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DNA Research Advance Access originally published online on June 16, 2009
DNA Research 2009 16(4):213-225; doi:10.1093/dnares/dsp010
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© The Author 2009. Kazusa DNA Research Institute
The online version of this article has been published under an open access model. Users are entitled to use, reproduce, disseminate, or display the open access version of this article for non-commercial purposes provided that: the original authorship is properly and fully attributed; the Journal and Oxford University Press are attributed as the original place of publication with the correct citation details given; if an article is subsequently reproduced or disseminated not in its entirety but only in part or as a derivative work this must be clearly indicated. For commercial re-use, please contact journals.permissions@oxfordjournals.org

High-density Integrated Linkage Map Based on SSR Markers in Soybean

Tae-Young Hwang1,2, Takashi Sayama1, Masakazu Takahashi3, Yoshitake Takada4 {dagger}, Yumi Nakamoto1, Hideyuki Funatsuki1, Hiroshi Hisano5, Shigemi Sasamoto5, Shusei Sato5, Satoshi Tabata5, Izumi Kono6, Masako Hoshi7, Masayoshi Hanawa7, Chizuru Yano7, Zhengjun Xia8, Kyuya Harada8, Keisuke Kitamura2 and Masao Ishimoto1,*

1 National Agricultural Research Center for Hokkaido Region, 1 Hitsujigaoka, Toyohira, Sapporo, Hokkaido 062-8555, Japan
2 Graduate School of Agriculture, Hokkaido University, Kita 9 Nishi 9, Kita, Sapporo, Hokkaido 060-8589, Japan
3 National Agricultural Research Center for Kyushu Okinawa Region, 2421 Suya, Koshi, Kumamoto 861-1192, Japan
4 National Agricultural Research Center for Tohoku Region, 297 Uenodai, Kariwano, Daisen, Akita 019-2112, Japan
5 Kazusa DNA Research Institute, 2-6-7 Kazusa-kamatari, Kisarazu, Chiba 292-0818, Japan
6 Institute of Society for Techno-Innovation of Agriculture, Forestry, and Fisheries, 446-1 Kamiyokoba, Tsukuba, Ibaraki 305-0854, Japan
7 Faculty of Horticulture, Chiba University, 648 Matsudo, Chiba 271-8510, Japan
8 National Institute of Agrobiological Sciences, 2-1-2 Kannondai, Tsukuba, Ibaraki 305-8602, Japan

Received 2 April 2009 ; accepted 25 May 2009.

A well-saturated molecular linkage map is a prerequisite for modern plant breeding. Several genetic maps have been developed for soybean with various types of molecular markers. Simple sequence repeats (SSRs) are single-locus markers with high allelic variation and are widely applicable to different genotypes. We have now mapped 1810 SSR or sequence-tagged site markers in one or more of three recombinant inbred populations of soybean (the US cultivar ‘Jack’ x the Japanese cultivar ‘Fukuyutaka’, the Chinese cultivar ‘Peking’ x the Japanese cultivar ‘Akita’, and the Japanese cultivar ‘Misuzudaizu’ x the Chinese breeding line ‘Moshidou Gong 503’) and have aligned these markers with the 20 consensus linkage groups (LGs). The total length of the integrated linkage map was 2442.9 cM, and the average number of molecular markers was 90.5 (range of 70–114) for the 20 LGs. We examined allelic diversity for 1238 of the SSR markers among 23 soybean cultivars or lines and a wild accession. The number of alleles per locus ranged from 2 to 7, with an average of 2.8. Our high-density linkage map should facilitate ongoing and future genomic research such as analysis of quantitative trait loci and positional cloning in addition to marker-assisted selection in soybean breeding.

Key words: EST-derived SSR marker; integrated linkage map; microsatellite marker; polymorphism information content

* To whom correspondence should be addressed. Tel. +81-11-857-9312. Fax. +81-11-859-2178. E-mail: ishimoto{at}affrc.go.jp

{dagger} Present address: National Agricultural Research Center for Western Region, 1-3-1 Senyuu, Zentsuuji, Kagawa 765-8508, Japan


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