Genome Report: Whole genome sequence of two wild-derived Mus musculus domesticus inbred strains, LEWES/EiJ and ZALENDE/EiJ, with different diploid numbers.

Andrew P Morgan* ,1, John P Didion* ,1, Anthony G Doran2, James M Holt3,
Leonard McMillan3, Thomas M Keane2, Fernando Pardo-Manuel de Villena 1,4

  1. Department of Genetics, Lineberger Comprehensive Cancer Center,
    University of North Carolina, Chapel Hill, NC, USA
  2. Wellcome Trust Sanger Institute,
    Hinxton, Cambridge CB10 1HH, UK
  3. Department of Computer Science,
    University of North Carolina, Chapel Hill, NC, USA
  4. Corresponding author,
*  These authors contributed equally to this work


Wild derived mouse inbred strains are becoming increasing popular for complex traits analysis, evolutionary studies, and systems genetics. Here we report the whole-genome sequencing of two wild derived mouse inbred strains, LEWES/EiJ and ZALENDE/EiJ, of Mus musculus domesticus origin. These two inbred strains were selected based on their geographic origin, karyotype, and use in ongoing research. We generated 14X and 18X coverage sequence and discovered over 1.1 million novel variants, most of which are private to each of these strains. This report expands the number of wild-derived inbred genomes in Mus genus from six to eight. The sequence variation can be accessed via a query tool; variant calls (VCF format) and alignments (BAM format) are available for download from a dedicated ftp site. Finally, the sequencing data has also been stored in a lossless, compressed, indexed format using the multi-string Burrows-Wheeler transform. All data can be used without restriction.