Team:Virginia Commonwealth/Internal/Papers

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==Reflections/responses to the papers we've read together==
==Reflections/responses to the papers we've read together==
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Please share with the team what was meaningful about the reading, how it might be applied to the team's research and what questions you may have.
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Please share with the team what was meaningful about the reading, how it might be applied to the team's research and what questions you may have.  Links to papers can be found in the [https://2009.igem.org/Team:Virginia_Commonwealth/Literature| ''literature compilation''] section.
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Revision as of 15:28, 4 June 2009

Reflections/responses to the papers we've read together

Please share with the team what was meaningful about the reading, how it might be applied to the team's research and what questions you may have. Links to papers can be found in the literature compilation section.

  • Extreme genetic engineering: an introduction to synthetic biology by the ETC Group
    • There seems to be so many different areas of research that are considered synthetic biology. Which areas apply to iGEM and which area(s) will the VCU team be involved in? GMcArthurIV 16:44, 15 May 2009 (UTC)
      • The New Synthetic Energy Agenda section on page 27 reflected the type of work the VCU team will be doing. The cellulose to biofuel and bio remediation to biofuel projects would fall well under this area of syn bio. Obviously our projects will pertain to biofuel production but the section regarding synbiosafety cannot be ignored--Bussingkm 21:34, 3 June 2009 (UTC)
        • What you've mentioned certainly fits within the scope of the research currently going on in the Systems Biological Engineering Lab, but let's talk a bit more broadly. This paper lists five major research areas in synthetic biology: minimal cells, assembly-line DNA, artifical cells, pathway engineering and novel genetics. Which areas do you think we could or will be involved in? GMcArthurIV 00:08, 4 June 2009 (UTC)
          • As you could guess from my comment below, I think the effects of the cellular "environment" on the functions of individual genetic parts is fascinating and of critical importance, in the same way that your boundaries must be defined for any engineered system. To this end, I think the minimal genome work is very interesting. In what situations is it better (or not) to pay attention to all the varied species nature provides us rather than engineering rational systems in the carefully designed, minimal environment provided by a minimal or artificial cell? My work with thermocellum and the lab's work in general with t fusca and others tends to rely on existing systems. At what point do we scrap all that and build the pathways we want into a blank or nearly blank cell?chris 02:38, 4 June 2009 (UTC)
    • Why is DNA synthesis technology so important to the development of synthetic biology? Or is it at all? GMcArthurIV 00:12, 4 June 2009 (UTC)
  • Foundations for engineering biology by Drew Endy
    • Drew Endy lists standardization as a key foundational element to enable biological systems. In what ways do you think we can standardize biological research? GMcArthurIV 00:08, 4 June 2009 (UTC)
    • I think this paper is hilarious. "...microprocessors and other electronic systems are not built directly from chunks of metal and silicon lying about the countryside." He alludes to the standardization of a cellular "chassis" when he talks about the different groups using different strains of ecoli to develop different devices (p450, right column). Do you think it makes more sense to use a standard strain or to more clearly define the differences between strains or even different organisms. For example, wouldn't it be nice if work on e. coli could be reliably translated for use in t. fusca? chris 02:17, 4 June 2009 (UTC)
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