DNA sequencing by MALDI-TOF MS using alkali cleavage of RNA/DNA chimeras

Nucleic Acids Research

Volumn 35, Issue 8, 2007, Pages

  Mauger, Florence ^a   Bauer, Keith ^b   Calloway, Cassandra D ^b   Semhoun, Jérémy ^a   Nishimoto, Tetsuya ^b   Myers, Thomas W ^b   Gelfand, David H ^b   Gut, Ivo G ^a  

^a CENTRE NATIONAL DE GÉNOTYPAGE   (France)

^b ROCHE MOLECULAR SYSTEMS   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ADENOSINE TRIPHOSPHATE; ALKALI; CYTIDINE TRIPHOSPHATE; DNA POLYMERASE; GUANOSINE TRIPHOSPHATE; MITOCHONDRIAL DNA; RIBONUCLEOTIDE; RNA; DEOXYRIBONUCLEOTIDE; DNA; DNA DIRECTED DNA POLYMERASE; SODIUM HYDROXIDE;

ACCURACY; ARTICLE; CHIMERA; DNA CLEAVAGE; DNA DETERMINATION; DNA SEQUENCE; GENE AMPLIFICATION; GENE MUTATION; HUMAN; MATRIX ASSISTED LASER DESORPTION IONIZATION TIME OF FLIGHT MASS SPECTROMETRY; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; RNA CLEAVAGE; CHEMISTRY; EVALUATION; GENETIC POLYMORPHISM; MASS SPECTROMETRY; METABOLISM; METHODOLOGY;

DEOXYRIBONUCLEOTIDES; DNA; DNA, MITOCHONDRIAL; DNA-DIRECTED DNA POLYMERASE; POLYMORPHISM, GENETIC; RIBONUCLEOTIDES; RNA; SEQUENCE ANALYSIS, DNA; SODIUM HYDROXIDE; SPECTROMETRY, MASS, MATRIX-ASSISTED LASER DESORPTION-IONIZATION;

EID: 34250331572     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkm056     Document Type: Article

References (14)

1. Karas,M. and Hillenkamp,F. (1988) Laser desorption ionization of proteins with molecular masses exceeding 10,000 daltons. Anal. Chem. 60, 2299-2301.
2. NordhoffE., Kirpekar,F. and Roepstorff,P. (1996) Mass spectrometry of nucleic acids. Mass Spectrom. Rev., 15, 67-138.
3. Tost,J. and Gut,I.G. (2002) Genotyping single nucleotide polymorphisms by mass spectrometry. Mass Spectrom. Rev., 21, 388-418.,
4. Krebs,S., Medugorac,I., Seichter,D. and Forster,M. (2003) RNaseCut: A MALDI mass spectrometry-based method for SNP discovery. Nucleic Acids Res., 31, e37.
5. Ehrich,M., Bocker,S. and van den Boom,D. (2005) Multiplexed discovery of sequence polymorphisms using base-specific cleavage and MALDI-TOF MS. Nucleic Acids Res., 33, e38.
6. Hall,T.A., Budowle,B., Jiang,Y., Blyn,L., Eshoo,M., Sannes-Lowery,K.A., Sampath,R., Drader,J.J., Hannis,J.C. et al. (2005) Base composition analysis of human mitochondrial DNA using electrospray ionization mass spectrometry: A novel tool for the identification and differentiation of humans. Anal. Biochem., 344, 53-69.
7. Kline,M.C., Vallone,P.M., Redman,J.W., Duewer,D.L., Calloway,C.D. and Butler,J.M. (2005) Mitochondrial DNA typing screens with control region and coding region SNPs. J. Forensic Sci., 50, 377-385.
8. Oberacher,H., Niederstatter,H., Huber,C.G. and Parson,W. (2006) Accurate determination of allefic frequencies in mitochondrial DNA mixtures by electrospray ionization time-of-flight mass spectrometry. Anal. Bioanal. Chem., 384, 1155-1163.
9. Mauger,F., Jaunay,O., Chamblain,V., Reichert,F., Bauer,K., Gut,I.G. and Gelfand,D.H. (2006) SNP genotyping using alkali cleavage of RNA/DNA chimeras and MALDI time-of-flight mass spectrometry. Nucleic Acids Res., 34, e18.
10. Schonbrunner,N.J., Myers,T.W. and Gelfand,D.H. (2004) US patent no. US Patent Office Publication 20040005599(A1).
11. Schonbrunner,N.J., Fiss,E.H., Budker,O., Stoffel,S., Sigua,C.L., Gelfand,D.H. and Myers,T.W. (2006) Chimeric thermostable DNA polymerases with reverse transcriptase and attenuated 3′-5′ exonuclease activity. Biochemistry, 45, 12786-12795.
12. Zhu,Y.F., Chung,C.N., Taranenko,N.I., Allman,S.L., Martin,S.A., Haff,L. and Chen,C.H. (1996) The study of 2,3,4-trihydroxyacetophenone and 2,4,6-trihydroxyphenone matrices for DNA detection in matrix-assisted laser desorption/ionization time-of-flight mass spectrometry. Rapid Comm. Mass Spectrom., 10, 383-388.
13. Anderson,S., Bankier,A.T., Barrell,B.G., de Bruijn,M.H., Coulson,A.R., Drouin,J., Eperon,I.C., Nierlich,D.P., Roe,B.A. et al. (1981) Sequence and organization of the human mitochondrial genome. Nature 290, 457-465.
14. Hahner,S., Ludemann,H.C., Kirpekar,F., Nordhoff,E., Roepstorff,P., Galla,H.J. and Hillenkamp,F. (1997) Matrix-assisted laser desorption/ ionization mass spectrometry (MALDI) of endonuclease digests of RNA. Nucleic Acids Res., 25, 1957-1964.