This Article Full Text Full Text (PDF) Supplemental Research Data Alert me when this article is cited Alert me if a correction is posted Citation Map Services Email this article to a friend Similar articles in this journal Similar articles in PubMed Alert me to new issues of the journal Download to citation manager Citing Articles Citing Articles via HighWire Citing Articles via Google Scholar Google Scholar Articles by Snijders, A. M. Articles by Albertson, D. G. Search for Related Content PubMed PubMed Citation Articles by Snijders, A. M. Articles by Albertson, D. G. Social Bookmarking                   What's this?

Methods

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

¹ Cancer Research Institute, University of California San Francisco, San Francisco, California 94143, USA ² Department of Laboratory Medicine, University of California San Francisco, San Francisco, California 94143, USA ³ Roswell Park Cancer Institute, Buffalo, New York 14263, USA ⁴ Genome Sequence Centre, British Columbia Cancer Research Centre, Vancouver, British Columbia, Canada V5Z-4E6

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 ( log₂ratio 0.1) distinguish homozygous and heterozygous regions of the genome in interspecific backcross mice, providing an efficient method for genotyping progeny of backcrosses.

⁶ Corresponding author.
E-mail albertson{at}cc.ucsf.edu; fax (415) 476-8218.

Article and publication are at http://www.genome.org/cgi/doi/10.1101/gr.2902505.

[Supplemental material is available online at www.genome.org.]

CiteULike    Connotea    Del.icio.us    Digg    Reddit    Technorati    What's this?

This article has been cited by other articles:

				P. Cahan, L. E. Godfrey, P. S. Eis, T. A. Richmond, R. R. Selzer, M. Brent, H. L. McLeod, T. J. Ley, and T. A. Graubert wuHMM: a robust algorithm to detect DNA copy number variation using long oligonucleotide microarray data Nucleic Acids Res., April 1, 2008; 36(7): e41 - e41. [Abstract] [Full Text] [PDF]

				D. Houzelstein, I. R. Goncalves, A. Orth, F. Bonhomme, and P. Netter Lgals6, a 2-Million-Year-Old Gene in Mice: A Case of Positive Darwinian Selection and Presence/Absence Polymorphism Genetics, March 1, 2008; 178(3): 1533 - 1545. [Abstract] [Full Text] [PDF]

				D. E. Watkins-Chow and W. J. Pavan Genomic copy number and expression variation within the C57BL/6J inbred mouse strain Genome Res., January 1, 2008; 18(1): 60 - 66. [Abstract] [Full Text] [PDF]

				G. Cutler, L. A. Marshall, N. Chin, H. Baribault, and P. D. Kassner Significant gene content variation characterizes the genomes of inbred mouse strains Genome Res., December 1, 2007; 17(12): 1743 - 1754. [Abstract] [Full Text] [PDF]

				Z. Li, T. Yu, M. Morishima, A. Pao, J. LaDuca, J. Conroy, N. Nowak, S.-I. Matsui, I. Shiraishi, and Y. E. Yu Duplication of the entire 22.9 Mb human chromosome 21 syntenic region on mouse chromosome 16 causes cardiovascular and gastrointestinal abnormalities Hum. Mol. Genet., June 1, 2007; 16(11): 1359 - 1366. [Abstract] [Full Text] [PDF]

				F. Zindy, T. Uziel, O. Ayrault, C. Calabrese, M. Valentine, J. E. Rehg, R. J. Gilbertson, C. J. Sherr, and M. F. Roussel Genetic Alterations in Mouse Medulloblastomas and Generation of Tumors De novo from Primary Cerebellar Granule Neuron Precursors Cancer Res., March 15, 2007; 67(6): 2676 - 2684. [Abstract] [Full Text] [PDF]

				B. Lakshmi, I. M. Hall, C. Egan, J. Alexander, A. Leotta, J. Healy, L. Zender, M. S. Spector, W. Xue, S. W. Lowe, et al. Mouse genomic representational oligonucleotide microarray analysis: Detection of copy number variations in normal and tumor specimens PNAS, July 25, 2006; 103(30): 11234 - 11239. [Abstract] [Full Text] [PDF]

				B. Ylstra, P. van den IJssel, B. Carvalho, R. H. Brakenhoff, and G. A. Meijer BAC to the future! or oligonucleotides: a perspective for micro array comparative genomic hybridization (array CGH) Nucleic Acids Res., January 26, 2006; 34(2): 445 - 450. [Abstract] [Full Text] [PDF]

				P. van den IJssel, M. Tijssen, S.-F. Chin, P. Eijk, B. Carvalho, E. Hopmans, H. Holstege, D. K. Bangarusamy, J. Jonkers, G. A. Meijer, et al. Human and mouse oligonucleotide-based array CGH Nucleic Acids Res., December 16, 2005; 33(22): e192 - e192. [Abstract] [Full Text] [PDF]