Mammalian Genome

, Volume 16, Issue 1, pp 11–19 | Cite as

Origins of mouse inbred strains deduced from whole-genome scanning by polymorphic microsatellite loci

  • Takahiro Sakai
  • Yoshiaki Kikkawa
  • Ikuo Miura
  • Takeshi Inoue
  • Kazuo Moriwaki
  • Toshihiko Shiroishi
  • Yoko Satta
  • Naoyuki Takahata
  • Hiromichi YonekawaEmail author
Original Contributions


Microsatellite loci are uniformly distributed at approximately 100-kbp intervals on all chromosomes except the chromosome Y, and genetic information about more than 9000 loci and high-throughput polymorphism analysis are now available. Taking advantage of these properties, we carried out whole-genome scanning using eight common inbred strains (CIS) of laboratory mice, including A/J, C57BL/6J, CBA/J, DBA/2J, SM/J, SWR/J, NC/Nga, and 129/SvJ, and eight wild-derived inbred strains (WIS), BGL2/Ms, CAST/Ei, JF1/Ms, MSM/Ms, NJL/Ms, PGN2/Ms, SK/CamEi, and SWN/Ms. We selected and located 1226 informative loci at 1.2-cM average intervals on all of the chromosomes of the 16 strains and compared the polymorphisms of the eight CIS with those from the eight WIS as subspecies representatives. More than 50% of the loci can be identified as WIS (therefore, subspecies-specific) alleles in the CIS genomes. We also discovered that the CIS chromosomes form a mosaic structure with an average ratio of domesticus to non-domesticus alleles of 3:1. Furthermore, the domesticus alleles were present much more frequently on the CIS chromosome X than on their autosomes, suggesting that successive backcrossing of non-domesticus stocks to domesticus stocks had been undergone at the beginning of CIS history


Microsatellite Locus Inbred Strain Mosaic Structure Microsatellite Polymorphism Polymorphism Rate 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.



We thank Ms. Yumi Nishiyama, Yayoi Wakita, and Satomi Yamada of the Tokyo Metropolitan Institute of Medical Science, and Ms. Kyoko Takada and Mr. Akihiko Mita of the National Institute of Genetics for technical assistance. This work was partially supported by the Special Coordination Funds for Promoting Science and Technology of the Science and Technology Agency, Japan. This study is contribution No. 2500 from the National Institute of Genetics, Japan.


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Copyright information

© Springer Science+Business Media, Inc. 2005

Authors and Affiliations

  • Takahiro Sakai
    • 1
    • 2
  • Yoshiaki Kikkawa
    • 1
  • Ikuo Miura
    • 1
    • 6
  • Takeshi Inoue
    • 2
  • Kazuo Moriwaki
    • 3
  • Toshihiko Shiroishi
    • 4
  • Yoko Satta
    • 5
  • Naoyuki Takahata
    • 5
  • Hiromichi Yonekawa
    • 1
    Email author
  1. 1.Department of Laboratory Animal ScienceThe Tokyo Metropolitan Institute of Medical Science (Rinshoken)Japan
  2. 2.Department of Zootechnical ScienceTokyo University of AgricultureJapan
  3. 3.Bio Resource CentreRIKEN Tsukuba InstituteJapan
  4. 4.Mammalian Genetics LaboratoryNational Institute of GeneticsJapan
  5. 5.The Graduate University for Advanced Studies (Sokendai)Japan
  6. 6.Genomic Sciences CenterRIKEN Yokohama InstituteJapan

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