Noti linking clones as a tool for joining physical and genetic maps of the human genome

Rando L. Allikmets, Vladimir I. Kashuba, Bertil Pettersson, Rinat Gizatullin, Tatyana Lebedeva, Irina D. Kholodnyuk, Vladimir M. Bannikov, Nikolai Petrov, Vladimir M. Zakharyev, Gösta Winberg, William Modi, Michael Dean, Mathias Uhlén, Lev L. Kisselev, George Klein, Eugene R. Zabarovsky

Research output: Contribution to journalArticlepeer-review

45 Citations (Scopus)

Abstract

To study the connection among NotI linking clones, CpG islands, and genes, the sequence surrounding 143 NotI sites was determined. These Not I linking clones were isolated from human chromosome 3-specific libraries and contain an average C + G content of 65%. These clones represent sequence-tagged sites that can be positioned onto chromosome maps and used for generating a long-range NotI map of the human genome. A majority (about 90%) of these clones contain transcribed sequences, as detected by Northern blot hybridization, providing an efficient link between physical and functional (genetic) maps. The GenBank nucleotide database was searched with sequences from these NotI linking clones. For many clones, homology was found to human and other vertebrate genes. About 20 clones contained various repeats in their sequences and may represent microsatellite loci. Most of these Not I linking clones therefore represent evolutionarily conserved DNA fragments and also can be used for comparative genome mapping of other mammalian species. In addition, approximately 20% of all sequenced human CpG island-containing genes and more than 12% of all well-characterized human genes were found to possess NotI restriction sites. This is at least 2-5 times more than has been previously estimated and suggests that NotI sites have a much stronger association with genes.

Original languageEnglish
Pages (from-to)303-309
Number of pages7
JournalGenomics
Volume19
Issue number2
DOIs
Publication statusPublished - 15 Jan 1994
Externally publishedYes

Field of Science

  • 1.6 Biological sciences
  • 3.4 Medical biotechnology

Publication Type

  • 1.1. Scientific article indexed in Web of Science and/or Scopus database

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