David Broadhurst, Jem J. Rowland, Stephen G. Oliver, and Douglas B. Kell. "Discrimination of Modes of Action of Antifungal Substances by Use of Metabolic Footprinting." Applied and Environmental Microbiology 70, no. 10 (2004): 6157–65. http://dx.doi.org/10.1128/aem.70.10.6157-6165.2004.

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ABSTRACT Diploid cells of Saccharomyces cerevisiae were grown under controlled conditions with a Bioscreen instrument, which permitted the essentially continuous registration of their growth via optical density measurements. Some cultures were exposed to concentrations of a number of antifungal substances with different targets or modes of action (sterol biosynthesis, respiratory chain, amino acid synthesis, and the uncoupler). Culture supernatants were taken and analyzed for their “metabolic footprints” by using direct-injection mass spectrometry. Discriminant function analysis and hierarchic

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17

Johanningsmeier, Suzanne D., and Roger F. McFeeters. "Metabolic footprinting of Lactobacillus buchneri strain LA1147 during anaerobic spoilage of fermented cucumbers." International Journal of Food Microbiology 215 (December 2015): 40–48. http://dx.doi.org/10.1016/j.ijfoodmicro.2015.08.004.

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18

Villas-Bôas, Silas G., Samantha Noel, Geoffrey A. Lane, Graeme Attwood, and Adrian Cookson. "Extracellular metabolomics: A metabolic footprinting approach to assess fiber degradation in complex media." Analytical Biochemistry 349, no. 2 (2006): 297–305. http://dx.doi.org/10.1016/j.ab.2005.11.019.

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19

A., Seenivasan, Satya Eswari J., Sankar P., S. N. Gummadi, T. Panda, and Venkateswarlu Ch. "Metabolic pathway analysis and dynamic macroscopic model development for lovastatin production by Monascus purpureus using metabolic footprinting concept." Biochemical Engineering Journal 154 (February 2020): 107437. http://dx.doi.org/10.1016/j.bej.2019.107437.

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20

Barderas, Maria G., Carlos M. Laborde, Maria Posada, et al. "Metabolomic Profiling for Identification of Novel Potential Biomarkers in Cardiovascular Diseases." Journal of Biomedicine and Biotechnology 2011 (2011): 1–9. http://dx.doi.org/10.1155/2011/790132.

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Metabolomics involves the identification and quantification of metabolites present in a biological system. Three different approaches can be used: metabolomic fingerprinting, metabolic profiling, and metabolic footprinting, in order to evaluate the clinical course of a disease, patient recovery, changes in response to surgical intervention or pharmacological treatment, as well as other associated features. Characteristic patterns of metabolites can be revealed that broaden our understanding of a particular disorder. In the present paper, common strategies and analytical techniques used in meta

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21

Gerdes, Svetlana Y., Michael D. Scholle, Mark D'Souza, et al. "From Genetic Footprinting to Antimicrobial Drug Targets: Examples in Cofactor Biosynthetic Pathways." Journal of Bacteriology 184, no. 16 (2002): 4555–72. http://dx.doi.org/10.1128/jb.184.16.4555-4572.2002.

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ABSTRACT Novel drug targets are required in order to design new defenses against antibiotic-resistant pathogens. Comparative genomics provides new opportunities for finding optimal targets among previously unexplored cellular functions, based on an understanding of related biological processes in bacterial pathogens and their hosts. We describe an integrated approach to identification and prioritization of broad-spectrum drug targets. Our strategy is based on genetic footprinting in Escherichia coli followed by metabolic context analysis of essential gene orthologs in various species. Genes re

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22

Weber, Ralf, Erik Selander, Ulf Sommer, and Mark Viant. "A Stable-Isotope Mass Spectrometry-Based Metabolic Footprinting Approach to Analyze Exudates from Phytoplankton." Marine Drugs 11, no. 11 (2013): 4158–75. http://dx.doi.org/10.3390/md11114158.

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23

Carneiro, S., S. Villas-Bôas, I. Rocha, and E. C. Ferreira. "Metabolic footprinting of Escherichia coli grown in fed-batch fermentation during recombinant protein production." New Biotechnology 25 (September 2009): S342. http://dx.doi.org/10.1016/j.nbt.2009.06.828.

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24

VILLAS-BÔAS, Silas G., Joel F. MOXLEY, Mats ÅKESSON, Gregory STEPHANOPOULOS, and Jens NIELSEN. "High-throughput metabolic state analysis: the missing link in integrated functional genomics of yeasts." Biochemical Journal 388, no. 2 (2005): 669–77. http://dx.doi.org/10.1042/bj20041162.

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The lack of comparable metabolic state assays severely limits understanding the metabolic changes caused by genetic or environmental perturbations. The present study reports the application of a novel derivatization method for metabolome analysis of yeast, coupled to data-mining software that achieve comparable throughput, effort and cost compared with DNA arrays. Our sample workup method enables simultaneous metabolite measurements throughout central carbon metabolism and amino acid biosynthesis, using a standard GC-MS platform that was optimized for this purpose. As an implementation proof-o

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25

Li, DanYang, Yan Zheng, Lai-yu Kwok, WenYi Zhang, and TianSong Sun. "Metabolic footprinting revealed key biochemical changes in a brown fermented milk product using Streptococcus thermophilus." Journal of Dairy Science 103, no. 3 (2020): 2128–38. http://dx.doi.org/10.3168/jds.2019-16881.

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26

Mas, Sandrine, Silas Granato Villas-Bôas, Michael Edberg Hansen, Mats Åkesson, and Jens Nielsen. "A comparison of direct infusion MS and GC-MS for metabolic footprinting of yeast mutants." Biotechnology and Bioengineering 96, no. 5 (2007): 1014–22. http://dx.doi.org/10.1002/bit.21194.

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27

Richter, Chandra L., Barbara Dunn, Gavin Sherlock, and Tom Pugh. "Comparative metabolic footprinting of a large number of commercial wine yeast strains in Chardonnay fermentations." FEMS Yeast Research 13, no. 4 (2013): 394–410. http://dx.doi.org/10.1111/1567-1364.12046.

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28

Honoré, Anders H., Michael Thorsen, and Thomas Skov. "Liquid chromatography–mass spectrometry for metabolic footprinting of co-cultures of lactic and propionic acid bacteria." Analytical and Bioanalytical Chemistry 405, no. 25 (2013): 8151–70. http://dx.doi.org/10.1007/s00216-013-7269-3.

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29

Brison, Daniel R., Katherine Hollywood, Ruth Arnesen, and Royston Goodacre. "Predicting human embryo viability: the road to non-invasive analysis of the secretome using metabolic footprinting." Reproductive BioMedicine Online 15, no. 3 (2007): 296–302. http://dx.doi.org/10.1016/s1472-6483(10)60342-2.

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30

Baran, Richard, Benjamin P. Bowen, and Trent R. Northen. "Untargeted metabolic footprinting reveals a surprising breadth of metabolite uptake and release by Synechococcus sp. PCC 7002." Molecular BioSystems 7, no. 12 (2011): 3200. http://dx.doi.org/10.1039/c1mb05196b.

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31

Knott, María Elena, Malena Manzi, Nicolás Zabalegui, Mario O. Salazar, Lydia I. Puricelli, and María Eugenia Monge. "Metabolic Footprinting of a Clear Cell Renal Cell Carcinoma in Vitro Model for Human Kidney Cancer Detection." Journal of Proteome Research 17, no. 11 (2018): 3877–88. http://dx.doi.org/10.1021/acs.jproteome.8b00538.

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32

Henriques, Inês D. S., Diana S. Aga, Pedro Mendes, Seamus K. O'Connor, and Nancy G. Love. "Metabolic Footprinting: A New Approach to Identify Physiological Changes in Complex Microbial Communities upon Exposure to Toxic Chemicals." Environmental Science & Technology 41, no. 11 (2007): 3945–51. http://dx.doi.org/10.1021/es062796t.

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33

Pasikanti, Kishore Kumar, Juwita Norasmara, Shirong Cai, et al. "Metabolic footprinting of tumorigenic and nontumorigenic uroepithelial cells using two-dimensional gas chromatography time-of-flight mass spectrometry." Analytical and Bioanalytical Chemistry 398, no. 3 (2010): 1285–93. http://dx.doi.org/10.1007/s00216-010-4055-3.

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34

Gerdes, S. Y., M. D. Scholle, J. W. Campbell, et al. "Experimental Determination and System Level Analysis of Essential Genes in Escherichia coli MG1655." Journal of Bacteriology 185, no. 19 (2003): 5673–84. http://dx.doi.org/10.1128/jb.185.19.5673-5684.2003.

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ABSTRACT Defining the gene products that play an essential role in an organism's functional repertoire is vital to understanding the system level organization of living cells. We used a genetic footprinting technique for a genome-wide assessment of genes required for robust aerobic growth of Escherichia coli in rich media. We identified 620 genes as essential and 3,126 genes as dispensable for growth under these conditions. Functional context analysis of these data allows individual functional assignments to be refined. Evolutionary context analysis demonstrates a significant tendency of essen

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35

To, Kelvin K. W., Ami M. Y. Fung, Jade L. L. Teng, et al. "Characterization of a Tsukamurella Pseudo-Outbreak by Phenotypic Tests, 16S rRNA Sequencing, Pulsed-Field Gel Electrophoresis, and Metabolic Footprinting." Journal of Clinical Microbiology 51, no. 1 (2012): 334–38. http://dx.doi.org/10.1128/jcm.02845-12.

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36

Caneba, Christine A., Nadège Bellance, Lifeng Yang, Lisa Pabst, and Deepak Nagrath. "Pyruvate uptake is increased in highly invasive ovarian cancer cells under anoikis conditions for anaplerosis, mitochondrial function, and migration." American Journal of Physiology-Endocrinology and Metabolism 303, no. 8 (2012): E1036—E1052. http://dx.doi.org/10.1152/ajpendo.00151.2012.

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Anoikis resistance, or the ability for cells to live detached from the extracellular matrix, is a property of epithelial cancers. The “Warburg effect,” or the preference of cancer cells for glycolysis for their energy production even in the presence of oxygen, has been shown to be evident in various tumors. Since a cancer cell's metastatic ability depends on microenvironmental conditions (nutrients, stromal cells, and vascularization) and is highly variable for different organs, their cellular metabolic fluxes and nutrient demand may show considerable differences. Moreover, a cancer cell's met

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37

Patil, Chandrashekhar, Christophe Calvayrac, Yuxiang Zhou та ін. "Environmental Metabolic Footprinting: A novel application to study the impact of a natural and a synthetic β-triketone herbicide in soil". Science of The Total Environment 566-567 (жовтень 2016): 552–58. http://dx.doi.org/10.1016/j.scitotenv.2016.05.071.

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38

Kaderbhai, Naheed N., David I. Broadhurst, David I. Ellis, Royston Goodacre, and Douglas B. Kell. "Functional Genomics via Metabolic Footprinting: Monitoring Metabolite Secretion byEscherichia coliTryptophan Metabolism Mutants Using FT–IR and Direct Injection Electrospray Mass Spectrometry." Comparative and Functional Genomics 4, no. 4 (2003): 376–91. http://dx.doi.org/10.1002/cfg.302.

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We sought to test the hypothesis that mutant bacterial strains could be discriminated from each other on the basis of the metabolites they secrete into the medium (their ‘metabolic footprint’), using two methods of ‘global’ metabolite analysis (FT–IR and direct injection electrospray mass spectrometry). The biological system used was based on a published study ofEscherichia colitryptophan mutants that had been analysed and discriminated by Yanofsky and colleagues using transcriptome analysis. Wild-type strains supplemented with tryptophan or analogues could be discriminated from controls using

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39

Lodi, T., and B. Guiard. "Complex transcriptional regulation of the Saccharomyces cerevisiae CYB2 gene encoding cytochrome b2: CYP1(HAP1) activator binds to the CYB2 upstream activation site UAS1-B2." Molecular and Cellular Biology 11, no. 7 (1991): 3762–72. http://dx.doi.org/10.1128/mcb.11.7.3762.

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Expression of the Saccharomyces cerevisiae gene encoding cytochrome b2 (EC 1.2.2.3), CYB2, was investigated by direct analysis of mRNA transcripts and by measurement of the expression of lacZ fused to the CYB2 control regions. These studies indicated that regulation of the CYB2 gene is subject to several metabolic controls at the transcriptional level: inhibition due to glucose fermentation, induction by lactate, and inhibition in anaerobiosis or in absence of heme biosynthesis. Furthermore, we have shown that the CYB2 promoter contains one cis negative regulatory region and two heme-dependent

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40

Lodi, T., and B. Guiard. "Complex transcriptional regulation of the Saccharomyces cerevisiae CYB2 gene encoding cytochrome b2: CYP1(HAP1) activator binds to the CYB2 upstream activation site UAS1-B2." Molecular and Cellular Biology 11, no. 7 (1991): 3762–72. http://dx.doi.org/10.1128/mcb.11.7.3762-3772.1991.

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Expression of the Saccharomyces cerevisiae gene encoding cytochrome b2 (EC 1.2.2.3), CYB2, was investigated by direct analysis of mRNA transcripts and by measurement of the expression of lacZ fused to the CYB2 control regions. These studies indicated that regulation of the CYB2 gene is subject to several metabolic controls at the transcriptional level: inhibition due to glucose fermentation, induction by lactate, and inhibition in anaerobiosis or in absence of heme biosynthesis. Furthermore, we have shown that the CYB2 promoter contains one cis negative regulatory region and two heme-dependent

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41

Weljie, Aalim M., Paola Neri, Farzana Sayani, and Nizar J. Bahlis. "Extracellular Metabolite Biomarkers of Bortezomib Resistance in Multiple Myeloma Indicate Involvement of Unexpected Metabolic Pathways." Blood 114, no. 22 (2009): 1839. http://dx.doi.org/10.1182/blood.v114.22.1839.1839.

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Abstract Abstract 1839 Poster Board I-865 Introduction and Objectives: Bortezomib (BZ) is a chemotherapeutic agent approved for the treatment of multiple myeloma (MM). BZ acts through proteasome inhibition, inducing significant ER stress and ideally resulting in cell death. Unfortunately, nearly 20% of MM patients are primarily resistant to BZ treatment and responses to BZ are difficult to predict based on the currently available clinical, cytogenetic and genomic biomarkers. Our function hypothesis is that extracellular metabolites have a greater potential to be found in circulating biofluids

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42

Mohd Yusof, Hazwani, Sharaniza Ab-Rahim, Wan Zurinah Wan Ngah, Sheila Nathan, A. Rahman A Jamal, and Musalmah Mazlan. "Extracellular Metabolites Profile of Different Stages Colorectal Cancer Cell Lines." Science Letters 15, no. 2 (2021): 26–41. http://dx.doi.org/10.24191/sl.v15i2.13810.

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Metabolic footprinting involves the determination of metabolites excreted or secreted by the cells. This study aimed to identify the differential extracellular metabolites in colorectal cancer (CRC) cells for the determination of molecular changes that occur as CRC progresses. CRC cells at different stages ie; SW 1116 (stage A), HT 29 and SW 480 (stage B), HCT 15 and DLD-1 (stage C), and HCT 116 (stage D) were grown in culture. The media in which the cells were grown are subjected to metabolomics profiling using Liquid Chromatography Mass Spectrometry-Quadrupole Time of Flight (LC/MS Q-TOF). S

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43

Mai, Bernard, Shawna Miles, and Linda L. Breeden. "Characterization of the ECB Binding Complex Responsible for the M/G1-Specific Transcription of CLN3 and SWI4." Molecular and Cellular Biology 22, no. 2 (2002): 430–41. http://dx.doi.org/10.1128/mcb.22.2.430-441.2002.

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ABSTRACT The transcription factor Mcm1 is regulated by adjacent binding of a variety of different factors regulating the expression of cell-type-specific, cell cycle-specific, and metabolic genes. In this work, we investigate a new class of Mcm1-regulated promoters that are cell cycle regulated and peak in late M-early G1 phase of the cell cycle via a promoter element referred to as an early cell cycle box (ECB). Gel filtration experiments indicate that the ECB-specific DNA binding complex is over 200 kDa in size and includes Mcm1 and at least one additional protein. Using DNase I footprinting

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Kim, Dong-Hyun, Roger M. Jarvis, Yun Xu, et al. "Combining metabolic fingerprinting and footprinting to understand the phenotypic response of HPV16 E6 expressing cervical carcinoma cells exposed to the HIV anti-viral drug lopinavir." Analyst 135, no. 6 (2010): 1235. http://dx.doi.org/10.1039/b923046g.

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Sieira, Rodrigo, Gastón M. Arocena, Lucas Bukata, Diego J. Comerci, and Rodolfo A. Ugalde. "Metabolic Control of Virulence Genes in Brucella abortus: HutC Coordinates virB Expression and the Histidine Utilization Pathway by Direct Binding to Both Promoters." Journal of Bacteriology 192, no. 1 (2009): 217–24. http://dx.doi.org/10.1128/jb.01124-09.

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ABSTRACT Type IV secretion systems (T4SS) are multicomponent machineries involved in the translocation of effector molecules across the bacterial cell envelope. The virB operon of Brucella abortus codes for a T4SS that is essential for virulence and intracellular multiplication of the bacterium in the host. Previous studies showed that the virB operon of B. abortus is tightly regulated within the host cells. In order to identify factors implicated in the control of virB expression, we searched for proteins of Brucella that directly bind to the virB promoter (P virB ). Using different procedure

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46

Højer-Pedersen, Jesper, Jørn Smedsgaard, and Jens Nielsen. "The yeast metabolome addressed by electrospray ionization mass spectrometry: Initiation of a mass spectral library and its applications for metabolic footprinting by direct infusion mass spectrometry." Metabolomics 4, no. 4 (2008): 393–405. http://dx.doi.org/10.1007/s11306-008-0132-4.

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47

Raposo, Maria Paiva, José Manuel Inácio, Luís Jaime Mota, and Isabel de Sá-Nogueira. "Transcriptional Regulation of Genes Encoding Arabinan-Degrading Enzymes in Bacillus subtilis." Journal of Bacteriology 186, no. 5 (2004): 1287–96. http://dx.doi.org/10.1128/jb.186.5.1287-1296.2004.

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ABSTRACT Bacillus subtilis produces hemicellulases capable of releasing arabinosyl oligomers and arabinose from plant cell walls. In this work, we characterize the transcriptional regulation of three genes encoding arabinan-degrading enzymes that are clustered with genes encoding enzymes that further catabolize arabinose. The abfA gene comprised in the metabolic operon araABDLMNPQ-abfA and the xsa gene located 23 kb downstream most probably encode α-l-arabinofuranosidases (EC 3.2.1.55). Here, we show that the abnA gene, positioned immediately upstream from the metabolic operon, encodes an endo

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48

Carrau, Francisco M., Eduardo Boido, and Eduardo Dellacassa. "Terpenoids in Grapes and Wines: Origin and Micrometabolism during the Vinification Process." Natural Product Communications 3, no. 4 (2008): 1934578X0800300. http://dx.doi.org/10.1177/1934578x0800300419.

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Terpenoids, which are typical components of the essential oils of flowers and fruits, are also present as free and glycosylated conjugates amongst the secondary metabolites of wine grape varieties of Vitis vinifera. Hence, when these compounds are present in wine, they are considered to originate from the grapes and not from fermentation. However, the biosynthesis of monoterpenes by Saccharomyces cerevisiae in the absence of grape derived precursors was shown recently to be of de novo origin in wine yeast strains. The contribution of yeast and bacterial fermentation metabolites to the aromatic

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49

Ogasawara, Hiroshi, Yuji Ishida, Kayoko Yamada, Kaneyoshi Yamamoto, and Akira Ishihama. "PdhR (Pyruvate Dehydrogenase Complex Regulator) Controls the Respiratory Electron Transport System in Escherichia coli." Journal of Bacteriology 189, no. 15 (2007): 5534–41. http://dx.doi.org/10.1128/jb.00229-07.

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ABSTRACT The pyruvate dehydrogenase (PDH) multienzyme complex plays a key role in the metabolic interconnection between glycolysis and the citric acid cycle. Transcription of the Escherichia coli genes for all three components of the PDH complex in the pdhR-aceEF-lpdA operon is repressed by the pyruvate-sensing PdhR, a GntR family transcription regulator, and derepressed by pyruvate. After a systematic search for the regulation targets of PdhR using genomic systematic evolution of ligands by exponential enrichment (SELEX), we have identified two novel targets, ndh, encoding NADH dehydrogenase

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50

Galdiero, Emilia, Maria Michela Salvatore, Angela Maione, et al. "Impact of the Peptide WMR-K on Dual-Species Biofilm Candida albicans/Klebsiella pneumoniae and on the Untargeted Metabolomic Profile." Pathogens 10, no. 2 (2021): 214. http://dx.doi.org/10.3390/pathogens10020214.

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In recent years, the scientific community has focused on the development of new antibiotics to address the difficulties linked to biofilm-forming microorganisms and drug-resistant infections. In this respect, synthetic antimicrobial peptides (AMPs) are particularly regarded for their therapeutic potential against a broad spectrum of pathogens. In this work, the antimicrobial and antibiofilm activities of the peptide WMR-K towards single and dual species cultures of Candida albicans and Klebsiella pneumoniae were investigated. We found minimum inhibitory concentration (MIC) values for WMR-K of

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