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Vol. 10, Issue 12, 1878-1889, December 2000

Comparative Genome Analysis of the Mouse Imprinted Gene Impact and Its Nonimprinted Human Homolog IMPACT: Toward the Structural Basis for Species-Specific Imprinting

Kohji Okamura,1,6 Yuriko Hagiwara-Takeuchi,1,6 Tao Li,2 Thanh H. Vu,2 Momoki Hirai,3 Masahira Hattori,4 Yoshiyuki Sakaki,1,4 Andrew R. Hoffman,2,7 and Takashi Ito1,5,7

1 Human Genome Center, Institute of Medical Science, University of Tokyo, Tokyo 108-8639, Japan; 2 VA Palo Alto Health Care System and Stanford University School of Medicine, Palo Alto, California 94304, USA; 3 Department of Integrated Biosciences, Graduate School of Frontier Sciences, University of Tokyo, Tokyo 113-0033, Japan; 4 Human Genome Research Group, RIKEN Genomic Sciences Center, Wako, Saitama 351-0198, Japan; 5 Division of Genome Biology, Cancer Research Institute, Kanazawa University, Kanazawa 920-0934, Japan

Mouse Impact is a paternally expressed gene encoding an evolutionarily conserved protein of unknown function. Here we identified IMPACT, the human homolog of Impact, on chromosome 18q11.2-12.1, a region syntenic to the mouse Impact locus. IMPACT was expressed biallelically in brain and in various tissues from two informative fetuses and in peripheral blood from an informative adult. To reveal the structural basis for the difference in allelic expression between the two species, we elucidated complete genome sequences for both mouse Impact (~38 kb) and human IMPACT (~30 kb). Sequence comparison revealed that the two genes share a well-conserved exon-intron organization but bear significantly different CpG islands. The mouse island lies in the first intron and contains characteristic tandem repeats. Furthermore, this island serves as a differentially methylated region (DMR) consisting of a hypermethylated maternal allele and an unmethylated paternal allele. Intriguingly, this intronic island is missing from the nonimprinted human IMPACT, whose sole CpG island spans the first exon, lacks any apparent repeats, and escapes methylation on both chromosomes. These results suggest that the intronic DMR plays a role in the imprinting of Impact.

[The sequence data described in this paper have been submitted to the DDBJ/EMBL/GenBank data library under accession nos. AB026264, AF232228, and AF232229.]

6 These authors contributed equally to this work.

7 Corresponding authors.

10:1878-1889 ©2000 by Cold Spring Harbor Laboratory Press  ISSN 1088-9051/00 $5.00
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