High-density integrated linkage map based on SSR markers in soybean

Tae Young Hwang; Takashi Sayama; Masakazu Takahashi; Yoshitake Takada; Yumi Nakamoto; Hideyuki Funatsuki; Hiroshi Hisano; Shigemi Sasamoto; Shusei Sato; Satoshi Tabata; Izumi Kono; Masako Hoshi; Masayoshi Hanawa; Chizuru Yano; Zhengjun Xia; Kyuya Harada; Keisuke Kitamura; Masao Ishimoto

doi:10.1093/dnares/dsp010

High-density integrated linkage map based on SSR markers in soybean

Tae Young Hwang, Takashi Sayama, Masakazu Takahashi, Yoshitake Takada, Yumi Nakamoto, Hideyuki Funatsuki, Hiroshi Hisano, Shigemi Sasamoto, Shusei Sato, Satoshi Tabata, Izumi Kono, Masako Hoshi, Masayoshi Hanawa, Chizuru Yano, Zhengjun Xia, Kyuya Harada, Keisuke Kitamura, Masao Ishimoto

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

126 Citations (Scopus)

Abstract

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' × the Japanese cultivar 'Fukuyutaka', the Chinese cultivar 'Peking' × the Japanese cultivar 'Akita', and the Japanese cultivar 'Misuzudaizu' × 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.

Original language	English
Pages (from-to)	213-225
Number of pages	13
Journal	DNA Research
Volume	16
Issue number	4
DOIs	https://doi.org/10.1093/dnares/dsp010
Publication status	Published - Aug 2009
Externally published	Yes

Keywords

EST-derived SSR marker
Integrated linkage map
Microsatellite marker
Polymorphism information content

ASJC Scopus subject areas

Molecular Biology
Genetics

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10.1093/dnares/dsp010

Cite this

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title = "High-density integrated linkage map based on SSR markers in soybean",

abstract = "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' × the Japanese cultivar 'Fukuyutaka', the Chinese cultivar 'Peking' × the Japanese cultivar 'Akita', and the Japanese cultivar 'Misuzudaizu' × 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.",

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author = "Hwang, {Tae Young} and Takashi Sayama and Masakazu Takahashi and Yoshitake Takada and Yumi Nakamoto and Hideyuki Funatsuki and Hiroshi Hisano and Shigemi Sasamoto and Shusei Sato and Satoshi Tabata and Izumi Kono and Masako Hoshi and Masayoshi Hanawa and Chizuru Yano and Zhengjun Xia and Kyuya Harada and Keisuke Kitamura and Masao Ishimoto",

year = "2009",

month = aug,

doi = "10.1093/dnares/dsp010",

language = "English",

volume = "16",

pages = "213--225",

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AU - Hwang, Tae Young

AU - Sayama, Takashi

AU - Takahashi, Masakazu

AU - Takada, Yoshitake

AU - Nakamoto, Yumi

AU - Funatsuki, Hideyuki

AU - Hisano, Hiroshi

AU - Sasamoto, Shigemi

AU - Sato, Shusei

AU - Tabata, Satoshi

AU - Kono, Izumi

AU - Hoshi, Masako

AU - Hanawa, Masayoshi

AU - Yano, Chizuru

AU - Xia, Zhengjun

AU - Harada, Kyuya

AU - Kitamura, Keisuke

AU - Ishimoto, Masao

PY - 2009/8

Y1 - 2009/8

N2 - 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' × the Japanese cultivar 'Fukuyutaka', the Chinese cultivar 'Peking' × the Japanese cultivar 'Akita', and the Japanese cultivar 'Misuzudaizu' × 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.

AB - 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' × the Japanese cultivar 'Fukuyutaka', the Chinese cultivar 'Peking' × the Japanese cultivar 'Akita', and the Japanese cultivar 'Misuzudaizu' × 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.

KW - EST-derived SSR marker

KW - Integrated linkage map

KW - Microsatellite marker

KW - Polymorphism information content

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JF - DNA Research

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ER -

High-density integrated linkage map based on SSR markers in soybean

Abstract

Keywords

ASJC Scopus subject areas

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