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KOD DNA Polymerases
KOD Citations by Application
Overview
KOD
KOD Hot Start
KOD XL
KOD Xtreme™ Hot Start DNA Polymerase
KOD Hot Start DNA Polymerase
 aa Comparing the speed and yield of 7 high fidelity polymerases
 aa KOD Hot Start DNA Polymerase compared with PfuUltra™ and PfuTurbo®
 aa KOD DNA Polymerases Overview
 aa KOD DNA Polymerase
 aa New KOD Xtreme™ Hot Start DNA Polymerase
 aa KOD XL DNA Polymerase
 aa KOD Citations by Application
 
KOD Hot Start DNA Polymerase*is a premixed complex of KOD DNA Polymerase and two monoclonal antibodies that inhibit the DNA polymerase and 3´→ 5´ exonuclease activities at ambient temperatures (1). KOD Hot Start combines the high fidelity, fast extension speed, and outstanding processivity of KOD with the high specificity of an antibody-mediated hot start. Non-specific amplification is reduced because mispriming events that can occur during setup and initial temperature increase are avoided. In addition, primer degradation during setup at room temperature due to exonuclease activity is effectively inhibited. KOD Hot Start Master Mix is a ready-to-use 2x mixture optimized for convenient high-fidelity PCR. KOD Hot Start DNA Polymerase generates blunt-ended PCR products suitable for cloning with the Novagen Perfectly Blunt® and LIC Vector Kits.
All the benefits of KOD Hot Start are now available in a master mix.
Features:
Highest accuracy, yield, and processivity of commercially available proofreading DNA polymerases
Amplifies genomic DNA templates up to 12 kbp
Amplifies plasmid and lambda DNA templates up to 21 kbp
Eliminates mispriming and primer-dimer formation
Convenient room-temperature setup compatible with automation
Optimal KOD Hot Start Buffer for PCR performance over a wide
range of targets

 

 

Figure 1. Amplification with KOD Hot Start
KOD Hot Start amplification
Figure 2

View Product Details and Order Information

Comparing the speed and product yield of 7 high fidelity DNA Polymerases
The  three Rs of PCR: Rapid, Robust, Reliable

KOD is Rapid
KOD yields more product in fewer cycles compared to other PCR enzymes

The data below show the speed and yield of KOD and KOD Hot Start DNA Polymerases compared to five other high fidelity thermophilic DNA polymerases. In addition to a low mutation frequency, the fast extension rate and high processivity of KOD result in higher yields of full-length product in fewer reaction cycles. Combined, these make KOD Hot Start DNA Polymerase the PCR enzyme of choice for structural proteomics studies.

All 7 enzymes were tested in 4 different cycling protocols, which encompass the manufacutrer's recommended cycling conditions

 
Cycling profile A
PCR samples (5 µl) were taken after 23, 25, 27, and 29 cycles and assayed on 1.4% agarose/TAE gels. Lanes indicated the enzyme used for the reaction. Cycling profiles are defined in the table above.

 
For cycles B, C, and D see the full newsletter article

KOD is Robust
KOD for 2-step PCR

  • KOD enzymes give high yields in a time-saving 2-step protocol comparable to the 3-step protocols (Compare to Figure 4 above).

 

PCR results from 7 high fidelity enzymes using a 2-step cycling profile
PCR samples were removed after 23, 25, 27, and 29 cycles of a 2-step protocol and 5 µl were assayed on 1.4% agarose/TAE gels. Lanes indicated the enzymes used for the reaction.
25 cycles

KOD is Reliable
KOD application: screening cDNA libraries

KOD Hot Start DNA Polymerase was used in a 2-step cycling profile to screen clones from the T7Select® Human cDNA Library (Cat. No. 70637). Of the 50 clones screened, KOD successfully amplified 49 inserts. Amplicons ranged in size from ~250–1800 bp.

KOD Hot Start amplification of T7Select® human cDNA Library
Reactions were cycled with an initial denaturation at 95°C for 2 min and 25 cycles of 95°C for 20 s, 68°C for 25 s.
25 cycles

 

Performance of KOD Hot Start DNA Polymerase compared with PfuUltra® and PfuTurbo® enzymes:
  • Elongation rate is 5 times higher than Pfu DNA Polymerase (3).

  • Processivity is 10 to 15 times higher than Pfu DNA polymerase (3).

  • Highest yields of amplified human genomic DNA was obtained with KOD Hot Start DNA Polymerase (refer to Figure 3 below). Both PfuTurbo and Pfu Ultra high-fidelity DNA polymerases generated lower yields of products under the same conditions.

  • Lower PCR mutation frequency. When the fidelity of replication was measured as the mutation frequency in PCR products using a modified rpsL+ fidelity assay it was found that KOD Hot Start and Pfu Ultra demonstrated comparable mutation frequencies, while PfuTurbo exhibited a two-fold higher mutation frequency. (refer to Figure 2).

 
Typical PCR reaction setup
DNA Polymerase
Component1
PfuTurbo
PfuUltra high-fidelity
KOD Hot Start
Specific 10X PCR buffer
5 ml
5 ml
5 ml
dNTPs
0.2 mM
each
0.2 mM
each
0.2 mM
each
MgSO4
none
none
1 mM
MgCl2
about 2 mM2
about 2 mM2
none
5’ primer
0.2–0.5 mM
0.2–0.5 mM
0.3 mM
3’ primer
0.2–0.5 mM
0.2–0.5 mM
0.3 mM
Template DNA
Reverse transcriptase reaction mixture
n/a3
n/a3
2 ml
Genomic DNA
50–100 ng
50–100 ng
200 ng
lDNA/plasmid DNA
10 pg–100 ng
0.1–30 ng
1–50 ng
DNA polymerase
2.5 U
2.5 U
1 U
PCR grade water
X ml
X ml
X ml
Total volume
50 ml
50 ml
50 ml
1 Final reaction concentrations of the components shown are for typical PCR reactions with the indicated DNA polymerases.
2 MgCl2 is included as a component of the 10X PCR buffer for PfuTurbo and PfuUltra high-fidelity DNA polymerases.
3 Data not available.
 
 

 

For more information see the full newsletter article.

 

 
1. Mizuguchi, H., Nakatsuji, M., Fujiwara, S., Takagi, M., and Imanaka, T. (1999) J. Biochem. (Tokyo) 126, 762–768.
2. Kitabayashi, M., Nishiya, Y., Esake, M., Itakura, M., and Imanaka, T., (2002) Biosci. Biotechnol. Biochem. 66, 2194–2200.
3. Fujii, S., Akiyama, M., Aoki, K., Sugaya, Y., Higuchi, K., Hiraoka, M., Miki, Y., Saitoh, N., Ysohiyama, K., Ihara, K., Seki, M., Ohtsubo, E., and Maki, H. (1999) J. Mol. Biol. 289, 835–850.
 

* Manufactured by TOYOBO and distributed by EMD Chemicals. Not available from Merck Chemicals in Japan.

† Purchase of this product includes an immunity from suit under patents specified in the product insert to use only the amount purchased for the purchaser's own internal research. No other patents rights (such as 5' Nuclease Process patent rights) are conveyed expressly, by implication, or by estoppel. Further information on purchasing licenses may be obtained by contacting the Director of Licensing, Applied Biosystems, 850 Lincoln Centre Drive, Foster City, California, 94404, USA.