CH391L/S13/Topics

This is a brainstorming page...

What is synthetic biology?

http://www.plosone.org/article/info:doi%2F10.1371%2Fjournal.pone.0034368

http://www.buzzfeed.com/atmccann/how-to-code-a-life

Videos

Imperial College iGEM team documentary (50 min) http://www.youtube.com/watch?v=ushmgPM7HT8

E. chromi http://vimeo.com/19759432

Recent/Upcoming Meetings

http://www.keystonesymposia.org/index.cfm?e=web.Meeting.Program&meetingid=1238

http://sb6.biobricks.org/

New Topics

Algal biofuels

http://joulefuels.com/how-it-works

DNA computation / nanomachines

1. Langecker M, Arnaut V, Martin TG, List J, Renner S, Mayer M, Dietz H, and Simmel FC. Synthetic lipid membrane channels formed by designed DNA nanostructures. Science. 2012 Nov 16;338(6109):932-6. DOI:10.1126/science.1225624 |

   DNA origami to design functional structures

Spider Goats

"Spider Goats" - synthetic silk production. Video - http://www.fieldtest.us/bio.shtml

Pathogen synthesis

2. Cello J, Paul AV, and Wimmer E. Chemical synthesis of poliovirus cDNA: generation of infectious virus in the absence of natural template. Science. 2002 Aug 9;297(5583):1016-8. DOI:10.1126/science.1072266 |

   Polio virus

3. Herfst S, Schrauwen EJ, Linster M, Chutinimitkul S, de Wit E, Munster VJ, Sorrell EM, Bestebroer TM, Burke DF, Smith DJ, Rimmelzwaan GF, Osterhaus AD, and Fouchier RA. Airborne transmission of influenza A/H5N1 virus between ferrets. Science. 2012 Jun 22;336(6088):1534-41. DOI:10.1126/science.1213362 |

   AIrborne H5N1

4. Russell CA, Fonville JM, Brown AE, Burke DF, Smith DL, James SL, Herfst S, van Boheemen S, Linster M, Schrauwen EJ, Katzelnick L, Mosterín A, Kuiken T, Maher E, Neumann G, Osterhaus AD, Kawaoka Y, Fouchier RA, and Smith DJ. The potential for respiratory droplet-transmissible A/H5N1 influenza virus to evolve in a mammalian host. Science. 2012 Jun 22;336(6088):1541-7. DOI:10.1126/science.1222526 |

   AIrborne H5N1

Airborne H5N1 publication debate http://www.nytimes.com/2011/12/27/science/debate-persists-on-deadly-flu-made-airborne.html?pagewanted=all&_r=0 http://www.sciencemag.org/content/336/6088/1521.full

Riboswitches / Aptamer Biosensors

4. Davidson ME, Harbaugh SV, Chushak YG, Stone MO, and Kelley-Loughnane N. Development of a 2,4-dinitrotoluene-responsive synthetic riboswitch in E. coli cells. ACS Chem Biol. 2013 Jan 18;8(1):234-41. DOI:10.1021/cb300274g |

   DNT/TNT riboswitch

5. Ehrentreich-Förster E, Orgel D, Krause-Griep A, Cech B, Erdmann VA, Bier F, Scheller FW, and Rimmele M. Biosensor-based on-site explosives detection using aptamers as recognition elements. Anal Bioanal Chem. 2008 Jul;391(5):1793-800. DOI:10.1007/s00216-008-2150-5 |

   TNT aptamer

6. Stojanovic MN, de Prada P, and Landry DW. Aptamer-based folding fluorescent sensor for cocaine. J Am Chem Soc. 2001 May 30;123(21):4928-31. DOI:10.1021/ja0038171 |

   Cocaine aptamer biosensor

7. Stojanovic MN and Landry DW. Aptamer-based colorimetric probe for cocaine. J Am Chem Soc. 2002 Aug 21;124(33):9678-9. DOI:10.1021/ja0259483 |

   Cocaine aptamer biosensor, next iteration

Spermless Mosquitos Mate without Offspring

8. Thailayil J, Magnusson K, Godfray HC, Crisanti A, and Catteruccia F. Spermless males elicit large-scale female responses to mating in the malaria mosquito Anopheles gambiae. Proc Natl Acad Sci U S A. 2011 Aug 16;108(33):13677-81. DOI:10.1073/pnas.1104738108 |

Topic Updates

Refactoring

9. Temme K, Zhao D, and Voigt CA. Refactoring the nitrogen fixation gene cluster from Klebsiella oxytoca. Proc Natl Acad Sci U S A. 2012 May 1;109(18):7085-90. DOI:10.1073/pnas.1120788109 |

   Refactoring Nitrogen fixation gene cluster

Ancestral Sequence Reconstruction

http://fastml.tau.ac.il/

Other

Humor

https://www.facebook.com/IgemMemes

Other synthetic biology courses

http://soslab.ee.washington.edu/synthbio/index.php/Main_Page