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The first hydration shell of a sodium ion dissolved in water. DNA is typically separated from other cell constituents in a two-phase solution of phenol and water. Due to its highly charged phosphate backbone DNA is polar and will concentrate in the water phase while lipids and proteins will concentrate in the phenol phase.
The RNA is then precipitated in an alcohol (right). Acid guanidinium thiocyanate-phenol-chloroform extraction (abbreviated AGPC) is a liquid–liquid extraction technique in biochemistry and molecular biology. It is widely used for isolating RNA (as well as DNA and protein in some cases).
The DNA will form a pellet at the bottom of the solution, while the contaminants will remain in the liquid. Purification: After the DNA is precipitated, it is usually further purified by using column-based methods. For example, silica-based spin columns can be used to bind the DNA, while contaminants are washed away.
Water as a solvent limits the forms biochemistry can take. For example, Steven Benner, proposes the polyelectrolyte theory of the gene that claims that for a genetic biopolymer such as, DNA, to function in water, it requires repeated ionic charges. [46] If water is not required for life, these limits on genetic biopolymers are removed.
This mixture is then centrifuged. Because the phenol:chloroform mixture is immiscible with water, the centrifuge will cause two distinct phases to form: an upper aqueous phase, and a lower organic phase. The aqueous phase rises to the top because it is less dense than the organic phase containing the phenol:chloroform.
The following chart shows the solubility of various ionic compounds in water at 1 atm pressure and room temperature (approx. 25 °C, 298.15 K). "Soluble" means the ionic compound doesn't precipitate, while "slightly soluble" and "insoluble" mean that a solid will precipitate; "slightly soluble" compounds like calcium sulfate may require heat to precipitate.
DNA exists in many possible conformations that include A-DNA, B-DNA, and Z-DNA forms, although only B-DNA and Z-DNA have been directly observed in functional organisms. [14] The conformation that DNA adopts depends on the hydration level, DNA sequence, the amount and direction of supercoiling, chemical modifications of the bases, the type and ...
This leads to the silica surface and DNA becoming dehydrated. These conditions lead to an energetically favorable situation for DNA to adsorb to the silica surface. [citation needed] A further explanation of how DNA binds to silica is based on the action of guanidinium chloride (GuHCl), which acts as a chaotrope. [3]