Mapping segmental and sequence variations among laboratory mice using BAC array CGH

Antoine M. Snijders, Norma J. Nowak, Bing Huey, Jane Fridlyand, Sindy Law, Jeffrey Conroy, Taku Tokuyasu, Kubilay Demir, Readman Chiu, Jian Hua Mao, Ajay N. Jain, Steven J.M. Jones, Allan Balmain, Daniel Pinkel, Donna G. Albertson

Research output: Contribution to journalArticlepeer-review


We used arrays of 2069 BACs (1303 nonredundant autosomal clones) to map sequence variation among Mus spretus (SPRET/Ei and SPRET/Glasgow) and Mus musculus (C3H/HeJ, BALB/cJ, 129/J, DBA/2J, NIH, FVB/N, and C57BL/6) strains. We identified 80 clones representing 74 autosomal loci of copy number variation ( log2ratio ≥ 0.4). These variant loci distinguish laboratory strains. By FISH mapping, we determined that 63 BACs mapped to a single site on C57BL/6J chromosomes, while 17 clones mapped to multiple chromosomes (n = 16) or multiple sites on one chromosome (n = 1). We also show that small ratio changes (Δ log2ratio ∼0.1) distinguish homozygous and heterozygous regions of the genome in interspecific backcross mice, providing an efficient method for genotyping progeny of backcrosses.

Original languageEnglish (US)
Pages (from-to)302-311
Number of pages10
JournalGenome Research
Issue number2
StatePublished - 2005

ASJC Scopus subject areas

  • Genetics
  • Genetics(clinical)


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