User:Aram Kang/Notebook/Analysis of biofilm gene expression

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Project Description/Abstract

 * Purpose: Studies of gene expression in E. coli biofilms: Comparison of two population living in a heterogeneous environment using FACS


 * Assumptions and underlying hypothesis
 * An oxygen gradient in chemically heterogeneous biofilm may affect cells’ gene expression profiles
 * Maturation of GFP needs oxygen molecule, so if one cell has fluorescence intensity we can assume this cell has lived in aerobic environment and thus access to oxygen (even including microaerobic environments).
 * Sorting according to microbial individual cells’ accessibility to oxygen molecule and                              diffusion of oxygen molecules into cells
 * Maybe not related to aerobic/anaerobic metabolic status
 * oxygen can penetrate only 1/3 depth of colony biofilm, about 50µm of 150 µm (Werner, Roe et al. 2004), but most of them are viable cells and only 10.1% are dead cells(Rani, Pitts et al. 2007)
 * Then how about 50% of cells? Under Anaerobic metabolism or like persister cells?
 * And how does phenomenon related with the dispersion mechanism and quorum sensing?

Current Progress

 * Now I am doing preparation of E.coli W3110 pNgFP


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