Skip to main content

Denaturing HPLC for Mutation Screening

  • Protocol
  • First Online:
PCR Mutation Detection Protocols

Part of the book series: Methods in Molecular Biology ((MIMB,volume 688))

Abstract

Denaturing High-Performance Liquid Chromatography (dHPLC) is probably the most versatile and one of the most widely used mutation screening technologies. It benefits from a combination of relative technical simplicity and a very high sensitivity (mutation detection rate), approaching 100%. DHPLC can reliably detect single-base mismatches in fragments between 150 and 500 bp, although detection in fragments up to 1,500 bp has been reported. The ability of dHPLC to detect both known and unknown mutations/SNPs, and its’ high sensitivity and specificity (reproducibility) has put this technology at the forefront of genetic analysis for a wide variety of diseases.

This is a preview of subscription content, log in via an institution to check access.

Access this chapter

Protocol
USD 49.95
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
eBook
USD 84.99
Price excludes VAT (USA)
  • Available as EPUB and PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book
USD 159.99
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info
Hardcover Book
USD 109.99
Price excludes VAT (USA)
  • Durable hardcover edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Purchases are for personal use only

Institutional subscriptions

References

  1. Oefner PJ. (1995) Comparative DNA sequence by denaturing high performance liquid chromatography (DHPLC). Am J Hum Genet; 57: A266.

    Google Scholar 

  2. Oefner PJ, Underhill PA. (1999) DNA mutation detection using denaturing high-performance liquid chromatography (DHPLC). In: Dracopoli NC, Haines J, Korf BR, Morton C, Seidman CE, Seidman JG, Moir DT, Smith DR, editors Current Protocols in Human Genetics, Wiley, New York; pp. 7101–71012.

    Google Scholar 

  3. Underhill PA, Jin L, Lin AA, Mehdi SQ, Jenkins T, Vollrath D, Davis RW, Cavalli-Sforza LL, Oefner PJ. (1997) Detection of numerous Y chromosome biallelic polymorphisms by denaturing high-performance liquid chromatography. Genome Res; 7: 996–1005.

    PubMed  CAS  Google Scholar 

  4. Kuklin A, Munson K, Gjerde D, Haefele R, Taylor P. (1997) Detection of single-nucleotide polymorphisms with the WAVE DNA fragment analysis system. Genet Test; 1: 201–6.

    Article  PubMed  CAS  Google Scholar 

  5. Loyant V, Jaffre A, Breton J, Baldi I, Vital A, Chapon F, Dutoit S, Lecluse Y, Loiseau H, Lebailly P, Gauduchon P. (2005) Screening of TP53 mutations by DHPLC and sequencing in brain tumours from patients with an occupational exposure to pesticides or organic solvents. Mutagenesis; 20: 365–73.

    Article  PubMed  CAS  Google Scholar 

  6. Montagna G, Di Biase A, Cappa M, Melone MA, Piantadosi C, Colabianchi D, Patrono C, Attori L, Cannelli N, Cotrufo R, Salvati S, Santorelli FM. (2005) Identification of seven novel mutations in ABCD1 by a DHPLC-based assay in Italian patients with X-linked adrenoleukodystrophy. Hum Mutat; 25: 222.

    Article  PubMed  Google Scholar 

  7. Oldenburg J, Ivaskevicius V, Rost S, Fregin A, White K, Holinski-Feder E, Muller CR, Weber BH. (2001) Evaluation of DHPLC in the analysis of hemophilia A. J Biochem Biophys Methods; 47: 39–51.

    Article  PubMed  CAS  Google Scholar 

  8. Ravnik-Glavac M, Atkinson A, Glavac D, Dean M. (2002) DHPLC screening of cystic fibrosis gene mutations. Hum Mutat; 19: 374–83.

    Article  PubMed  CAS  Google Scholar 

  9. Santer R, Rischewski J, Block G, Kinner M, Wendel U, Schaub J, Schneppenheim R. (2000) Molecular analysis in glycogen storage disease 1 non-A: DHPLC detection of the highly prevalent exon 8 mutations of the G6PT1 gene in German patients. Hum Mutat; 16: 177.

    Article  PubMed  CAS  Google Scholar 

  10. Su YN, Lee CN, Hung CC, Chen CA, Cheng WF, Tsao PN, Yu CL, Hsieh FJ. (2003) Rapid detection of beta-globin gene (HBB) mutations coupling heteroduplex and primer-extension analysis by DHPLC. Hum Mutat; 22: 326–36.

    Article  PubMed  CAS  Google Scholar 

  11. Takashima H, Boerkoel CF, Lupski JR. (2001) Screening for mutations in a genetically heterogeneous disorder: DHPLC versus DNA sequence for mutation detection in multiple genes causing Charcot-Marie-Tooth neuropathy. Genet Med; 3: 335–42.

    Article  PubMed  CAS  Google Scholar 

  12. Wagner T, Stoppa-Lyonnet D, Fleischmann E, Muhr D, Pages S, Sandberg T, Caux V, Moeslinger R, Langbauer G, Borg A, Oefner P. (1999) Denaturing high-performance liquid chromatography detects reliably BRCA1 and BRCA2 mutations. Genomics; 62: 369–76.

    Article  PubMed  CAS  Google Scholar 

  13. Wuyts W, Radersma R, Storm K, Vits L. (2005) An optimized DHPLC protocol for molecular testing of the EXT1 and EXT2 genes in hereditary multiple osteochondromas. Clin Genet; 68: 542–7.

    Article  PubMed  CAS  Google Scholar 

  14. Xu E, Lai M, Lv B, Xing X, Huang Q, Ma Y, Wang W. (2005) DHPLC analysis of the matrix metalloproteinase-1 promoter 1G/2G polymorphism that can be easily used to screen large population. J Biochem Biophys Methods; 63: 222–7.

    Article  PubMed  CAS  Google Scholar 

  15. Wolford JK, Blunt D, Ballecer C, Prochazka M. (2000) High-throughput SNP detection by using DNA pooling and denaturing high performance liquid chromatography (DHPLC). Hum Genet; 107: 483–7.

    Article  PubMed  CAS  Google Scholar 

  16. Azarani A, Hecker KH. (2001) RNA analysis by ion-pair reversed-phase high performance liquid chromatography. Nucleic Acids Res; 29: E7.

    Article  PubMed  CAS  Google Scholar 

  17. Fang N, Lin L, Ren J, Wu D. (2004) Detection of C677T mutation in methylenetetrahydrofolate reductase gene by denaturing high performance liquid chromatography. Biomed Chromatogr; 18: 625–9.

    Article  PubMed  CAS  Google Scholar 

  18. Keller G, Hartmann A, Mueller J, Hofler H. (2001) Denaturing high pressure liquid chromatography (DHPLC) for the analysis of somatic p53 mutations. Lab Invest; 81: 1735–7.

    Article  PubMed  CAS  Google Scholar 

  19. Betsalel OT, van de Kamp JM, Martinez-Munoz C, Rosenberg EH, de Brouwer AP, Pouwels PJ, van der Knaap MS, Mancini GM, Jakobs C, Hamel BC, Salomons GS. (2008) Detection of low-level somatic and germline mosaicism by denaturing high-performance liquid chromatography in a EURO-MRX family with SLC6A8 deficiency. Neurogenetics; 9: 183–90.

    Article  PubMed  CAS  Google Scholar 

  20. Jones AC, Sampson JR, Cheadle JP. (2001) Low level mosaicism detectable by DHPLC but not by direct sequencing. Hum Mutat; 17: 233–4.

    Article  PubMed  CAS  Google Scholar 

  21. Lu C, Xu HM, Ren Q, Ao Y, Wang ZN, Ao X, Jiang L, Luo Y, Zhang X. (2003) Somatic mutation analysis of p53 and ST7 tumor suppressor genes in gastric carcinoma by DHPLC. World J Gastroenterol; 9: 2662–5.

    PubMed  CAS  Google Scholar 

  22. Rugg EL, Magee GJ. (2005) Use of denaturing high-performance liquid chromatography in molecular medicine. In: Walker JM, Rapley R, editors. Medical Biomethods Handbook, Springer, Totowa, NJ; pp 315–325.

    Google Scholar 

  23. Harvey J, Schollen E. (2004). Practice Guidelines for the Use of the WAVE System in Diagnostic Service. CMGS: http://cmgsweb.shared.hosting.zen.co.uk/BPGs/pdfs%20current%20bpgs/DHPLC.pdf.

Download references

Acknowledgment

Some Figures are reproduced with kind permission from Transgenomic Inc. (Omaha, USA).

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to Jacqueline Cutler .

Editor information

Editors and Affiliations

Rights and permissions

Reprints and permissions

Copyright information

© 2011 Humana Press

About this protocol

Cite this protocol

Mitchell, M., Cutler, J. (2011). Denaturing HPLC for Mutation Screening. In: Theophilus, B., Rapley, R. (eds) PCR Mutation Detection Protocols. Methods in Molecular Biology, vol 688. Humana Press. https://doi.org/10.1007/978-1-60761-947-5_3

Download citation

  • DOI: https://doi.org/10.1007/978-1-60761-947-5_3

  • Published:

  • Publisher Name: Humana Press

  • Print ISBN: 978-1-60761-946-8

  • Online ISBN: 978-1-60761-947-5

  • eBook Packages: Springer Protocols

Publish with us

Policies and ethics