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Denaturing gradient electrophoresis (DGE) and single-strand conformation polymorphism (SSCP) molecular fingerprintings revisited by simulation and used as a tool to measure microbial diversity Inra
Loisel, P.; Harmand, J.; Zemb, O.; Latrille, E.; Lobry, C.; Delgenes, J.P.; Godon, J.J..
The exact extent of microbial diversity remains unknowable. Nevertheless, fingerprinting patterns [denaturing gradient electrophoresis (DGE), single-strand conformation polymorphism (SSCP)] provide an image of a microbial ecosystem and contain diversity data. We generated numerical simulation fingerprinting patterns based on three types of distribution (uniform, geometric and lognormal) with a range of units from 10 to 500 000. First, simulated patterns containing a diversity of around 1000 units or more gave patterns similar to those obtained in experiments. Second, the number of bands or peaks saturated quickly to about 35 and were unrelated to the degree of diversity. Finally, assuming lognormal distribution, we used an estimator of diversity on in...
Tipo: Journal Article Palavras-chave: DENATURING GRADIENT ELECTROPHORESIS; SINGLE STRAND CONFORMATION POLYMORPHISM.
Ano: 2006 URL: http://www.prodinra.inra.fr/prodinra/pinra/doc.xsp?id=PROD2007ca36bcb3&uri=/notices/prodinra1/2008/02/
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