Davidson 2006

From 2006.igem.org

Contents 1 Students 2 Faculty 3 Papers of Interest 4 Project Description

Students

• Sabriya Rosemond [1] is a rising junior biology major at Hampton University in VA.

• Erin Zwack [2] is a rising junior biology major at Davidson College in NC.

• Lance Harden [3] is a rising sophomore at Davidson College, who might major in math.

Faculty

• A. Malcolm Campbell [http://www.bio.davidson.edu/campbell Department of Biology], [4]

• Laurie J. Heyer [http://www.davidson.edu/math/heyer/ Department of Mathematics], [5]

Papers of Interest

• [http://www.bio.davidson.edu/courses/synthetic/papers/Sanders_04.pdf Stepwise Dissection of the Hin-catalyzed Recombination Reaction from Synapsis to Resolution. Erin R. Sanders and Reid C. Johnson]

• [http://www.molcells.org/home/journal/article_read.asp?volume=16&number=3&startpage=377 The Effects of Ethidium Bromide and Mg++ Ion on Strand Exchange in the Hin-mediated Inversion Reaction. Hee Jung Lee et al.]

• [http://www.jbc.org/cgi/reprint/267/16/11183 The Effects of Symmetrical Recombination Site hixC on Hin Recombinase Function. Heon Man Lim et al.]

• [http://www.pubmedcentral.gov/articlerender.fcgi?tool=pubmed&pubmedid=3457367 The role of the loxP spacer region in P1 site-specific recombination. Ronald H.Hoess et al.]

• [http://www.biomedcentral.com/1471-2164/7/73 A high-throughput screen identifying sequence and promiscuity characteristics of the loxP spacer region in Cre-mediated recombination. Perseus I Missirlis et al.]

• [http://nar.oxfordjournals.org/cgi/content/full/30/13/2764 Non-contact positions impose site selectivity on Cre recombinase. Andreas W. Rufer and Brian Sauer]

Project Description

Questions to Resolve Checklists

General

   What is our team name and project name?
   What is HU?
   What is the recombinase enhancer (RE; function, sequence, usual position, relationship with HU, etc.)?
   What sort of spacing can RE allow and still work?

Math

   Even/Odd determines flips?
   Mathematical modeling of distance of enhacer from pancake vs. time or number of flips
   modeling of kinetics

Biology

    ERIN Hin off (using CRE or mutating HIX so that they stop after one reversal)
    Flip counter
    SABRIYA Does CRE flip once and is then done with that pancake?
    How many flips would the normal negative supercoiling of E. coli allow?  
    Can we increase the amount of negative supercoiling and thus the number of flips if necessary? (What happens to supercoiling if we make the plasmid larger? What happens to supercoiling during the stationary phase, relax)
    Fluorescent vs. Resistant pancake
    Possible detection delays for both methods and how to minimize the delays
    Where would biobricks be located?

Here's what we'd like to see on your wiki page(s):

1. A list of all team members, their roles, and email addresses
2. Overview of project(s), including schematics and figures
3. Ongoing data/updates about project(s), including schematics, figures, test data, and biobrick parts used
4. Some photos of your team, facilities, institution, etc.
5. Optionally, anything that broadcasts your team's personality, spirit, sense of fun, or coolness...