Restriction Enzymes BbsI

A restriction enzyme or restriction endonuclease is defined as a protein that recognizes a specific, short nucleotide sequence and cuts the DNA only at or near that site, known as restriction site or target sequence. The four most common types of restriction enzymes inclue: Type I (cleaves at sites remote from a recognition site), Type II (cleaves within or at short specific distances from a recognition site), Type III (cleave at sites a short distance from a recognition site), and Type IV (targets modified DNA- methylated, hydroxymethylated and glucosyl-hydroxymethylated DNA). The most common challenges with restriction digest include- 1. inactivation of enzyme, 2. incomplete or no digestion, and 3. unexpected cleavage. The enzyme should always be stored at -20C and multiple freeze-thaw cycles should be avoided in order to maintain optimal activity. Always use a control DNA digestion with the enzyme to ensure adequate activity (to avoid interference due to high glycerol in the enzyme). For complete digestion, make sure that the enzyme volume is 1/10th of the total reaction volume, optimal temperature is constantly maintained throughout the reaction, the total reaction time is appropriately calculated based on the amount of DNA to be digested, appropriate buffers should be used to ensure maximal enzymatic activity, and in case of a double digest, make sure that the two restriction sites are far enough so that the activity of one enzyme cannot interfere with activity of the other. Star activity (or off-target cleavage) and incomplete cleavage are potential challenges which may occur due to suboptimal enzymatic conditions or inappropriate enzyme storage. To avoid these, follow the recommended guidelines for storage and reactions, and always check for the efficacy of digestion along with purification of digested products on an agarose gel.

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Found 4 matching solutions for this experiment

BbsI-HF®

New England BioLabs

Protocol tips
Approximately 3 μg PCR products in 250 μl of
1× CutSmart buffer was mixed with 50 U BbsI-HF,
20 U rSAP, and incubated at 37 °C for 2 h, followed
by deactivation of rSAP at 80 °C for 20 min. MluCI
(20 U) was subsequently added to the mixture and
the digestion was continued at 37 °C for 1 h. The
resulting mixture was extracted once with
phenol/chloroform/isoamyl alcohol (25:24:1, v/v)
and the aqueous phase was evaporated, desalted by Waters Oasis HLB extraction cartridges (Milford,
MA), and redissolved in 10 μl water.
FastDigest BpiI (IIs class)

Thermo Fisher Scientific

Protocol tips
A modified protocol using the FastDigest versions (Thermo Fisher Scientific, USA) of the BsaI and BpiI restriction enzymes were used with an initial 10 min digestion, 20–50 cycles of digestion and ligation (37 °C for 2 min, 16 °C for 5 min), followed by a final digestion step and a heat inactivation step, was used for most assemblies, instead of the standard MoClo protocol.
BbsI NEB#R0539

New England BioLabs

Protocol tips
Set up a BbsI digest by mixing in an Eppendorf tube 300 μg plasmid DNA (see Note 9), 30 μL BbsI (150 U), and 60 μL 10× NEB2, and add H2O to 600 μL total volume. Mix well (without vortexing) and incubate at 37 °C overnight in a Thermomixer.
BpiI (BbsI) (10 U/µL)

Thermo Fisher Scientific

Protocol tips
LRP6 CRISPR-Cas9 targeting construct was generated by ligating the annealing product of the primers listed in Supplementary Table 1 to pX330 (obtained from Addgene #48139) digested with BbsI (Thermo Scientific).
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