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Originally published as Genetics Published Articles Ahead of Print on March 17, 2006.
Genetics, Vol. 173, 151-161, May 2006, Copyright © 2006
doi:10.1534/genetics.105.053801
Construction of a Single Nucleotide Polymorphism Linkage Map for the Silkworm, Bombyx mori, Based on Bacterial Artificial Chromosome End Sequences
Kimiko Yamamoto*,1,
Junko Narukawa*,
Keiko Kadono-Okuda*,
Junko Nohata*,
Motoe Sasanuma*,
Yoshitaka Suetsugu*,
Yutaka Banno
,
Hiroshi Fujii,
Marian R. Goldsmith
and
Kazuei Mita*
* Genome Research Department, National Institute of Agrobiological Sciences, Tsukuba, Ibaraki 305-8634, Japan, Laboratory of Insect Genetic Resources, Faculty of Agriculture, Kyushu University, Fukuoka 812-8581, Japan and Biological Sciences Department, University of Rhode Island, Kingston, Rhode Island 02881-0816
1 Corresponding author: 1-2 Owashi, Tsukuba, Ibaraki 305-8634, Japan.
E-mail: kiya{at}nias.affrc.go.jp
We have developed a linkage map for the silkworm Bombyx mori based on single nucleotide polymorphisms (SNPs) between strains p50T and C108T initially found on regions corresponding to the end sequences of bacterial artificial chromosome (BAC) clones. Using 190 segregants from a backcross of a p50T female x an F1 (p50T x C108T) male, we analyzed segregation patterns of 534 SNPs between p50T and C108T, detected among 3840 PCR amplicons, each associated with a p50T BAC end sequence. This enabled us to construct a linkage map composed of 534 SNP markers spanning 1305 cM in total length distributed over the expected 28 linkage groups. Of the 534 BACs whose ends harbored the SNPs used to construct the linkage map, 89 were associated with 107 different ESTs. Since each of the SNP markers is directly linked to a specific genomic BAC clone and to whole-genome sequence data, and some of them are also linked to EST data, the SNP linkage map will be a powerful tool for investigating silkworm genome properties, mutation mapping, and map-based cloning of genes of industrial and agricultural interest.
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