Mapping segmental and sequence variations among laboratory mice using BAC array CGH.
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 (|log(2)ratio| >/= 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 (Delta log(2)ratio approximately 0.1) distinguish homozygous and heterozygous regions of the genome in interspecific backcross mice, providing an efficient method for genotyping progeny of backcrosses.
Snijders
Antoine M
AM
Cancer Research Institute, University of California San Francisco, San Francisco, California 94143, USA.
Nowak
Norma J
NJ
Huey
Bing
B
Fridlyand
Jane
J
Law
Sindy
S
Conroy
Jeffrey
J
Tokuyasu
Taku
T
Demir
Kubilay
K
Chiu
Readman
R
Mao
Jian-Hua
JH
Jain
Ajay N
AN
Jones
Steven J M
SJ
Balmain
Allan
A
Pinkel
Daniel
D
Albertson
Donna G
DG
D000818:Animals; D002874:Chromosome Mapping / Q000379:methods*; D022202:Chromosomes, Artificial, Bacterial / Q000235:genetics*; D003433:Crosses, Genetic; D018628:Gene Dosage; D005819:Genetic Markers / Q000235:genetics; D014644:Genetic Variation / Q000235:genetics*; D016678:Genome; D051379:Mice; D008807:Mice, Inbred BALB C; D008809:Mice, Inbred C3H; D008810:Mice, Inbred C57BL; D008811:Mice, Inbred DBA; D008815:Mice, Inbred Strains; D009693:Nucleic Acid Hybridization / Q000379:methods*; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods*; D013045:Species Specificity
D005819:Genetic Markers