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

doi:10.1101/gr.2902505

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

Oral and Maxillofacial Surgery

Research output: Contribution to journal › Article › peer-review

Abstract

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 language	English (US)
Pages (from-to)	302-311
Number of pages	10
Journal	Genome Research
Volume	15
Issue number	2
DOIs	https://doi.org/10.1101/gr.2902505
State	Published - 2005

ASJC Scopus subject areas

Genetics
Genetics(clinical)

Access to Document

10.1101/gr.2902505

Cite this

@article{0d33cc10b486416f9b5d63420a0dd326,

title = "Mapping segmental and sequence variations among laboratory mice using BAC array CGH",

abstract = "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.",

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

year = "2005",

doi = "10.1101/gr.2902505",

language = "English (US)",

volume = "15",

pages = "302--311",

journal = "Genome Research",

issn = "1088-9051",

publisher = "Cold Spring Harbor Laboratory Press",

number = "2",

}

TY - JOUR

T1 - Mapping segmental and sequence variations among laboratory mice using BAC array CGH

AU - Snijders, Antoine M.

AU - Nowak, Norma J.

AU - Huey, Bing

AU - Fridlyand, Jane

AU - Law, Sindy

AU - Conroy, Jeffrey

AU - Tokuyasu, Taku

AU - Demir, Kubilay

AU - Chiu, Readman

AU - Mao, Jian Hua

AU - Jain, Ajay N.

AU - Jones, Steven J.M.

AU - Balmain, Allan

AU - Pinkel, Daniel

AU - Albertson, Donna G.

PY - 2005

Y1 - 2005

N2 - 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.

AB - 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.

UR - http://www.scopus.com/inward/record.url?scp=20044371978&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=20044371978&partnerID=8YFLogxK

U2 - 10.1101/gr.2902505

DO - 10.1101/gr.2902505

M3 - Article

C2 - 15687294

AN - SCOPUS:20044371978

SN - 1088-9051

VL - 15

SP - 302

EP - 311

JO - Genome Research

JF - Genome Research

IS - 2

ER -

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

Abstract

ASJC Scopus subject areas

Access to Document

Other files and links

Fingerprint

Cite this