Team:Dundee/References

Basler, M., Pilhofer M., Henderson G.P., Jensen G.J., Mekalanos J.J. Type VI secretion requires a dynamic contractile phase-like structure. Nature.

Blondel, C.J., Jimenez, J.C., Contreras, I., and Santiviago, C.A. (2009) Comparative genomic analysis uncovers 3 novel loci encoding type six secretion systems differentially distributed in Salmonella serotypes. BMC Genomics 10:35

Brandt L.J., Aroniadis O.C., Mellow M., et al. (2012). Long-term follow-up of colonoscopic fecal microbiota transplant for recurrent Clostridium difficile infection. American Journal of Gastroenterology. 107: 1079-1087

Carroll K.C., Bartlett, J.G. (2011). Biology of Clostridium difficile: Implications for Epidemology and Diagnosis. Annu. Rev. Microbiology

Cascales E, Cambillau C. (2012) Structural biology of type VI secretion systems. Philosophical Transactions of The Royal Society B- Biological Sciences: 367: pp 1102- 1111

Davies. (2011). Mathematical modelling of the fluid dynamics involved in colonic mixing. A.B.M.

Desvaux M., Parham N.J. and Henderson I.R. (2003) The autotransporter secretion system. Research in Microbiology: 155(2004): pp 53-60

Hueck C.J. (1998) Type III protein secretion systems in bacterial pathogens of animals and plants. Microbiology and molecular biology reviews. 62(2): pp 379-433

Kelly CP, LaMont JT (2008). "Clostridium difficile—more difficult than ever". N. Engl. J. Med. 359 (18): 1932–40

Mayer M.J., Narbad A. and Gasson M.J. (2008) Molecular characterization of a Clostridium difficile bacteriophage and its cloned biologically active endolysin. Journal of Bacteriology 190(20) pp. 6734-6740

Na S.H., Miyanaga K., Unno H. and Tanji Y. (2006) The survival response of Escherichia coli K12 in a natural environment. Environmental Biotechnology 72. pp. 386-392

Reynolds, C.B, et al. (2011) The Clostridium difficile Cell wall protein CwpV is antigenically variable between strains, but exhibits conserved aggregation-promoting function. PLoS Pathog 7: e1002024. doi:10.1371/journal.ppat.1002024

Sandkvist M. (2001) Biology of type II secretion. Molecular Microbiology: 40 (2): pp 271-283

Swords, E.W. Cannon, B.M. and Benjamin, Jr, W.H. (1997) A virulence of LT2 Strains of Salmonella typhimurium Results from a Defective rpoS Gene. American Society for Microbiology 65: 2451-2453

Winter, S. E., Thiennimitr, P., Winter, M. G., Butler, B. P., Huseby, D. L., Crawford, R. W., Russell, J. M., Bevins, C. L., Adams, L. G., Tsolis, R. M., Roth, J. R. and Bäumler, A. J. (2010) Gut inflammation provides a respiratory electron acceptor for Salmonella. Nature: 467(7312): 426-429

Software references
[1] Cartoon Network. [online] Available at: www.cartoonnetwork.co.uk [Accessed 21/08/2012].

[2] Simple Directmedia Layer. [online] Available at: http://www.libsdl.org [Accessed 21/08/2012].

[3] Krasner, G. E., Pope, S. T., 1988. A Cookbook for Using the Model-View-Controller User Interface Paradigm in Smalltalk-80. Journal of Object Oriented Programming, Vol 1 (3), 26-49.

[4] Von Neumann, J. and Burks, A. W., 1966. Theory of Self-Reproducing Automata. Urbana: University of Illinois Press.

Amersham Biosciences (2002) Safe and secure a guide to working safely with radiolabelled compounds. [WWW] Available at: http://www.nottingham.ac.uk/safety/docs/RAD_Amersham_Safe_and_Secure.pdf [Accessed 27/08/2012]

Biotium (2011) Safety Report of GelRed and GelGreen. [WWW] Nucleic Acid Detection Technologies. Available at: http://www.biotium.com/product/product_info/Safety_Report/GR%20&%20GG%20safety.pdf [Accessed 21/08/2012]

College of Life Sciences (2009) Basic Health & Safety Training Checklist. [WWW] Version 11, Available at: https://www.lifesci.dundee.ac.uk/services/healthandsafety/training/btc.pdf [Accessed 21/08/2012]

College of Life Sciences. ClS Risk Assessment (2011) Practical demonstration involving LB agar plates with school children at an external venue. [pdf] Available at: https://static.igem.org/mediawiki/igem.org/3/37/Dundee12Risk_assessment_agar_plates.pdf

College of Life Sciences. GM microorganism risk assessment (2012) Creating a new type of synthetic E. coli expressing a type VI secretion system incorporating a C. difficile specific endolysin. [pdf] Available at:
https://static.igem.org/mediawiki/igem.org/c/c6/Dundee122012_risk_assesment.pdf

College of Life Sciences. Safe operating procedure (2012) Containment level 1: General Laboratory. [pdf] Available at: https://static.igem.org/mediawiki/igem.org/f/fc/Dundee12Safe_op_level_1.pdf

College of Life Sciences. Safe operating procedure (2012) Containment level 2: General Laboratory. [pdf] Available at: https://static.igem.org/mediawiki/igem.org/a/ab/Dundee12Safe_operating_procedure.pdf

Health and Safety Executive. [WWW] Available at: http://www.hse.gov.uk/index.htm [Accessed 28/08/2012]

The Scottish Government (2011) Genetic Modification (GM) Legislation. [WWW] Available at: http://www.scotland.gov.uk/Topics/farmingrural/Agriculture/Environment/15159/legislation [Accessed 28/08/2012]

U.S. Department of health and human services (2009) Draft Toxicological Profile for Acrylamide. [WWW] Available at: http://www.atsdr.cdc.gov/toxprofiles/tp203.pdf [Accessed 21/08/2012]

U.S. Environmental Protection Agency. Escherichia coli K12 Derivatives Final Risk Assessment (1997) [WWW] Available at: http://epa.gov/biotech_rule/pubs/fra/fra004.htm [Accessed 05/09/2012]

U.S. Department of health and human services (2008) Toxicological profile for Phenol. [WWW] Agency for Toxic Substances and Disease Registry. Available at: http://www.atsdr.cdc.gov/toxprofiles/tp115.pdf [Accessed 21/08/2012]

The University of Dundee iGem (2011) Safety and Security. [WWW] Available from: https://2011.igem.org/Team:Dundee/Safety [Accessed 21/08/2012]

World Health Organisation (WHO) (2004) Laboratory biosafety manual. [WWW] Available at: http://www.who.int/csr/resources/publications/biosafety/Biosafety7.pdf [Accessed 27/08/2012]