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Establishment of a microsatellite panel covering the sugi (Cryptomeria japonica) genome, and its application for localization of a male-sterile gene (ms-2)

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Abstract

A microsatellite (simple sequence repeat; SSR) panel for Cryptomeria japonica was established, using both newly developed and previously reported markers, to construct a frame of linkage map and facilitate localization of important genes in this species. In this study, 32 new expressed sequence tag SSRs (EST-SSRs) and 12 new genomic SSRs (gSSRs) were developed. Their average polymorphism information content (PIC) values were 0.549 and 0.776, respectively. The markers were mapped onto a high-density linkage map. The SSR panel that was established to cover the genome consisted of 46 gSSRs and 47 EST-SSRs. The number of SSR markers in each linkage group, the average map distance between loci within a linkage group, and the average PIC values in each linkage group ranged from 6 to 13, 6.77 to 19.88 and 0.475 to 0.712, respectively. The utility of the SSR panel was tested by using it to localize a male-sterile gene, ms-2. The ms-2 locus was successfully localized on the linkage group 5 using 33 SSR markers (three SSRs per linkage group) which were selected from the SSR panel based on the existence of polymorphisms and the absence of null alleles in the mapping population for ms-2. A partial linkage map surrounding the ms-2 locus was then constructed using a further 57 single nucleotide polymorphisms and three SSRs, to facilitate future development of markers tightly linked to the ms-2 locus for use in marker-assisted selection. The SSR panel covering the C. japonica genome will allow researchers to localize important genes efficiently.

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Acknowledgments

The authors would like to thank M. Koshiba and Y. Komatsu for assistance with laboratory work. This work was partly supported by a Grant-in-Aid (Development of Technologies for Control of Pollen Production by Genetic Engineering) from the Forest Agency of Japan and by the Program for Promotion of Basic and Applied Researches for Innovations in Bio-oriented Industry and JSPS KAKENHI Grant Number 25850116.

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Authors and Affiliations

  1. Graduate School of Science and Technology, Niigata University, 8050, Igarashi 2-Nocho, Nishi-ku, Niigata, 950-2181, Japan

    Yoshinari Moriguchi

  2. Department of Forest Genetics, Forestry and Forest Products Research Institute, Tsukuba, Ibaraki, 305-8687, Japan

    Saneyoshi Ueno & Yoshihiko Tsumura

  3. Niigata Prefectural Forest Research, Asahi-mura, Iwafune-gun, Niigata, 958-0264, Japan

    Yuumi Higuchi, Daisuke Miyajima & Shinji Itoo

  4. Department of Molecular and Cell Biology, Forestry and Forest Products Research Institute, Tsukuba, Ibaraki, 305-8687, Japan

    Norihiro Futamura & Kenji Shinohara

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  1. Yoshinari Moriguchi
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  2. Saneyoshi Ueno
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  3. Yuumi Higuchi
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  4. Daisuke Miyajima
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  8. Yoshihiko Tsumura
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Correspondence to Yoshihiko Tsumura.

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Moriguchi, Y., Ueno, S., Higuchi, Y. et al. Establishment of a microsatellite panel covering the sugi (Cryptomeria japonica) genome, and its application for localization of a male-sterile gene (ms-2). Mol Breeding 33, 315–325 (2014). https://doi.org/10.1007/s11032-013-9951-8

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