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Comparative anchor tagged sequences (CATS) for integrative mapping of mammalian genomes

Nature Genetics volume 15, pages 4756 (1997) | Download Citation

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Abstract

Precise comparisons of mammalian gene maps require common anchor loci as landmarks for conserved chromosomal segments. Using a computer script that automates DNA sequence database alignments, we designed 410 evolutionary conserved primer pair sequences which are specific for anchor locus gene amplification from any mammalian species' DNA. Primer pairs were designed to span introns for polymorphism ascertainment, and to include sufficient exonic sequence (25–400 bp) to allow for gene identification. A total of 318 primer pairs were optimized for domestic cats, and 86% of the sequenced feline PCR products showed homology to the gene of primer origin. A screen of 20 mammals from 11 orders revealed that 35–52% of the 318 primers yielded a single PCR product without further optimization suggesting that nearly 75% can be optimized for any eutherian mammal.

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Author information

Affiliations

  1. Laboratory of Genomic Diversity, National Cancer Institute, Frederick Cancer Research and Development Center, Building 560, Room 21–105, Frederick, Maryland 21702–1201, USA.

    • Leslie A. Lyons
    •  & Stephen J. O'Brien
  2. Biological Carcinogenesis and Development Program, SAIC Frederick, National Cancer Institute-Frederick Cancer Research and Development Center, Frederick, Maryland 21702–1201, USA.

    • Thomas F. Laughlin
  3. Mammalian Genetics Laboratory, ABL-Basic Research Program, National Cancer Institute, Frederick Cancer Research and Development Center, Frederick, Maryland 21702–1201, USA.

    • Neal G. Copeland
    •  & Nancy A. Jenkins
  4. Department of Veterinary Pathobiology, Texas A&M University, Veterinary Research Building, Room 309, College Station, Texas 77843, USA.

    • James E. Womack

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Correspondence to Stephen J. O'Brien.

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DOI

https://doi.org/10.1038/ng0197-47

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