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GoTaq® Hot Start Polymerase Successfully Amplified Allele C of Polymorphism 311...

GoTaq® Hot Start Polymerase Successfully Amplified Allele C of Polymorphism 311 (Cys→Ser) on the PON2 Gene

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Abstract

We compared GoTaq® Hot Start Polymerase with the GoTaq® Flexi DNA Polymerase when used to amplify allele C of polymorphism 311 (Cys→Ser) on the PON2 Gene. GoTaq® Hot Start DNA Polymerase amplified the 96bp product without nonspecific bands.

Gerardo Pérez, Lizbeth González, David Oaxaca, Diana Franco and Ariana Vargas

Universidad Autónoma de Yucatán Departamento de Salud Reproductiva y Genetica (SAREG) del Centro de Investigaciones Regionales Ciudad de Mérida, Yucatán, México.
Publication Date: July 2008

Introduction

The gene of an esterase enzyme, called paraoxonase (PON), is a member of a multigene family that comprises three related genes (PON1, PON2 and PON3) with structural homology clustering on the chromosome 7(1) (2) . Polymorphisms of PON2 gene are associated with risk of cardiovascular diseases such as hypercholesterolemia, noninsulin-dependent diabetes, coronary heart disease (CHD) and myocardial infarction. The codon 192 mutation of PON1 gene is associated with the risk of CHD and has a synergistic effect with the codon 311 (Cys→Ser) polymorphism of PON2 gene. Moreover, the PON2 codon 311 (Cys→Ser) polymorphism might interact with the apoE4 allele to increase the risk of dementia(3) .

The polymorphism 311 (Cys→Ser) of PON2 gene was determined by allele-specific oligonucleotide PCR assay (ASO-PCR) using primers described by Chen et al.(4) with patient DNA. This PCR method showed a 96bp DNA fragment for allele C and a 104bp DNA fragment for allele S. In this report, we show the genotyping of allele C in five subjects using both GoTaq® Flexi DNA Polymerase and GoTaq® Hot Start Polymerase (Cat.# M5001).

Materials and Methods

The allele C of polymorphism 311 (Cys→Ser) on PON2 gene was determined by ASO-PCR using the primers in reference 4 with either GoTaq® Flexi DNA Polymerase or GoTaq® Hot Start Polymerase in a 25µl volume. See Table 1 for reaction component volumes and Table 2 for cycling conditions.

PCR Mix.Table 1. PCR Mix.

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Cycling Conditions.Table 2. Cycling Conditions.

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PCR products were resolved by electrophoresis on a 10% polyacrylamide (Cat.# V3111) gel and stained with silver nitrate.

Results

Genotyping the 96bp PCR product of allele C, polymorphism 311 (Cys→Ser) on the PON2 gene.Figure 1. Genotyping the 96bp PCR product of allele C, polymorphism 311 (Cys→Ser) on the PON2 gene.

Panel A. The 96bp product of allele C of polymorphism 311 (Cys→Ser) on PON2 gene was amplified using GoTaq® Flexi DNA Polymerase and separated by polyacrylamide gel electrophoresis. Note the nonspecific bands obtained along with the DNA fragment of expected size (area highlighted by brackets). Lane M, 100bp DNA Ladder (Cat.# G2101); lanes 1–5, allele C amplimers; and lane 6, negative control (no DNA). Panel B. The 96bp amplimer of allele C of polymorphism 311 (Cys→Ser) on PON2 gene generated using the GoTaq® Hot Start Polymerase (Promega). In contrast to the brackets in Panel A, there are no nonspecific products present. Lane M, 100bp DNA Ladder (Cat.# G2101); lanes 1–5, allele C amplimer; and lane 6, negative control (no DNA).

Conclusions

We obtained more specific and cleaner PCR products for allele C of polymorphism 311 (Cys→Ser) on PON2 gene using GoTaq® Hot Start Polymerase compared to GoTaq® Flexi DNA Polymerase, eliminating nonspecific products. GoTaq® Hot Start Polymerase improved our PCR determination of the polymorphism C311S, offering significant advantages by increasing specificity and improving amplification effectiveness.

References

  1. Sorenson, R. et al. (1995) The genetic mapping and gene structure of mouse paraoxonase/arylesterase. Genomics 30, 431–8.
  2. Primo-Parma, S. et al. (1996) The human serum paraoxonase/arylesterase gene (PON1) is one member of a multigene family. Genomics 33, 498–507.
  3. Janka, Z. et al. (2002) Codon 311 (Cys→Ser) polymorphism of paraoxonase-2 gene is associated with apolipoprotein E4 allele in both Alzheimer’s and vascular dementias. Mol. Psychiatry 7, 110–2.
  4. Chen, J. et al. (2003) Increased influence variation on PON1 activity in neonates. Environ. Health Perspect. 111, 1403–9.

How to Cite This Article

Pérez, G., González, L., Oaxaca, D., Franco, D., Vargas, A. GoTaq® Hot Start Polymerase Successfully Amplified Allele C of Polymorphism 311 (Cys→Ser) on the PON2 Gene. [Internet] July 2008. [cited: year, month, date]. Available from: http://www.promega.es/resources/pubhub/enotes/gotaq-hot-start-polymerase-successfully-amplified-allele-c-of-polymorphism-311-on-the-pon2/

Pérez, G., González, L., Oaxaca, D., Franco, D., Vargas, A. GoTaq® Hot Start Polymerase Successfully Amplified Allele C of Polymorphism 311 (Cys→Ser) on the PON2 Gene. Promega Corporation Web site. http://www.promega.es/resources/pubhub/enotes/gotaq-hot-start-polymerase-successfully-amplified-allele-c-of-polymorphism-311-on-the-pon2/ Updated July 2008. Accessed Month Day, Year.

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Figures

Genotyping the 96bp PCR product of allele C, polymorphism 311 (Cys→Ser) on the PON2 gene.Figure 1. Genotyping the 96bp PCR product of allele C, polymorphism 311 (Cys→Ser) on the PON2 gene.

Panel A. The 96bp product of allele C of polymorphism 311 (Cys→Ser) on PON2 gene was amplified using GoTaq® Flexi DNA Polymerase and separated by polyacrylamide gel electrophoresis. Note the nonspecific bands obtained along with the DNA fragment of expected size (area highlighted by brackets). Lane M, 100bp DNA Ladder (Cat.# G2101); lanes 1–5, allele C amplimers; and lane 6, negative control (no DNA). Panel B. The 96bp amplimer of allele C of polymorphism 311 (Cys→Ser) on PON2 gene generated using the GoTaq® Hot Start Polymerase (Promega). In contrast to the brackets in Panel A, there are no nonspecific products present. Lane M, 100bp DNA Ladder (Cat.# G2101); lanes 1–5, allele C amplimer; and lane 6, negative control (no DNA).

Tables

PCR Mix.Table 1. PCR Mix.

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Cycling Conditions.Table 2. Cycling Conditions.

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