CH391L/S13/Assignments

From OpenWetWare

(Difference between revisions)
Jump to: navigation, search
(New Topics)
Line 81: Line 81:
=== New Topics ===
=== New Topics ===
* [[Ancestral sequence reconstruction]] (Aurko)
* [[Ancestral sequence reconstruction]] (Aurko)
-
* Directed protein evolution (Max)
 
* Bioprospecting / Metagenomics (Andre)
* Bioprospecting / Metagenomics (Andre)
Line 87: Line 86:
=== New Topics ===
=== New Topics ===
-
* Biocontainment (Thomas)
+
* Directed protein evolution (Max)
-
* New Marker Genes  (Ben)
+
-
* [[CH391L/S13/Optogenetics | Optogenetics]] (Sid)
+
-
* TBD (Larry)
+
* Riboswitches (Kate)
* Riboswitches (Kate)
 +
* [[CH391L/S13/Optogenetics | Optogenetics]] (Sid)
===Papers for Discussion===
===Papers for Discussion===
Line 97: Line 94:
#Risso2013 pmid=23394108
#Risso2013 pmid=23394108
//Hyperstability and substrate promiscuity in laboratory resurrections of Precambrian β-lactamases. For Ancestral protein reconstruction.
//Hyperstability and substrate promiscuity in laboratory resurrections of Precambrian β-lactamases. For Ancestral protein reconstruction.
 +
#Beja2000 pmid=10988064
 +
//Bacterial rhodopsin: evidence for a new type of phototrophy in the sea.
</biblio>
</biblio>
Line 102: Line 101:
* TBD (Jeremy)
* TBD (Jeremy)
* Biological material assembly and patterning - Belcher virus work (Marco)
* Biological material assembly and patterning - Belcher virus work (Marco)
 +
* Quorum Sensing (Larry)
 +
* Biocontainment (Thomas)
 +
* New Marker Genes  (Ben)

Revision as of 19:44, 20 February 2013


Contents

For Monday, January 28th, 2013

New Topics:

For Monday, February 4th, 2013

Topic Updates

Papers for Discussion

  1. Playing God in Frankenstein's Footsteps: Synthetic Biology and the Meaning of Life [ethics]
    For Bioethics

  2. Outlaw, hackers, victorian amateurs: diagnosing public participation in the life sciences today pdf [Kelty2010]
    For DIY Biology

  3. Kelly JR, Rubin AJ, Davis JH, Ajo-Franklin CM, Cumbers J, Czar MJ, de Mora K, Glieberman AL, Monie DD, and Endy D. . pmid:19298678. PubMed HubMed [Endy2009]
    For BioBricks

New Topics

For Monday, February 11th, 2013

Topic Updates

Papers for Discussion

  1. Gibson DG, Benders GA, Andrews-Pfannkoch C, Denisova EA, Baden-Tillson H, Zaveri J, Stockwell TB, Brownley A, Thomas DW, Algire MA, Merryman C, Young L, Noskov VN, Glass JI, Venter JC, Hutchison CA 3rd, and Smith HO. . pmid:18218864. PubMed HubMed [Gibson2008]
    Complete chemical synthesis, assembly, and cloning of a Mycoplasma genitalium genome. For DNA synthesis and assembly

  2. http://igem.synbioreview.com/ [iGEMSoftware]
  3. http://2011.igem.org/Jamboree/Team_Abstracts [iGEMAbstracts]
    Find a useful or neat tool from a past iGEM software competition using one of these links. Test drive it if possible. Be able to briefly describe what it does to class. For CAD

New Topics

For Monday, February 18th, 2013

Topic Updates

  • Minimal / "clean" genomes (Evan)
  • Functional Nucleic Acids (Alvaro)

Papers for Discussion

  1. Pósfai G, Plunkett G 3rd, Fehér T, Frisch D, Keil GM, Umenhoffer K, Kolisnychenko V, Stahl B, Sharma SS, de Arruda M, Burland V, Harcum SW, and Blattner FR. . pmid:16645050. PubMed HubMed [Posfai2006]
    Emergent properties of reduced-genome Escherichia coli. For minimal genomes.

  2. Ohuchi M, Murakami H, and Suga H. . pmid:17884697. PubMed HubMed [Ohuchi2007]
    The flexizyme system: a highly flexible tRNA aminoacylation tool for the translation apparatus. For in vitro selection.

  3. Murakami H, Ohta A, Goto Y, Sako Y, and Suga H. . pmid:17150804. PubMed HubMed [Murakami2006]
    Flexizyme as a versatile tRNA acylation catalyst and the application for translation. For in vitro selection.

All Medline abstracts: PubMed HubMed

New Topics

For Monday, February 25th, 2013

New Topics

  • Directed protein evolution (Max)
  • Riboswitches (Kate)
  • Optogenetics (Sid)

Papers for Discussion

  1. Risso VA, Gavira JA, Mejia-Carmona DF, Gaucher EA, and Sanchez-Ruiz JM. . pmid:23394108. PubMed HubMed [Risso2013]
    Hyperstability and substrate promiscuity in laboratory resurrections of Precambrian β-lactamases. For Ancestral protein reconstruction.

  2. Béjà O, Aravind L, Koonin EV, Suzuki MT, Hadd A, Nguyen LP, Jovanovich SB, Gates CM, Feldman RA, Spudich JL, Spudich EN, and DeLong EF. . pmid:10988064. PubMed HubMed [Beja2000]
    Bacterial rhodopsin: evidence for a new type of phototrophy in the sea.

All Medline abstracts: PubMed HubMed

For Monday, March 4th, 2013

  • TBD (Jeremy)
  • Biological material assembly and patterning - Belcher virus work (Marco)
  • Quorum Sensing (Larry)
  • Biocontainment (Thomas)
  • New Marker Genes (Ben)
Personal tools