A novel mutation detection approach of hMLH1 and hMSH2 genes for screening of colorectal cancer

Ziqiang Yuan, Benjamin Legendre, Prashanth V. Sreeramoju, Christina Lowes, David M. Reynolds, Anna Bennett, Tara Sotsky Kent, Agnes Miller, Jim Zhu, Thomas K. Weber

Research output: Contribution to journalArticle

3 Citations (Scopus)

Abstract

Background: Recently, Denaturing High-Performance Liquid Chromatography (DHPLC) has been widely used for mutation detection hMLH1 and hMSH2 genes due to reduced cost of analysis, accuracy, and high sample throughput. Unfortunately, one major drawback in screening the hMLH1 and hMSH2 genes with any analysis technique involves sample preparation. Additionally, there are limitations to this technique which include: (1) amplicons for hMLH1 and hMSH2 exons cannot be generated under the same PCR thermal cycler condition due to differences in the annealing temperatures of the traditional primer sets which drastically increases sample preparation time; (2) due to minimal changes in the DHPLC chromatogram when compared to the corresponding wild-type amplicon, there is a possibility to not detect a homozygous mutation; and (3) lack of specialized mutation analysis software for automated screening of the hMLH1 and hMSH2 genes with the Transgenomic Wave system. Methods: To overcome these limitations, the hMLH1 and hMSH2 condition-oriented-PCR primer-embedded-reactor (COPPER) plate was developed to reduce the sample preparation time and technological skill required for analysis, as well as standardize a mutation screening technique for hMLH1 and hMSH2 analysis using the Transgenomic Wave system for research and clinical genetics investigations. In this study, we validated the COPPER plate for simultaneous amplification of the exons of the hMLH1 and hMSH2 genes coupled to DHPLC detection for colorectal cancer (CRC) patients. Results and Conclusions: Our results suggest that the COPPER plate DHPLC approach is a simple, cost effective, accurate, universal, and reproducible technology for screening hMLH1 and hMSH2 genes which are associated with human CRC. We also believe that the COPPER plate DHPLC approach is amenable for characterization of other germline alterations in clinical genetics and pharmacogenetics.

Original languageEnglish (US)
Pages (from-to)333-340
Number of pages8
JournalCancer Detection and Prevention
Volume30
Issue number4
DOIs
StatePublished - 2006

Fingerprint

Colorectal Neoplasms
High Pressure Liquid Chromatography
Polymerase Chain Reaction
Mutation
Genes
Exons
Costs and Cost Analysis
Genetic Research
Pharmacogenetics
Software
Hot Temperature
Technology
Temperature

Keywords

  • Colorectal cancer (CRC)
  • Condition-oriented-PCR primer-embedded-reactor plate
  • Denaturing High-Performance Liquid Chromatography
  • DHPLC
  • Direct sequencing
  • Germline mutations
  • Hereditary nonpolyposis colorectal cancer
  • High-throughput techniques
  • hMLH1 and hMSH2
  • Mismatch repair
  • Single nucleotide changes potential mutations

ASJC Scopus subject areas

  • Cancer Research
  • Oncology

Cite this

A novel mutation detection approach of hMLH1 and hMSH2 genes for screening of colorectal cancer. / Yuan, Ziqiang; Legendre, Benjamin; Sreeramoju, Prashanth V.; Lowes, Christina; Reynolds, David M.; Bennett, Anna; Kent, Tara Sotsky; Miller, Agnes; Zhu, Jim; Weber, Thomas K.

In: Cancer Detection and Prevention, Vol. 30, No. 4, 2006, p. 333-340.

Research output: Contribution to journalArticle

Yuan, Ziqiang ; Legendre, Benjamin ; Sreeramoju, Prashanth V. ; Lowes, Christina ; Reynolds, David M. ; Bennett, Anna ; Kent, Tara Sotsky ; Miller, Agnes ; Zhu, Jim ; Weber, Thomas K. / A novel mutation detection approach of hMLH1 and hMSH2 genes for screening of colorectal cancer. In: Cancer Detection and Prevention. 2006 ; Vol. 30, No. 4. pp. 333-340.
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abstract = "Background: Recently, Denaturing High-Performance Liquid Chromatography (DHPLC) has been widely used for mutation detection hMLH1 and hMSH2 genes due to reduced cost of analysis, accuracy, and high sample throughput. Unfortunately, one major drawback in screening the hMLH1 and hMSH2 genes with any analysis technique involves sample preparation. Additionally, there are limitations to this technique which include: (1) amplicons for hMLH1 and hMSH2 exons cannot be generated under the same PCR thermal cycler condition due to differences in the annealing temperatures of the traditional primer sets which drastically increases sample preparation time; (2) due to minimal changes in the DHPLC chromatogram when compared to the corresponding wild-type amplicon, there is a possibility to not detect a homozygous mutation; and (3) lack of specialized mutation analysis software for automated screening of the hMLH1 and hMSH2 genes with the Transgenomic Wave system. Methods: To overcome these limitations, the hMLH1 and hMSH2 condition-oriented-PCR primer-embedded-reactor (COPPER) plate was developed to reduce the sample preparation time and technological skill required for analysis, as well as standardize a mutation screening technique for hMLH1 and hMSH2 analysis using the Transgenomic Wave system for research and clinical genetics investigations. In this study, we validated the COPPER plate for simultaneous amplification of the exons of the hMLH1 and hMSH2 genes coupled to DHPLC detection for colorectal cancer (CRC) patients. Results and Conclusions: Our results suggest that the COPPER plate DHPLC approach is a simple, cost effective, accurate, universal, and reproducible technology for screening hMLH1 and hMSH2 genes which are associated with human CRC. We also believe that the COPPER plate DHPLC approach is amenable for characterization of other germline alterations in clinical genetics and pharmacogenetics.",
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T1 - A novel mutation detection approach of hMLH1 and hMSH2 genes for screening of colorectal cancer

AU - Yuan, Ziqiang

AU - Legendre, Benjamin

AU - Sreeramoju, Prashanth V.

AU - Lowes, Christina

AU - Reynolds, David M.

AU - Bennett, Anna

AU - Kent, Tara Sotsky

AU - Miller, Agnes

AU - Zhu, Jim

AU - Weber, Thomas K.

PY - 2006

Y1 - 2006

N2 - Background: Recently, Denaturing High-Performance Liquid Chromatography (DHPLC) has been widely used for mutation detection hMLH1 and hMSH2 genes due to reduced cost of analysis, accuracy, and high sample throughput. Unfortunately, one major drawback in screening the hMLH1 and hMSH2 genes with any analysis technique involves sample preparation. Additionally, there are limitations to this technique which include: (1) amplicons for hMLH1 and hMSH2 exons cannot be generated under the same PCR thermal cycler condition due to differences in the annealing temperatures of the traditional primer sets which drastically increases sample preparation time; (2) due to minimal changes in the DHPLC chromatogram when compared to the corresponding wild-type amplicon, there is a possibility to not detect a homozygous mutation; and (3) lack of specialized mutation analysis software for automated screening of the hMLH1 and hMSH2 genes with the Transgenomic Wave system. Methods: To overcome these limitations, the hMLH1 and hMSH2 condition-oriented-PCR primer-embedded-reactor (COPPER) plate was developed to reduce the sample preparation time and technological skill required for analysis, as well as standardize a mutation screening technique for hMLH1 and hMSH2 analysis using the Transgenomic Wave system for research and clinical genetics investigations. In this study, we validated the COPPER plate for simultaneous amplification of the exons of the hMLH1 and hMSH2 genes coupled to DHPLC detection for colorectal cancer (CRC) patients. Results and Conclusions: Our results suggest that the COPPER plate DHPLC approach is a simple, cost effective, accurate, universal, and reproducible technology for screening hMLH1 and hMSH2 genes which are associated with human CRC. We also believe that the COPPER plate DHPLC approach is amenable for characterization of other germline alterations in clinical genetics and pharmacogenetics.

AB - Background: Recently, Denaturing High-Performance Liquid Chromatography (DHPLC) has been widely used for mutation detection hMLH1 and hMSH2 genes due to reduced cost of analysis, accuracy, and high sample throughput. Unfortunately, one major drawback in screening the hMLH1 and hMSH2 genes with any analysis technique involves sample preparation. Additionally, there are limitations to this technique which include: (1) amplicons for hMLH1 and hMSH2 exons cannot be generated under the same PCR thermal cycler condition due to differences in the annealing temperatures of the traditional primer sets which drastically increases sample preparation time; (2) due to minimal changes in the DHPLC chromatogram when compared to the corresponding wild-type amplicon, there is a possibility to not detect a homozygous mutation; and (3) lack of specialized mutation analysis software for automated screening of the hMLH1 and hMSH2 genes with the Transgenomic Wave system. Methods: To overcome these limitations, the hMLH1 and hMSH2 condition-oriented-PCR primer-embedded-reactor (COPPER) plate was developed to reduce the sample preparation time and technological skill required for analysis, as well as standardize a mutation screening technique for hMLH1 and hMSH2 analysis using the Transgenomic Wave system for research and clinical genetics investigations. In this study, we validated the COPPER plate for simultaneous amplification of the exons of the hMLH1 and hMSH2 genes coupled to DHPLC detection for colorectal cancer (CRC) patients. Results and Conclusions: Our results suggest that the COPPER plate DHPLC approach is a simple, cost effective, accurate, universal, and reproducible technology for screening hMLH1 and hMSH2 genes which are associated with human CRC. We also believe that the COPPER plate DHPLC approach is amenable for characterization of other germline alterations in clinical genetics and pharmacogenetics.

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KW - DHPLC

KW - Direct sequencing

KW - Germline mutations

KW - Hereditary nonpolyposis colorectal cancer

KW - High-throughput techniques

KW - hMLH1 and hMSH2

KW - Mismatch repair

KW - Single nucleotide changes potential mutations

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