Team:Calgary/Notebook/References

From 2013.igem.org

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<li>Lawson, D. M., Artymiuk, P. J., Yewdall, S. J., Smith, J. M., Livingstone, J. C., Treffry, A., Luzzago, A., Levi, S., Arosio, P., Cesareni, G. (1991). Solving the structure of human H ferritin by genetically engineering intermolecular crystal contacts. <i>Nature, 349</i>(6309), 541–4. doi:10.1038/349541a0</li>
<li>Lawson, D. M., Artymiuk, P. J., Yewdall, S. J., Smith, J. M., Livingstone, J. C., Treffry, A., Luzzago, A., Levi, S., Arosio, P., Cesareni, G. (1991). Solving the structure of human H ferritin by genetically engineering intermolecular crystal contacts. <i>Nature, 349</i>(6309), 541–4. doi:10.1038/349541a0</li>
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<li>Munro, H.N. (1990). Iron regulation of ferritin gene expression. <i>Journal of Cellular Biochemistry</i> 44(2), 107-115.</li>
<li>Zhang, W., Zhang, Y., Chen, Y., Li, S., Gu, N., Hu, S., Sun, Y., Chen, X., & Li, Q. (2013). Prussian blue modified ferritin as peroxidase mimetics and its applications in biological detection, <i>Journal of Nanoscience and Nanotechnology, 12</i>, 1–8. doi:10.1166/jnn.2012.6871</li>
<li>Zhang, W., Zhang, Y., Chen, Y., Li, S., Gu, N., Hu, S., Sun, Y., Chen, X., & Li, Q. (2013). Prussian blue modified ferritin as peroxidase mimetics and its applications in biological detection, <i>Journal of Nanoscience and Nanotechnology, 12</i>, 1–8. doi:10.1166/jnn.2012.6871</li>
Line 115: Line 117:
<li>Gill, A., Martinez-Perez, A., McIIwham, S., & Blais, B. (2012). Development of a method for the detection of verotoxin-producing <i>Escherichia coli</i> in food. <i>Journal of Food Protection</i>, 75(5), 827-837.</li>
<li>Gill, A., Martinez-Perez, A., McIIwham, S., & Blais, B. (2012). Development of a method for the detection of verotoxin-producing <i>Escherichia coli</i> in food. <i>Journal of Food Protection</i>, 75(5), 827-837.</li>
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<li>Munro, H.N. (1990). Iron regulation of ferritin gene expression. <i>Journal of Cellular Biochemistry</i> 44(2), 107-115.</li>
 
<li>He, Y., Zhang, S., Zhang, X., Baloda, M., Gurung, A. S., Xu, H., … Liu, G. (2011). Ultrasensitive nucleic acid biosensor based on enzyme-gold nanoparticle dual label and lateral flow strip biosensor.<i> Biosensors & Bioelectronics</i>, 26(5), 2018–24. doi:10.1016/j.bios.2010.08.079</li>
<li>He, Y., Zhang, S., Zhang, X., Baloda, M., Gurung, A. S., Xu, H., … Liu, G. (2011). Ultrasensitive nucleic acid biosensor based on enzyme-gold nanoparticle dual label and lateral flow strip biosensor.<i> Biosensors & Bioelectronics</i>, 26(5), 2018–24. doi:10.1016/j.bios.2010.08.079</li>

Revision as of 22:30, 28 October 2013

References

Our Project

  • Belson, K., Fahim, K. (2007, October 6) After extensive beef recall, Topps goes out of business. The New York Times . Retrieved from http://www.nytimes.com/2007/10/06/us/06topps.html?pagewanted=all&_r=0
  • CBC News. (2010, May 10) Inside Walkerton: Canada's worst ever E. coli contamination: the shock, the investigation and the aftermath. CBC News
  • Centers for Disease Control and Prevention. (2005) Enterohemorrhagic Escherichia coli. Retrieved from http://www.cdc.gov/ncidod/dbmd/diseaseinfo/enterohemecoli_t.htm
  • Cross, A. (2012, October 2) Most extensive beef recall in Canadian history expanded again. National Post.
  • FOA/WHO (Food and Agriculture Organization of the United Nations/World Health Organization). (2011) Enterohaemorrhagic Escherichia coli in raw beef and beef product: approaches for the provision of scientific advice. Microbial Risk Assessment Series No 18. Geneva. 126pp.
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  • World Health Organization. (2011) Outbreak of E. coli O104:h4 infection: update 30. Retrieved from http://www.euro.who.int/en/health-topics/disease-prevention/food-safety/news/news/2011/07/outbreaks-of-e.-coli-o104h4-infection-update-30

    • Detector

  • Boch, J., Scholze, H., Schornack, S., Landgraf, A., Hahn, S., Kay, S., … Bonas, U. (2009). Breaking the code of DNA binding specificity of TAL-type III effectors. Science (New York, N.Y.), 326(5959), 1509–12. doi:10.1126/science.1178811
  • Bogdanove, A. J., Schornack, S., & Lahaye, T. (2010). TAL effectors: finding plant genes for disease and defense. Current Opinion in Plant Biology, 13(4), 394–401. doi:10.1016/j.pbi.2010.04.010
  • Bogdanove, A. J., & Voytas, D. F. (2011). TAL effectors: customizable proteins for DNA targeting. Science (New York, N.Y.), 3336051), 1843–6. doi:10.1126/science.1204094
  • Cong, L., Zhou, R., Kuo, Y., Cunniff, M., & Zhang, F. (2013). Comprehensive interrogation of natural TALE DNA-binding modules and transcriptional repressor domains. Nature Communications. doi:10.1038/ncomms1962.Comprehensive
  • Meckler, J.F., Bhakta, M.S., Kim, M.S., Ovadia, R., Habrian, C.H., Zykovich, A., ... Baldwin, E.P. (2013). Quantitative analysis of TALE-DNA interactions suggests polarity effects. Nucleic Acids Research, 41(7), 4118–28. doi:10.1093/nar/gkt085
  • Mussolino, C., & Cathomen, T. (2012). TALE nucleases: tailored genome engineering made easy. Current Opinion in Biotechnology, 23(5), 644–50. doi:10.1016/j.copbio.2012.01.013

    • Prussian Blue

  • Ford, A. G. C., Harrison, P. M., Rice, D. W., Smith, J. M. A., Treffry, A., White, J. L., & Yariv, J. (1984). Ferritin : design and formation of an iron-storage molecule source . Philosophical Transactions of the Royal Society of London Series B, Biological Sciences, 304(1121), 551-65. Retrieved from http://www.jstor.org/stable/2396121
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  • Lawson, D. M., Artymiuk, P. J., Yewdall, S. J., Smith, J. M., Livingstone, J. C., Treffry, A., Luzzago, A., Levi, S., Arosio, P., Cesareni, G. (1991). Solving the structure of human H ferritin by genetically engineering intermolecular crystal contacts. Nature, 349(6309), 541–4. doi:10.1038/349541a0
  • Munro, H.N. (1990). Iron regulation of ferritin gene expression. Journal of Cellular Biochemistry 44(2), 107-115.
  • Zhang, W., Zhang, Y., Chen, Y., Li, S., Gu, N., Hu, S., Sun, Y., Chen, X., & Li, Q. (2013). Prussian blue modified ferritin as peroxidase mimetics and its applications in biological detection, Journal of Nanoscience and Nanotechnology, 12, 1–8. doi:10.1166/jnn.2012.6871
  • Zhang, X.-Q., Gong, S.-W., Zhang, Y., Yang, T., Wang, C.-Y., & Gu, N. (2010). Prussian blue modified iron oxide magnetic nanoparticles and their high peroxidase-like activity. Journal of Materials Chemistry, 20(24), 5110. doi:10.1039/c0jm00174k

    • Beta-Lactamase

  • Kong, Y., Yao, H., Ren, H., Subbian, S., Cirillo, S. L. G., Sacchettini, J. C., … Cirillo, J. D. (2010). Imaging tuberculosis with endogenous beta-lactamase reporter enzyme fluorescence in live mice. Proceedings of the National Academy of Sciences of the United States of America, 107(27), 12239–44. doi:10.1073/pnas.1000643107
  • Moore, J.T., Davis, S.T., & Dev, I.K. (1997). The development of beta-lactamase as a highly versatile genetic reporter for eukaryotic cells. Analytical Biochemistry, 247(2), 203–9. doi:10.1006/abio.1997.2092
  • Qureshi, S. (2007). β-Lactamase: an ideal reporter system for monitoring gene expression in live eukaryotic cells. BioTechniques, 42(1), 91–96. doi:10.2144/000112292
  • Remy, I., Ghaddar, G., & Michnick, S. W. (2007). Using the beta-lactamase protein-fragment complementation assay to probe dynamic protein-protein interactions. Nature Protocols, 2(9), 2302–6. doi:10.1038/nprot.2007.356
  • Wehrman, T., Kleaveland, B., Her, J.-H., Balint, R. F., & Blau, H. M. (2002). Protein-protein interactions monitored in mammalian cells via complementation of beta -lactamase enzyme fragments. Proceedings of the National Academy of Sciences of the United States of America, 99(6), 3469–74. doi:10.1073/pnas.062043699

    • Linker

  • Huh, Y. S., & Kim, I. H. (2003). Purification of fusion ferritin from recombinant E. coli using two-step sonications. Biotechnology Letters, 25(12), 993–6. Retrieved from http://www.ncbi.nlm.nih.gov/pubmed/12889837
  • Litowski, J. R., & Hodges, R. S. (2002). Designing heterodimeric two-stranded alpha-helical coiled-coils. Effects of hydrophobicity and alpha-helical propensity on protein folding, stability, and specificity. The Journal of Biological Chemistry, 277(40), 37272–9. doi:10.1074/jbc.M204257200
  • Zhang, X.-Q., Gong, S.-W., Zhang, Y., Yang, T., Wang, C.-Y., & Gu, N. (2010). Prussian blue modified iron oxide magnetic nanoparticles and their high peroxidase-like activity. Journal of Materials Chemistry, 20(24), 5110. doi:10.1039/c0jm00174k

    • Journals

  • Apostolovic, B., & Klok, H.-A. (2008). pH-sensitivity of the E3/K3 heterodimeric coiled coil. Biomacromolecules, 9(11), 3173–80. doi:10.1021/bm800746e
  • Arthur, T.M., Keen, J.E., Bosilevac, J.M, Brichta-Harhay, D.M., Kalchayanand, N., Shackelford, S.D., … Koohmaraie, M. (2009). Longitudinal study of Escherichia coli O157:H7 in a beef cattle feedlot and role of high-level shedders in hide contamination. Applied and Environmental Microbiology, 75(20), 6515-23. doi: 10.1128/AEM.00081-09
  • Beurdeley, M., Bietz, F., Li, J., Thomas, S., Stoddard, T., Juillerat, A., … Silva, G. H. (2013). Compact designer TALENs for efficient genome engineering. Nature Communications, 4, 1762. doi:10.1038/ncomms2782
  • Besant, J.D., Das, J., Sargent, E.H., Kelley, SO. (2013) Proximal bacterial lysis and detection in nanoliter wells using electrochemistry. American Chemical Society Nano, 7(9), 8183-9.
  • Blais, B.W., Gauthier, M., Descheênes, M., & Huszczynski G. (2012). Polyester cloth-based hybridization array system for identification of enterohemorrhagic Escherichia coli serogroups O26, O45, O103, O111, O121, O145, and O157. Journal of Food Protection, 75(9), 1691-7. doi: 10.4315/0362-028X.JFP-12-116
  • Bushart, S., Bradbury, D., Elder, G., Duffield, J., Pascual, I., & Ratcliffe, N. (2006). The development of magnetic molecules for the selective removal of contaminants. In Waste Management Conference. Tuczon, AZ. Retrieved from http://www.wmsym.org/archives/2006/pdfs/6190.pdf
  • Carvalho, R. H., Lemos, F., Lemos, M. A., Vojinović, V., Fonseca, L. P., & Cabral, J. M. S. (2006). Kinetic modelling of phenol co-oxidation using horseradish peroxidase. Bioprocess and Biosystems Engineering, 29(2), 99–108. doi:10.1007/s00449-006-0057-0
  • Cermak, T., Doyle, E.L., Christian, M., Wang, L., Zhang, Y.,Schmidt, C., … Voytas, D.F. (2011). Efficient design and assembly of custom TALEN and other TAL effector-based constructs for DNA targeting. Nucleic Acids Research, 39(12), e82.
  • Chase-Topping, M., Gally, D., Low, C., Matthews, L., Woolhouse, M. (2008). Super-shedding and the link between human infection and livestock carriage of Escherichia coli O157. Nature Reviews Microbiology, 6(12):904-12. doi: 10.1038/nrmicro2029
  • Cornish-Bowden, A. (2012). Fundamentals of Enzyme Kinetics (4th ed.). Weinheim, Germany: Wiley-Blackwell.
  • De Lange, O., Schreiber, T., Schandry, N., Radeck, J., Braun, K. H., Koszinowski, J., … Lahaye, T. (2013). Breaking the DNA-binding code of Ralstonia solanacearum TAL effectors provides new possibilities to generate plant resistance genes against bacterial wilt disease. The New Phytologist, 199(3), 773–86. doi:10.1111/nph.12324
  • Dörner, M. H., Salfeld, J., Will, H., Leibold, E. A., Vass, J. K., & Munro, H. N. (1985). Structure of human ferritin light subunit messenger RNA: comparison with heavy subunit message and functional implications. Proceedings of the National Academy of Sciences of the United States of America, 82(10), 3139–43. Retrieved from http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=397730&tool=pmcentrez&rendertype=abstract
  • Engler, C., Kandzia, R., & Marillonnet, S. (2008). A one pot, one step, precision cloning method with high throughput capability. PLoS ONE, 3(11), e3647. doi: 10.1371/journal.pone.0003647
  • Feng, P., & Lampel, K.A. (1994). Genetic analysis of uidA expression in enterohaemorrhagic Escherichia coli serotype O157:H7. Microbiology, 140, 2101-2107.
  • Fortin, N.Y., Mulchandani, A., & Chen, W. (2001). Use of real-time polymerase chain reaction and molecular beacons for the detection of Escherichia coli O157:H7. Analytical Biochemistry , 289(2), 281-8.
  • Gibson, D.G., Young, L., Chuang, R.Y., Venter, J.C., Hutchison, C.A. 3rd, Smith, H.O. (2009). Enzymatic assembly of DNA molecules up to several hundred kilobases. Nature Methods, 6(5), 343-5. doi: 10.1038/nmeth.1318
  • Gill, A., Martinez-Perez, A., McIIwham, S., & Blais, B. (2012). Development of a method for the detection of verotoxin-producing Escherichia coli in food. Journal of Food Protection, 75(5), 827-837.
  • He, Y., Zhang, S., Zhang, X., Baloda, M., Gurung, A. S., Xu, H., … Liu, G. (2011). Ultrasensitive nucleic acid biosensor based on enzyme-gold nanoparticle dual label and lateral flow strip biosensor. Biosensors & Bioelectronics, 26(5), 2018–24. doi:10.1016/j.bios.2010.08.079
  • Huang, Z. (1991). Kinetic fluorescence measurement of fluorescein di-.beta.-D-galactoside hydrolysis by .beta.-galactosidase: intermediate channeling in stepwise catalysis by a free single enzyme. Biochemistry, 30(35), 8535–8540. doi:10.1021/bi00099a006
  • Ingrassia, R., Gerardi, G., Biasiotto, G., & Arosio, P. (2006). Mutations of ferritin H chain C-terminus produced by nucleotide insertions have altered stability and functional properties. Journal of Biochemistry, 139(5), 881–5. doi:10.1093/jb/mvj101
  • Jeon, S.J., Elzo, M., DiLorenzo, N., Lamb, G.C., & Jeong, K.C. (2013). Evaluation of animal genetic and physiological factors that affect the prevalence of Escherichia coli O157 in Cattle. PLoS ONE, 8(2), e55728. doi:10.1371/journal.pone.0055728
  • Jordan, V. C., Caplan, M. R., & Bennett, K. M. (2010). Simplified synthesis and relaxometry of magnetoferritin for magnetic resonance imaging. Magnetic Resonance in Medicine : Official Journal of the Society of Magnetic Resonance in Medicine / Society of Magnetic Resonance in Medicine, 64(5), 1260–6. doi:10.1002/mrm.22526
  • Kim, S.-E., Ahn, K.-Y., Park, J.-S., Kim, K. R., Lee, K. E., Han, S.-S., & Lee, J. (2011). Fluorescent ferritin nanoparticles and application to the aptamer sensor. Analytical Chemistry, 83(15), 5834–43. doi:10.1021/ac200657s
  • Lee, J., Kim, S. W., Kim, Y. H., & Ahn, J. Y. (2002). Active human ferritin H/L-hybrid and sequence effect on folding efficiency in Escherichia coli. Biochemical and Biophysical Research Communications, 298(2), 225–9. Retrieved from http://www.ncbi.nlm.nih.gov/pubmed/12387819
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