Restriction digest: Difference between revisions
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==Specific Protocols== | ==Specific Protocols== | ||
[[Restriction Digest | [[Enzyme Selection for BioBrick Digest]] | ||
[[Endy:Restriction Digest]] | |||
[[Knight:Restriction Digest]] | |||
==Notes== | ==Notes== | ||
*If you are interested in cutting near the ends of the linear DNA fragment, note that some enzymes do not cut efficiently at the ends of linear DNA. So include extra bases to increase the efficiency of cutting. Many enzymes work with 4 bases supposedly but XhoI was found to require more than 4 bases (8 bases was used successfully). Thus, to be on the safe side, use 8 bases whenever possible. [http://www.neb.com/ NEB] has more information [http://www.neb.com/nebecomm/tech_reference/restriction_enzymes/cleavage_linearized_vector.asp here]. Read the information at NEB carefully ... they recommend adding 4 bases to the numbers listed in their table. | |||
*Tom was once having some trouble with failed restriction digests. He called NEB and they recommended doing the digest in a larger volume. Therefore, the Knight lab typically does digests in either 50 μL or 100 μL volumes rather than the 20 μL volume that the Endy lab uses. If the sample needs to be concentrated, some method of [[Purification of DNA | DNA purification]] is used. | |||
*Improving the efficiency of [[EcoRI/SpeI Double Digest]]. | |||
Revision as of 20:31, 14 July 2005
General Information
Restriction digest involves the cutting of DNA at specific recognition sequences by enzymes.
General Procedure
Specific Protocols
Enzyme Selection for BioBrick Digest
Notes
- If you are interested in cutting near the ends of the linear DNA fragment, note that some enzymes do not cut efficiently at the ends of linear DNA. So include extra bases to increase the efficiency of cutting. Many enzymes work with 4 bases supposedly but XhoI was found to require more than 4 bases (8 bases was used successfully). Thus, to be on the safe side, use 8 bases whenever possible. NEB has more information here. Read the information at NEB carefully ... they recommend adding 4 bases to the numbers listed in their table.
- Tom was once having some trouble with failed restriction digests. He called NEB and they recommended doing the digest in a larger volume. Therefore, the Knight lab typically does digests in either 50 μL or 100 μL volumes rather than the 20 μL volume that the Endy lab uses. If the sample needs to be concentrated, some method of DNA purification is used.
- Improving the efficiency of EcoRI/SpeI Double Digest.
