Saphir Bst Polymerase

For general laboratory use.

Shipping: shipped on gel packs

Storage Conditions: store at -20 °C
avoid freeze/thaw cycles

Shelf Life: 12 months

Concentration: 8 units/μl

Description:
Saphir Bst Polymerase is a genetically improved Bst polymerase for rapid and specific amplification of DNA at constant temperature (60 to 65 °C). The enzyme shows high strand displacement activity and generates an amplification factor of up to 10⁹ which is comparable to approx. 30 cycles in a PCR assay. This allows detection of a target gene within 10-30 minutes.

Content:
Saphir Bst Polymerase
8 units/μl Bst DNA Polymerase in 10 mM Tris-HCl, 50 mM KCl, 50 % (v/v) Glycerol, pH 7.5 (25 °C) and stabilizers.

Saphir Bst Buffer
10 x conc. complete reaction buffer containing 200 mM Tris-HCl pH 8.8, KCl, (NH₄)₂SO₄, 20 mM MgSO₄ and detergents.

MgSO₄ Stock Solution
25 mM MgSO₄.

Detection
Although some methods have been developed to visualize DNA amplification by basic equipment or even the naked eye (increase of turbidity, color change of added dyes, hybridization to gold-bound ss-DNA) in general real-time detection of the DNA amplification by a fluorescent DNA-intercalator dye is recommended. Addition of a Fluorescent DNA Stain to the assay allows a sensitive measurement of the increasing amount of DNA without influence on the reaction.

Assay design
Isothermal amplification is an extremely sensitive detection method and care should be taken to avoid contamination of set-up areas and equipment with DNA of previous reactions. A common problem is amplification in no-template controls due to
1. carry-over contamination or
2. amplification of unspecifically annealed primers or primer dimer formations.
As sensitivity and non-template amplification of in-silico designed primers may vary, the evaluation of 2-4 real primer sets before choosing a final set is recommended.

Assay set-up
Depending on the detection method and machine a reaction volume of 20-50 μl is recommended for most applications. Pipet with sterile filter tips and perform the set-up in an area separate from DNA preparation or analysis. No-template controls should be included in all amplifications.
First, prepare a 10x conc. primer pre-mix. Second, set-up the isothermal amplification assay:

^* optional, please refer to the table below

• Use a specific detection instrument for isothermal amplification or a real-time PCR cycler to run the assays
• Set the instrument to a constant incubation temperature between 60 to 65°C (depending on the primer annealing temperature)
• Measure the fluorescence intensity at an interval of 1 min for up to 30 min.

Optimization of MgSO₄ concentration:
A final Mg²⁺ concentration of 6.0 mM (as already contained in the reaction buffer) is optimal for most primer-template combinations. However, if an individual Mg²⁺ optimization is essential add 25 mM MgSO₄ stock solution as shown in the table below.

Trouble shouting
If amplification in no-template controls occurs the following points should be reviewed.

Cross contamination from environments

• Clean equipment and areas with “DNA Away” solution
• Replace reagent stocks and pre-mixes with new components
• Stop reactions at an earlier point of time before non-template amplification occur

Carry-over contamination from previous reaction products

• Avoid opening reaction vessels after amplification
• Use separate preparation area and equipment if post-reaction processing is necessary

Non-template amplification from primers

• Increase incubation temperature stepwise by 1-2 °C
• Design a new set of primers for the target sequence

Related products:

• dNTP Mix / 10 mM, #NU-1006
• dNTP Mix / 25 mM, #NU-1023

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