Experiment 4 Electrophoresis

X TBE agarose-gel electrophoresis buffer—Refer to Experiment 4 ( Electrophoresis ) for this recipe. The stock solution will be diluted 1 10 to produce a 0.5X solution for use in this experiment. You will need 1 to 2 liters of the 5X TBE stock solution,... 

Ingelse BA, Sarmani K, Reijenga JC, Kenndler E, Everaerts EM (1997) Chiral interactions in capillary zone electrophoresis computer stimulation and comparison with experiment. Electrophoresis 18 938-942... 

The most familiar type of electrokinetic experiment consists of setting up a potential gradient in a solution containing charged particles and determining their rate of motion. If the particles are small molecular ions, the phenomenon is called ionic conductance, if they are larger units, such as protein molecules, or colloidal particles, it is called electrophoresis. 

Also present in the first test tube is a synthetic analog of ATP in which both the 2 and 3 hydroxyl groups have been replaced by hydrogens This compound is called 2 3 dideoxyadenosme triphosphate (ddATP) Similarly ddTTP is added to the second tube ddGTP to the third and ddCTP to the fourth Each tube also contains a primer The primer is a short section of the complementary DNA strand which has been labeled with a radioactive isotope of phosphorus ( P) When the electrophoresis gel is examined at the end of the experiment the positions of the DNAs formed by chain extension of the primer are located by a technique called autoradiography which detects the particles emitted by the P isotope... 

The following experiments may he used to illustrate the application of chromatography and electrophoresis to a number of different types of samples. Experiments are grouped by the type of technique, and each is briefly annotated. 

The last set of experiments provides examples of the application of capillary electrophoresis. These experiments encompass a variety of different types of samples and include examples of capillary zone electrophoresis and micellar electrokinetic chromatography. 

Weber, P. L. Buck, D. R. Capillary Electrophoresis A Past and Simple Method for the Determination of the Amino Acid Composition of Proteins, /. Chem. Educ. 1994, 71, 609-612. This experiment describes a method for determining the amino acid composition of cyctochrome c and lysozyme. The proteins are hydrolyzed in acid, and an internal standard of a-aminoadipic acid is added. Derivatization with naphthalene-2,3-dicarboxaldehyde gives derivatives that absorb at 420 nm. Separation is by MEKC using a buffer solution of 50 mM SDS in 20 mM sodium borate. 

The use of standards with samples makes zone electrophoresis particulady usehil as an analytical tool. However, when samples caimot be analyzed on the same gel, differences in the experimental conditions from experiment to experiment make direct comparison more difficult. To make comparisons from experiment to experiment, a relative mobility, is often measured by measuring the distance a component travels down the gel compared to some reference or standard component. 

Each amino acid is characterized by an isoelectric point , the pH at which it exists in neutral form. Differences in isoelectric points may be exploited to separate amino acids in what is termed an electrophoresis experiment. 

The thiazolecarboxylic acid structure (40) was also guessed in a similar way, from tracer experiments. The unknown compound was converted into the thiamine thiazole by heating at 100°C and pH 2. On paper electrophoresis, it migrated as an anion at pH 4. Tracer experiments indicated that it incorporated C-l and C-2 of L-tyrosine, and the sulfur of sulfate. The synthetic acid was prepared by carboxylation of the lithium derivative of the thiamine thiazole, and the derivatives shown in Scheme 19 were obtained by conventional methods. Again, the radioactivity of the unknown, labeled with 35S could not be separated from structure 40, added as carrier, and the molar radioactivity remained constant through several recrystallizations and the derivatizations of Scheme 17. 

A number of different approaches have been taken to describing transport in porous media. The objective here is not to review all approaches, but to present a framework for comparison of various approaches in order to highlight those of particular interest for analysis of diffusion and electrophoresis in gels and other nanoporous materials. General reviews on the fundamental aspects of experiments and theory of diffusion in porous media are given... 

For example, Barlow and Margoliash [33] showed that phosphate, chloride, iodide, and sulfate, in decreasing order of effect, reduced the electrophoretic mobihty of human cytochrome c at pH 6.0 by up to a factor of 2. The cations lithium, sodium, potassium, and calcium had no effect. It is possible to account for the binding equilibria of these counterions so that the titration and electrophoresis results can be compared however, in many of the early electrophoresis experiments these data were not available and relevant conditions were not recorded or controlled. For general discussions on the extensive field of ligand binding to proteins, see Cantor and Schimmel [60] and van Holde [403]. 

Norden, B Elvingson, C Jonsson, M Akerman, B, Microscopic Behavior of DNA Duing Electrophoresis Electrophoretic Orientation, Quarterly Reviews of Biophysics 24, 103,1991. Nozad, I Carbonell, RG Whitaker, S, Heat Conduction in Multiphase Systems—I Theory and Experiment for Two-Phase Systems, Chemical Engineering Science 40, 843, 1985. 

Chemical surface modifications The first surface modification for the purpose of eliminating EOF and protein adsorption was recommended by Hjerten.28 The attachment of vinyl silanes allowed the polymerization of a variety of molecules to the surface. Most of the chemical modifications used for preparing capillaries for electrophoresis originated from the experience acquired over the years preparing GC and LC stationary phases. Chemical modification should conform to certain requirements, including the prevention of adsorption, the provision of stable and constant EOF over a wide pH range, chemical stability, ease of preparation, and reproduciblity of preparation. The effects of silanization of the inner surface of capillaries on electrophoretic separations have been extensively studied.26-29... 

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