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Team:Peking/Reference
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Parts
Our team submitted a library of thoroughly characterized and standardized parts. Therefore contributing an alternative set of tools towards heavy metal detection and decontamination in the iGEM context. What's more, as our MerR-family-derivated engineering method could be applicable in nearly all cases of heavy metal, our parts and corresponding documents provide a streamlined method for heavy metal bioreporter and bioabsorbent construction.
Team
Eighteen students and three instructors are working on our project during this summer. We split up into several subgroups whose focus and results you can follow on the Notebook or Project pages. If you want to know more about the subgroups and the people involved, meet us on our Team page.
Modeling
We adopt the process of Reverse Engineering which in our work means to enumerate all possible network topologies and analysis whether they fit the objection function or not, thus getting the right topology and the proper range of parameters for the designation of our project.
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Human Practice
DNA recombination, Fragment synthesis, Bio-security... these are words that could hardly be ignored when doing researches of synthetic biology, which promises a great many improvements to our understanding of this world. The potential bio-security risk, however, is just around corner.
Gene horizontal transfer, for example, is worth special attention. This summer, we did a thorough research on this topic, aiming at proactively finding out the current situation in China, a beginner in synthetic biology, and raised the awareness of researchers on such issues.
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Gallery
It's an unforgettable summer, during which we spared no effort to fight for our dreams and the honour of Peking iGEM team. Photos recorded every footprint of everyone. Join us together!
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Reference
Bakis, R., and Tuncan, A. An investigation of heavy metal and migration through groundwater from the landfill area of Eskisehir in Turkey. Environ Monit Assess.
Borremans, B., Hobman, J.L., Provoost, A., Brown, N.L., and van Der Lelie, D. (2001). Cloning and functional analysis of the pbr lead resistance determinant of Ralstonia metallidurans CH34. J Bacteriol 183, 5651-5658.
Boyd, R.S. Heavy metal pollutants and chemical ecology: exploring new frontiers. J Chem Ecol 36, 46-58.
Brown, N.L., Stoyanov, J.V., Kidd, S.P., and Hobman, J.L. (2003). The MerR family of transcriptional regulators. FEMS Microbiol Rev 27, 145-163.
Chakraborty, T., Babu, P.G., Alam, A., and Chaudhari, A. (2008). GFP expressing bacterial biosensor to measure lead contamination in aquatic environment. Current Science 94, 800-805.
Chen, P., Greenberg, B., Taghavi, S., Romano, C., van der Lelie, D., and He, C. (2005). An exceptionally selective lead(II)-regulatory protein from Ralstonia metallidurans: development of a fluorescent lead(II) probe. Angew Chem Int Ed Engl 44, 2715-2719.
Chikofsky, E.J., and Cross, J.H. (1990). Reverse Engineering and Design Recovery - a Taxonomy. Ieee Software 7, 13-17.
Diesel, E., Schreiber, M., and van der Meer, J.R. (2009). Development of bacteria-based bioassays for arsenic detection in natural waters. Anal Bioanal Chem 394, 687-693.
Guo, H.B., Johs, A., Parks, J.M., Olliff, L., Miller, S.M., Summers, A.O., Liang, L., and Smith, J.C. Structure and conformational dynamics of the metalloregulator MerR upon binding of Hg(II). J Mol Biol 398, 555-568.
Hansen, L.H., and Sorensen, S.J. (2000). Versatile biosensor vectors for detection and quantification of mercury. FEMS Microbiol Lett 193, 123-127.
Hobman, J.L. (2007). MerR family transcription activators: similar designs, different specificities. Mol Microbiol 63, 1275-1278. Hobman, J.L., Wilkie, J., and Brown, N.L. (2005). A design for life: prokaryotic metal-binding MerR family regulators. Biometals 18, 429-436.
Julian, D.J., Kershaw, C.J., Brown, N.L., and Hobman, J.L. (2009). Transcriptional activation of MerR family promoters in Cupriavidus metallidurans CH34. Antonie Van Leeuwenhoek International Journal of General and Molecular Microbiology 96, 149-159.
Kuppardt, A., Chatzinotas, A., Breuer, U., van der Meer, J.R., and Harms, H. (2009). Optimization of preservation conditions of As (III) bioreporter bacteria. Applied Microbiology and Biotechnology 82, 785-792.
Mergeay, M., Monchy, S., Vallaeys, T., Auquier, V., Benotmane, A., Bertin, P., Taghavi, S., Dunn, J., van der Lelie, D., and Wattiez, R. (2003). Ralstonia metallidurans, a bacterium specifically adapted to toxic metals: towards a catalogue of metal-responsive genes. Fems Microbiology Reviews 27, 385-410.
Qin, J., Song, L., Brim, H., Daly, M.J., and Summers, A.O. (2006). Hg(II) sequestration and protection by the MerR metal-binding domain (MBD). Microbiology 152, 709-719.
Sharon Yagur-Kroll, B.a.S.B. (2010). Strategies for enhancing bioluminescent bacterial sensor performance by promoter region manipulation. Microbial Biotechnology 3, 10.
Song, L., Caguiat, J., Li, Z., Shokes, J., Scott, R.A., Olliff, L., and Summers, A.O. (2004). Engineered single-chain, antiparallel, coiled coil mimics the MerR metal binding site. J Bacteriol 186, 1861-1868.
Song, L., Teng, Q., Phillips, R.S., Brewer, J.M., and Summers, A.O. (2007). 19F-NMR reveals metal and operator-induced allostery in MerR. J Mol Biol 371, 79-92.
Tchounwou, P.B., Ayensu, W.K., Ninashvili, N., and Sutton, D. (2003). Environmental exposure to mercury and its toxicopathologic implications for public health. Environ Toxicol 18, 149-175.
Tecon, R., and van der Meer, J.R. (2008). Bacterial biosensors for measuring availability of environmental pollutants. Sensors 8, 4062-4080.
van der Meer, J.R., and Belkin, S. Where microbiology meets microengineering: design and applications of reporter bacteria. Nat Rev Microbiol 8, 511-522.
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