High-throughput multiplex single-nucleotide polymorphism (SNP) analysis in genes involved in methionine metabolism

Betti Giusti, Ilaria Sestini, Claudia Saracini, Elena Sticchi, Paola Bolli, Alberto Magi, Anna Maria Gori, Rossella Marcucci, Gian Franco Gensini, Rosanna Abbate

Research output: Contribution to journalArticle

Abstract

Hyperhomocysteinemia is a well-known independent marker factor for atherothrombotic diseases and may result from acquired and genetic influences. Several polymorphisms are suspected to be associated with hyperhomocysteinemia, but data are limited and inconsistent. High-throughput genotyping technologies, such as GenomeLab SNPStream, are now available. Moreover, an appropriate selection of SNPs to be analyzed could represent a strong resource to define the role of genetic risk factors. We developed a multiplex PCR-oligonucleotide extension approach by GenomeLab platform. We selected 72 SNPs based on their putative function and frequency in the candidate genes AHCY, BHMT, BHMT2, CBS, ENOSF1, FOLH1, MTHFD1, MTHFR, MTR, MTRR, NNMT, PON1, PON2, SLC19A1, SHMT1, TCN2, and TYMS. We were able to analyze 57 of the SNPs (79%). For MTHFR C677T and A1298C and MTR A2756G SNPs, we compared data obtained with an electronic microchip technology and found 99.2% concordance. We also performed a haplotype analysis. This approach could represent a useful tool to investigate the genotype-phenotype correlation and the association of these genes with hyperhomocysteinemia and correlated diseases.

Original languageEnglish
Pages (from-to)406-423
Number of pages18
JournalBiochemical Genetics
Volume46
Issue number7-8
DOIs
Publication statusPublished - Aug 2008

Keywords

  • Genotyping
  • High-throughput technologies
  • Homocysteine
  • Hyperhomocysteinemia
  • Primer extension
  • Single-nucleotide polymorphism (SNP)

ASJC Scopus subject areas

  • Biochemistry
  • Genetics

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  • Cite this

    Giusti, B., Sestini, I., Saracini, C., Sticchi, E., Bolli, P., Magi, A., Gori, A. M., Marcucci, R., Gensini, G. F., & Abbate, R. (2008). High-throughput multiplex single-nucleotide polymorphism (SNP) analysis in genes involved in methionine metabolism. Biochemical Genetics, 46(7-8), 406-423. https://doi.org/10.1007/s10528-008-9159-5