Development of an in silico coding gene SNP map in pigs

  1. X. P. Li1,†,
  2. Z. L. Hu2,†,
  3. S. J. Moon3,†,
  4. K. T. Do1,
  5. Y. K. Ha1,
  6. H. Kim3,
  7. M. J. Byun4,
  8. B. H. Choi4,
  9. M. F. Rothschild2,
  10. J. M. Reecy2,
  11. K. S. Kim1

Article first published online: 19 MAY 2008

DOI: 10.1111/j.1365-2052.2008.01727.x

Issue

Animal Genetics

Animal Genetics

Volume 39, Issue 4, pages 446–450, August 2008

Additional Information

How to Cite

Li, X. P., Hu, Z. L., Moon, S. J., Do, K. T., Ha, Y. K., Kim, H., Byun, M. J., Choi, B. H., Rothschild, M. F., Reecy, J. M. and Kim, K. S. (2008), Development of an in silico coding gene SNP map in pigs. Animal Genetics, 39: 446–450. doi: 10.1111/j.1365-2052.2008.01727.x

Author Information

  1. 1

    Department of Animal Science, Chungbuk National University, Cheongju, Korea

  2. 2

    Department of Animal Science, Center for Integrated Animal Genomics, Iowa State University, Ames, IA 50011, USA

  3. 3

    Department of Food and Animal Biotechnology, Seoul National University, Seoul, Korea

  4. 4

    Animal Genomics & Bioinformatics Division, National Institute of Animal Science, Suwon, Korea

  1. †

    These authors contributed equally to this work.

*K. S. Kim, Department of Animal Science, Chungbuk National University, Cheongju, Chungbuk 361-763, South Korea. E-mail: kwanskim@chungbuk.ac.kr

Publication History

  1. Issue published online: 11 JUL 2008
  2. Article first published online: 19 MAY 2008
  3. Accepted for publication 7 February 2008

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Keywords:

  • genetic marker;
  • in silico SNP map;
  • linkage map;
  • pig;
  • QTL map

Summary

A total of 5450 sequences obtained from the NCBI pig SNP database were consolidated into 465 unique sequences (189 singleton sequences and 276 contigs). These 465 sequences contained 1787 putative SNPs and had strong sequence homology to 433 human protein-coding genes based on blast analyses. These genes were assigned to the pig QTL maps (http://www.animalgenome.org/QTLdb/pig.html) via the human and pig comparative maps established by a pig radiation hybrid (RH) map. The SNP information characterized from this study provides a useful functional gene variation resource to facilitate QTL data mining in the pig genome.

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