Team:Evry/References

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Iron coli project

References

Biology

Iron metabolism and iron associated diseases in humans

  • Casarrubea, D., Viatte, L., Hallas, T., Vasanthakumar, A., Eisenstein, R.S., Schümann, K., Hentze, M.W., and Galy, B. (2013). Abnormal body iron distribution and erythropoiesis in a novel mouse model with inducible gain of iron regulatory protein (IRP)-1 function. Journal of Molecular Medicine 91, 871–881. (link to the pdf)
  • Ganz, T., and Nemeth, E. (2011). Hepcidin and Disorders of Iron Metabolism. Annual Review of Medicine 62, 347–360.
  • Hentze, M.W., Muckenthaler, M.U., Galy, B., and Camaschella, C. (2010). Two to Tango: Regulation of Mammalian Iron Metabolism. Cell 142, 24–38. (link to the pdf)
  • Nicolas, G. (2004). Hepcidin, a candidate modifier of the hemochromatosis phenotype in mice. Blood 103, 2841–2843. (link to the pdf)
  • Nicolas, G., Bennoun, M., Devaux, I., Beaumont, C., Grandchamp, B., Kahn, A., and Vaulont, S. (2001). From the Cover: Lack of hepcidin gene expression and severe tissue iron overload in upstream stimulatory factor 2 (USF2) knockout mice. Proceedings of the National Academy of Sciences 98, 8780–8785. (link to the pdf)
  • Pantopoulos, K., Porwal, S.K., Tartakoff, A., and Devireddy, L. (2012). Mechanisms of Mammalian Iron Homeostasis. Biochemistry 51, 5705–5724.
  • Viatte, L. (2006). Chronic hepcidin induction causes hyposideremia and alters the pattern of cellular iron accumulation in hemochromatotic mice. Blood 107, 2952–2958. (link to the pdf)

FUR and iron metabolism in bacteria

  • Ahmad, R., Brandsdal, B.O., Michaud-Soret, I., and Willassen, N.-P. (2009). Ferric uptake regulator protein: Binding free energy calculations and per-residue free energy decomposition. Proteins: Structure, Function, and Bioinformatics 75, 373–386. (link to the pdf)
  • Andrews, S.C., Robinson, A.K., and Rodríguez-Quiñones, F. (2003). Bacterial iron homeostasis. FEMS Microbiol. Rev. 27, 215–237. (link to the pdf)
  • Escolar, L. , Pérez-Martín, J., and De Lorenzo, V. (1991). Opening the Iron Box: Transcriptional Metalloregulation by the Fur Protein. Journal of Bacteriology 181,20. (link to the pdf)
  • Guerinot, M.L. (1994). Microbial iron transport. Annu. Rev. Microbiol. 48, 743–772.
  • Oglesby-Sherrouse, A.G., and Murphy, E.R. (2013). Iron-responsive bacterial small RNAs: variations on a theme. Metallomics 5, 276.
  • Pecqueur, L. (2006). Structural Changes of Escherichia coli Ferric Uptake Regulator during Metal-dependent Dimerization and Activation Explored by NMR and X-ray Crystallography. Journal of Biological Chemistry 281, 21286–21295. (link to the pdf)
  • Schilling, C.H., Held, L., Torre, M., and Saier, M.H., Jr (2000). GRASP-DNA: a web application to screen prokaryotic genomes for specific DNA-binding sites and repeat motifs. J. Mol. Microbiol. Biotechnol. 2, 495–500. (link to the pdf)
  • Tiss, A., Barre, O., Michaud-Soret, I., and Forest, E. (2005). Characterization of the DNA-binding site in the ferric uptake regulator protein from Escherichia coli by UV crosslink to the pdfing and mass spectrometry. FEBS Letters 579, 5454–5460. (link to the pdf)
  • Tsolis, R., Baumler, A.J., Stojiljkovic, I., and Heffron, F. (1995). Fur regulon of Salmonella typhimurium: identification of new iron-regulated genes. Journal of Bacteriology 177, 4628–4637. (link to the pdf)
  • Valdebenito, M., Crumbliss, A.L., Winkelmann, G., and Hantke, K. (2006). Environmental factors influence the production of enterobactin, salmochelin, aerobactin, and yersiniabactin in Escherichia coli strain Nissle 1917. International Journal of Medical Microbiology 296, 513–520.
  • Visca, P., Leoni, L., Wilson, M.J., and Lamont, I.L. (2002). Iron transport and regulation, cell signalling and genomics: lessons from Escherichia coli and Pseudomonas. Mol. Microbiol. 45, 1177–1190. (link to the pdf)
  • Zhang, Z., Gosset, G., Barabote, R., Gonzalez, C.S., Cuevas, W.A., and Saier, M.H. (2005). Functional Interactions between the Carbon and Iron Utilization Regulators, Crp and Fur, in Escherichia coli. Journal of Bacteriology 187, 980–990. (link to the pdf)

Siderophores

  • Hider, R.C. Siderophore mediated absorption of iron. In Siderophores from Microorganisms and Plants. (Berlin, Heidelberg: Springer Berlin Heidelberg), pp. 25–87.
  • Matzanke, B.F. Siderophores and Iron Metabolism - Structures, Functions, Role in Infection and Potential as a Novel Class of Antibiotics. (link to the pdf)

Microbiot, probiotic, safety

  • Arribas, B., Rodríguez-Cabezas, M., Camuesco, D., Comalada, M., Bailón, E., Utrilla, P., Nieto, A., Concha, A., Zarzuelo, A., and Gálvez, J. (2009). A probiotic strain of Escherichia coli , Nissle 1917, given orally exerts local and systemic anti-inflammatory effects in lipopolysaccharide-induced sepsis in mice. British Journal of Pharmacology 157, 1024–1033. (link to the pdf)
  • Bermúdez-Humarán, L.G., Aubry, C., Motta, J.-P., Deraison, C., Steidler, L., Vergnolle, N., Chatel, J.-M., and Langella, P. (2013). Engineering lactococci and lactobacilli for human health. Current Opinion in Microbiology 16, 278–283.
  • Deriu, E., Liu, J.Z., Pezeshki, M., Edwards, R.A., Ochoa, R.J., Contreras, H., Libby, S.J., Fang, F.C., and Raffatellu, M. (2013). Probiotic Bacteria Reduce Salmonella Typhimurium Intestinal Colonization by Competing for Iron. Cell Host & Microbe 14, 26–37.
  • Hancock, V., Dahl, M., and Klemm, P. (2010). Probiotic Escherichia coli strain Nissle 1917 outcompetes intestinal pathogens during biofilm formation. Journal of Medical Microbiology 59, 392–399. (link to the pdf)
  • Saarela, M., Mogensen, G., Fondén, R., Mättö, J., and Mattila-Sandholm, T. (2000). Probiotic bacteria: safety, functional and technological properties. Journal of Biotechnology 84, 197–215.
  • Skaar, E.P. (2010). The Battle for Iron between Bacterial Pathogens and Their Vertebrate Hosts. PLoS Pathogens 6, e1000949. (link to the pdf)
  • Snydman, D.R. (2008). The Safety of Probiotics. Clinical Infectious Diseases 46, S104–S111. (link to the pdf)

Protocols

  • Louden, B.C., Haarmann, D., and Lynne, A. (2011). Use of Blue Agar CAS Assay for Siderophore Detection. Journal of Microbiology & Biology Education 12,.(link to the pdf)

Modeling

  • B. Hari, S. Bakalis, P. Fryer (2012). Computational Modeling and Simulation of the Human Duodenum (link to the pdf)

Philosophy

  • G. Anders (1980) Die Antiquiertheit des Menschen 2. Über die Zerstörung des Lebens im Zeitalter der dritten industriellen Revolution. C. H. Beck, Munich
  • G. Simondon (1958). Du mode d'existence des objets techniques(On the Mode of Existence of Technical Objects). Aubier

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