IGEM:Harvard/2006/Brainstorming Papers - Perry Tsai

Quorum sensing

1. Anderson JC, Clarke EJ, Arkin AP, and Voigt CA. Environmentally controlled invasion of cancer cells by engineered bacteria. J Mol Biol. 2006 Jan 27;355(4):619-27. DOI:10.1016/j.jmb.2005.10.076 |
2. Yang S, Lopez CR, and Zechiedrich EL. Quorum sensing and multidrug transporters in Escherichia coli. Proc Natl Acad Sci U S A. 2006 Feb 14;103(7):2386-91. DOI:10.1073/pnas.0502890102 |
3. Garcia-Ojalvo J, Elowitz MB, and Strogatz SH. Modeling a synthetic multicellular clock: repressilators coupled by quorum sensing. Proc Natl Acad Sci U S A. 2004 Jul 27;101(30):10955-60. DOI:10.1073/pnas.0307095101 |

They coupled Elowitz and Leibler's cI-|lacI-|tetR-|cI repressilator and linked it to quorum-sensing molecules. The genetic 
circuit concept was that, in addition to repressing tetR, lacI would also repress the expression of luxI, which codes from 
protein AI, autoinducer, a quorum-sensing molecule that is diffusible across the membrane. The AI-LuxR complex would be 
engineered to activate expression of a second copy of another repressilator gene, like LacI.

The result was synchronized oscillators.

4. Kobayashi H, Kaern M, Araki M, Chung K, Gardner TS, Cantor CR, and Collins JJ. Programmable cells: interfacing natural and engineered gene networks. Proc Natl Acad Sci U S A. 2004 Jun 1;101(22):8414-9. DOI:10.1073/pnas.0402940101 |
5. Ahmer BM. Cell-to-cell signalling in Escherichia coli and Salmonella enterica. Mol Microbiol. 2004 May;52(4):933-45. DOI:10.1111/j.1365-2958.2004.04054.x |
6. You L, Cox RS 3rd, Weiss R, and Arnold FH. Programmed population control by cell-cell communication and regulated killing. Nature. 2004 Apr 22;428(6985):868-71. DOI:10.1038/nature02491 |
7. Sperandio V, Torres AG, and Kaper JB. Quorum sensing Escherichia coli regulators B and C (QseBC): a novel two-component regulatory system involved in the regulation of flagella and motility by quorum sensing in E. coli. Mol Microbiol. 2002 Feb;43(3):809-21. DOI:10.1046/j.1365-2958.2002.02803.x |

DNA aptamers

8. Navani NK and Li Y. Nucleic acid aptamers and enzymes as sensors. Curr Opin Chem Biol. 2006 Jun;10(3):272-81. DOI:10.1016/j.cbpa.2006.04.003 |
9. Proske D, Blank M, Buhmann R, and Resch A. Aptamers--basic research, drug development, and clinical applications. Appl Microbiol Biotechnol. 2005 Dec;69(4):367-74. DOI:10.1007/s00253-005-0193-5 |
10. Nutiu R and Li Y. Aptamers with fluorescence-signaling properties. Methods. 2005 Sep;37(1):16-25. DOI:10.1016/j.ymeth.2005.07.001 |
11. Patil SD, Rhodes DG, and Burgess DJ. DNA-based therapeutics and DNA delivery systems: a comprehensive review. AAPS J. 2005 Apr 8;7(1):E61-77. DOI:10.1208/aapsj070109 |
12. So HM, Won K, Kim YH, Kim BK, Ryu BH, Na PS, Kim H, and Lee JO. Single-walled carbon nanotube biosensors using aptamers as molecular recognition elements. J Am Chem Soc. 2005 Aug 31;127(34):11906-7. DOI:10.1021/ja053094r |