High-density single-nucleotide polymorphism (SNP) map of the 150-kb region corresponding to the human ATP-binding cassette transporter A1 (<Emphasis Type="Italic">ABCA1</Emphasis>) gene |
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Authors: | A Iida S Saito A Sekine Y Kitamura K Kondo C Mishima S Osawa S Harigae Y Nakamura |
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Institution: | (1) Laboratory for Genotyping, RIKEN SNP Research Center, Tokyo, Japan, JP;(2) Laboratory of Molecular Medicine, Human Genome Center, Institute of Medical Science, The University of Tokyo, 4-6-1 Shirokanedai, Minato-ku, Tokyo 108-8639, Japan Tel. +81-3-5449-5372; Fax +81-3-5449-5433 e-mail: yusuke@ims.u-tokyo.ac.jp, JP |
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Abstract: | Highly dense catalogs of human genetic variations, in combination with high-throughput genotyping technologies, are expected
to clarify individual genetic differences in pharmacological responsiveness and predispositions to common diseases. Here we
report single-nucleotide polymorphisms (SNPs) present among 48 Japanese individuals at the locus for the human ATP-binding
cassette transporter A1 (ABCA1) gene. ABCA1 plays a key role in apolipoprotein-mediated cholesterol transport, and mutations in this gene are responsible
for Tangier disease and familial high-density lipoprotein deficiency associated with reduced cholesterol efflux. We identified
a total of 162 SNPs, 149 of which were novel, within the 150-kb region encompassing the entire ABCA1 gene. Eight of the SNPs lie within coding elements, two in 5′ flanking regions, 147 in introns, and five in 3′ untranslated
regions, but none were found in 5′ untranslated or 3′ flanking regions. The ratio of transitions to transversions was approximately
2.37 to 1. Our dense SNP map of this region could serve as a powerful resource for studies of complex genetic diseases that
may be associated with ABCA1 and of individual responses to drug therapy.
Received: May 22, 2001 / Accepted: June 12, 2001 |
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Keywords: | Single-nucleotide polymorphism (SNP) Insertion-deletion polymorphism High-density SNP map ATP-binding cassette A1 transporter gene Japanese population Nonsynonymous substitution |
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