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The Use of MassARRAY Technology for High Throughput Genotyping

Part of the Advances in Biochemical Engineering/Biotechnology book series (ABE,volume 77)

Abstract

This chapter will explore the role of mass spectrometry (MS) as a detection method for genotyping applications and will illustrate how MS evolved from an expert-user-technology to a routine laboratory method in biological sciences. The main focus will be time-of-flight (TOF) based devices and their use for analyzing single-nucleotide-polymorphisms (SNPs, pronounced snips). The first section will describe the evolution of the use of MS in the field of bio-analytical sciences and the protocols used during the early days of bioanalytical MALDI TOF mass spectrometry. The second section will provide an overview on intraspecies sequence diversity and the nature and importance of SNPs for the genomic sciences. This is followed by an exploration of the special and advantageous features of mass spectrometry as the key technology in modern bioanalytical sciences in the third chapter. Finally, the fourth section will describe the MassARRAY technology as an advanced system for automated high-throughput analysis of SNPs.

Keywords

  • SNP
  • High-throughput
  • MALDI mass spectrometry
  • Genomics
  • DNA chip

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References

  1. McCloskey JA, Crain PF (1992) Int. J. Mass Spectrom. Ion Proc. 118:593

    CrossRef  Google Scholar 

  2. Viari A, Ballini JP, Meleard P, Vigny P, Dousset P, Blonski C, Shire D (1988) Biomed. Environ. Mass Spectrom. 16:225

    CrossRef  CAS  Google Scholar 

  3. Fenn JB, Mann M, Meng CK,Wong SF, Whitehouse CM (1989) Science 246:64

    CrossRef  CAS  Google Scholar 

  4. Johnson YA, Nagpal M, Krahmer MT, Fox KF, Fox A (2000) J. Microbiol. Methods 40:241

    CrossRef  CAS  Google Scholar 

  5. Null AP, Hannis JC, Muddiman DC (2000) Analyst 125:619

    CrossRef  CAS  Google Scholar 

  6. Loo JA, De John DE, Du P, Stevenson TI, Ogorzalek Loo RR (1999) Med. Res. Rev. 19:307

    CrossRef  CAS  Google Scholar 

  7. Veenstra TD (1999) Biochem. Biophys. Res. Commun. 257:1

    CrossRef  CAS  Google Scholar 

  8. Karas M, Hillenkamp F (1988) Anal. Chem. 60:2299

    CrossRef  CAS  Google Scholar 

  9. Börnsen KO, Gass MAS, Bruin GJM, von Adrichem JHM, Biro MC, Kresbach GM, Ehrat M (1997) Rapid Commun. Mass Spectrom. 11:603

    CrossRef  Google Scholar 

  10. Nordhoff E, Ingendoh A, Cramer R, Overberg A, Stahl B, Karas M, Hillenkamp F, Crain PF (1992) Rapid Commun. Mass Spectrom. 6:771

    CrossRef  CAS  Google Scholar 

  11. Garden RW, Moroz LL, Moroz TP, Shippy SA, Sweedler JV (1996) J. Mass Spectrom. 31:1126

    CrossRef  CAS  Google Scholar 

  12. Houston CT, Reilly JP (1997) Rapid Commun. Mass Spectrom. 13:1435

    CrossRef  Google Scholar 

  13. Siciliano R, Rega B, Amoresano A, Pucci P (2000) Anal. Chem. 72:408

    CrossRef  CAS  Google Scholar 

  14. Chaurand P, Stoeckli M, Caprioli RM (1999) Anal. Chem. 71:5263

    CrossRef  CAS  Google Scholar 

  15. Eckerskorn C, Strupat K, Karas M, Hillenkamp F, Lottspeich F (1992) Electrophoresis 13:664

    CrossRef  CAS  Google Scholar 

  16. Siegel MM, Tabei K, Kunz A, Hollander IJ, Hamann RR, Bell DH, Berkenkamp S, Hillenkamp F (1997) Anal. Chem. 69:2716

    CrossRef  CAS  Google Scholar 

  17. Deterding LJ, Kast J, Przybylski M, Tomer KB (2000) Bioconjug. Chem. 11:335

    CrossRef  CAS  Google Scholar 

  18. Yates JR 3rd (2000) Trends Gent. 16:5

    CrossRef  CAS  Google Scholar 

  19. Charlwood J, Tolson D, Dwek M, Camilleri P (1999) Anal. Biochem. 273:261

    CrossRef  CAS  Google Scholar 

  20. Korsmeyer KK, Guan S, Yang ZC, Falick AM, Ziegler DM, Cashman JR (1998) Chem. Res. Toxicol. 11:1145

    CrossRef  CAS  Google Scholar 

  21. Spengler B (1997) J. Mass Spectrom. 32:1019

    CrossRef  CAS  Google Scholar 

  22. Rouse JC, Strang AM, Yu W, Vath JE (1998) Anal. Biochem. 256:33

    CrossRef  CAS  Google Scholar 

  23. Tang K, Fu DJ, Kötter S, Cotter RJ, Cantor CR, Köster H (1995) Nucleic Acids Res. 23:3126

    CrossRef  CAS  Google Scholar 

  24. Nordhoff E, Ingendoh A, Cramer R, Overberg A, Stahl B, Karas M, Hillenkamp F, Crain PF (1992) Rapid Commun. Mass Spectrom. 6:771

    CrossRef  CAS  Google Scholar 

  25. Gut IG, Beck S, (1995) Nucleic Acids Res. 23:1367

    CrossRef  CAS  Google Scholar 

  26. Pieles U, Zürcher W, Schär M, Moser HW (1993) Nucleic Acids Res. 21:3191

    CrossRef  CAS  Google Scholar 

  27. Lecchi P, Pannell LK (1995) J. Am. Soc. Mass Spectrom. 6:972

    CrossRef  CAS  Google Scholar 

  28. Jurinke C, van den Boom D, Collazo V, Lüchow A, Jacob A, Köster H (1997) Anal. Chem. 69:904

    CrossRef  CAS  Google Scholar 

  29. Gross J, Strupat K (1998) Trends Anal. Chem. 17:470

    CrossRef  CAS  Google Scholar 

  30. Nordhoff E, Cramer R, Karas M, Hillenkamp F, Kirpekar F, Kristiansen K, Roepstorff P (1993) Nucleic Acids Res. 21:3347

    CrossRef  CAS  Google Scholar 

  31. Kirpekar F, Nordhoff E, Kristiansen K, Roepstorff P, Hahner S, Hillenkamp F (1995) Rapid Commun. Mass Spectrom. 9:525

    CrossRef  CAS  Google Scholar 

  32. Siegert C, Jacob A, Köster H (1996) Anal. Biochem. 243:55

    CrossRef  CAS  Google Scholar 

  33. Wiley WC, McLaren IH (1953) Rev. Sci. Instrum. 26:1150

    CrossRef  Google Scholar 

  34. Wu KJ, Steding A, Becker CH (1993) Rapid Commun. Mass Spectrom. 7:142

    CrossRef  CAS  Google Scholar 

  35. Pieles U, Zurcher W, Schar M, Moser HE (1993) Nucleic Acids Res. 21:3191

    CrossRef  CAS  Google Scholar 

  36. Faulstich K, Worner K, Brill H, Engels JW (1997) Anal. Chem. 69:4349

    CrossRef  CAS  Google Scholar 

  37. Tang K, Taranenko NI, Allmann SL, Ch’ang LY, Chen CH (1994) Rapid Commun. Mass Spectrom. 8:727

    CrossRef  CAS  Google Scholar 

  38. Jurinke C, van den Boom D, Jacob A, Tang K, Wörl R, Köster H (1996) Anal. Biochem. 237:174

    CrossRef  CAS  Google Scholar 

  39. Koster H, Tang K, Fu DJ, Braun A, van den Boom D, Smith CL, Cotter RJ, Cantor CR (1996) Nat. Biotechnol. 14:1123

    CrossRef  CAS  Google Scholar 

  40. Little DP, Braun A, Darnhofer-Demar B, Frilling A, Li Y, McIver RT Jr, Koster H (1997) J. Mol. Med. 75:745

    CrossRef  CAS  Google Scholar 

  41. Higgins GS, Little DP, Koster H (1997) Biotechniques 23:710

    CAS  Google Scholar 

  42. Jurinke C, Zöllner B, Feucht HH, van den Boom D, Jacob A, Polywka S, Laufs R, Köster H (1998) Genet. Anal. 14:97

    CAS  Google Scholar 

  43. Braun A, Little DP, Köster H (1997) Clin. Chem. 43:1151

    CAS  Google Scholar 

  44. van den Boom D, Ruppert A, Jurinke C, Köster H (1997) J. Biochem. Biophys. Meth. 35:69

    CrossRef  Google Scholar 

  45. Kirpekar F, Nordhoff E, Kristiansen K, Roepstorff P, Lezius A, Hahner S, Karas M, Hillenkamp F (1994) Nucleic Acids Res. 22:3866

    CrossRef  CAS  Google Scholar 

  46. Gross J, Leisner A, Hillenkamp F, Hahner S, Karas M, Schafer J, Lutzenkirchen F, Nordhoff E (1998) J. Am. Soc. Mass Spectrom. 9:866

    CrossRef  CAS  Google Scholar 

  47. Little DP, Jacob A, Becker T, Braun A, Darnhofer-Demar B, Jurinke C, van den Boom D, Köster H (1997) Int. J. Mass Spectrom. Ion Processes 169:133

    CrossRef  Google Scholar 

  48. Berkenkamp S, Kirpekar F, Hillenkamp F (1998) Science 281:260

    CrossRef  CAS  Google Scholar 

  49. Fancher CA, Woods AS, Cotter RJ (2000) J. Mass Spectrom. 35:157

    CrossRef  CAS  Google Scholar 

  50. Aparicio SAJR, (2000) Nat. Genet. 25:127

    CrossRef  CAS  Google Scholar 

  51. de Martinville B, Wyman AR, White R, Francke U (1982) Am. J. Hum. Genet. 34:216

    Google Scholar 

  52. Taylor GR, Noble JS, Hall JL, Stewart AD, Mueller RF (1989) Lancet 2:454

    CrossRef  CAS  Google Scholar 

  53. http://snp.cshl.org/

  54. Collins F S, Patrinos A, Jordan E, Chakravarti A, Gesteland R, Walters L, and the members of DOE and NIH planning groups (1998) Science 282:682

    CrossRef  Google Scholar 

  55. Lindblad-Toh K, Winchester E, Daly MJ, Wang DG, Hirschhorn J, Laviolette JP, Ardlie K, Reich DE, Robinson E, Sklar P, Shah N, Thomas D, Fan JB, Gingeras T, Warrington J, Patil N, Hudson TJ, Lander ES (2000) Nat Genet 24:381

    CrossRef  CAS  Google Scholar 

  56. Underhill PA, Jin L, Lin AA, Mehdi SQ, Jenkins T, Vollrath D, Da RW, Cavalli-Sforza LL, Oefner PJ (1997) Genome Res 7:996

    CAS  Google Scholar 

  57. Gonzalez E, Bamshad M, Sato N, Mummidi S, Dhanda R, Catano Cabrera S, McBride M, Cao XH, Merrill G, O’Connell P, Bowden DW, Freedman BI, Anderson SA, Walter EA, Evans JS, Stephan Clark RA, Tyagi S, Ahuja SS, Dolan MJ, Ahuja SK (1999) Proc Natl Acad Sci USA 96:12004

    CrossRef  CAS  Google Scholar 

  58. Bertina RM (1997) Clin Chem 43:1678

    CAS  Google Scholar 

  59. Larrey D (1989) Hepatology 10:168

    CrossRef  CAS  Google Scholar 

  60. Ross P, Hall L, Smirnov I, Haff L (1998) Nat. Biotechnol. 16:1347

    CrossRef  CAS  Google Scholar 

  61. Weaver T (2000) Trends Genet. In press

    Google Scholar 

  62. Braun A, Little D, Köster H (1997) Clin Chem 43:1151

    CAS  Google Scholar 

  63. Braun A, Little D, Reuter D, Müller-Mhysok B, Köster H (1997) Genomics 46:18

    CrossRef  CAS  Google Scholar 

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Jurinke, C., van den Boom, D., Cantor, C.R., Köster, H. (2002). The Use of MassARRAY Technology for High Throughput Genotyping. In: , et al. Chip Technology. Advances in Biochemical Engineering/Biotechnology, vol 77. Springer, Berlin, Heidelberg. https://doi.org/10.1007/3-540-45713-5_4

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  • DOI: https://doi.org/10.1007/3-540-45713-5_4

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