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

Journal Article · Sat Jan 15 04:00:00 EST 1994 · Genomics; (United States)

DOI:https://doi.org/10.1006/geno.1994.1062· OSTI ID:7160280

Allikmets, R L; Dean, M; Modi, W ^[1]; Kholodnyuk, I D; Winberg, G; Klein, G ^[2]; Pettersson, B; Uhlen, M ^[3]; Gizatullin, R; Bannikov, V M ^[4]

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1. DynCorp National Cancer Institute, Frederick, MD (United States)
2. Karolinska Institutet, Stockholm (Sweden)
3. Royal Institute of Technology, Stockholm (Sweden)
4. and others

To study the connection among NotI linking clones, CpG islands, and genes, the sequence surrounding 143 NotI sites was determined. These NotI 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 NotI 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. 41 refs., 3 figs., 2 tabs.

• OSTI ID: 7160280
• Journal Information: Genomics; (United States), Journal Name: Genomics; (United States) Vol. 19:2; ISSN 0888-7543; ISSN GNMCEP
• Country of Publication: United States
• Language: English

Related Subjects

550400* -- Genetics
59 BASIC BIOLOGICAL SCIENCES
CHROMOSOMES
CLONING
DETECTION
DNA HYBRIDIZATION
DNA SEQUENCING
DNA-CLONING
GENES
GENETIC MAPPING
HUMAN CHROMOSOMES
HYBRIDIZATION
MAPPING
STRUCTURAL CHEMICAL ANALYSIS