Accueil du site > Animations Scientifiques > Séminaires 2008 > Quantitative predictions for DNA two-dimensional display according to size and nucleotide sequence composition
Quantitative predictions for DNA two-dimensional display according to size and nucleotide sequence composition
par Webmaster - 9 janvier 2008
Orateur :
Bénédicte Lafay, Institut de recherche pour le développement, Centre de Montpellier
Salle :
118
Sujet :
Two-dimensional DNA display is a simple separation method that provides a fast and economical way of vizualizing polymorphism and comparing genomes. The DNA fragments are separated first according to their size by standard gel electrophoresis and then according to their sequence composition using a denaturing gradient gel electrophoresis. First developed by Fisher and Lerman (Cell, 1979,16, 191-200), this method has recently been used to distinguish strains within a bacterial species. The genomic restriction fragments are displayed as spots on a two-dimensional surface. Although most of the relevant physical mechanisms are understood, this technique is mostly empirical and remains essentially qualitative. In view of optimizing this procedure, we combine our understanding of the different physical mechanisms at play to develop a complete numerical model to predict the relative coordinates of the spots as a function of the corresponding DNA sequence and of the experimental conditions. We experimentally validate our model by predicting the outcome of a two-dimensional display of the Lambda phage genome. It thus becomes possible to optimize in silico the experimental parameters, to predict whether specific mutations as well as yet undescribed genetic polymorphisms can be resolved, and to assist in interpreting the experimental data.
Dans la même rubrique :
- Morphological analysis of slow and fast muscle cells in zebrafish embryos
- Modèles minimaux pour le mouvement collectif
- Epigenetic inheritance of chromatin states in fission yeast
- HAT MODULATORS (Activators and Inhibitors) : IMPLICATIONS IN NANOBIOTECHNOLOGY
- Exploitation de nanosondes en AFM : Dynamique d’un nanoménisque accroché à une Nano aiguille de silice et fluctuations de contact d’un Nanotube de Carbone
- Epigenetic programming of mesenchymal stem cells from adipose tissue
- The Genomic Code for Nucleosome Positioning
- Nuclear organization and transcription in budding yeast
- Nouvel arExperiments on cytoskeletal and “Recombinase” motors
- Modelling chromosome replication in S. cerevisiae
- Chromatin remodeling during early development : which role for HIRA in Drosophila ?
- SPR characterization of proteonucleic self-assemblies
- The mechanics behind plant development : a pluridisciplinary view
- AEVOL : An Artificial Evolution model to unravel the effect of indirect selection on genomes structure
- Regulation of HIV-1 integration by chromatin structure and LEDGF/p75 protein, in vitro studies
- Biological strategies of motility
- The Phosphoproteome of the Budding Yeast Centrosome
- Transferts d’énergie dans les protéines ; conception rationelle de protéines extrêmophiles
- The RAFT process, a “living” polymerization : a new step towards well-designed polymer architectures
- Chromosomal and nuclear genome architecture – an evolutionary perspective