Scanning RNA-Seq and RAD-Seq approach to develop SNP markers closely linked to <i>MALE STERILITY 1</i> (<i>MS1</i>) in <i>Cryptomeria japonica</i> D. Don

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  • Ueno Saneyoshi
    Department of Forest Molecular Genetics and Biotechnology, Forestry and Forest Products Research Institute, Forest Research and Management Organization
  • Uchiyama Kentaro
    Department of Forest Molecular Genetics and Biotechnology, Forestry and Forest Products Research Institute, Forest Research and Management Organization
  • Moriguchi Yoshinari
    Graduate School of Science and Technology, Niigata University
  • Ujino-Ihara Tokuko
    Department of Forest Molecular Genetics and Biotechnology, Forestry and Forest Products Research Institute, Forest Research and Management Organization
  • Matsumoto Asako
    Department of Forest Molecular Genetics and Biotechnology, Forestry and Forest Products Research Institute, Forest Research and Management Organization
  • Wei Fu-Jin
    Department of Forest Molecular Genetics and Biotechnology, Forestry and Forest Products Research Institute, Forest Research and Management Organization
  • Saito Maki
    Toyama Prefectural Agricultural Forestry and Fisheries Research Center, Forestry Research Institute
  • Higuchi Yumi
    Niigata Prefectural Forest Research Institute
  • Futamura Norihiro
    Department of Forest Molecular Genetics and Biotechnology, Forestry and Forest Products Research Institute, Forest Research and Management Organization
  • Kanamori Hiroyuki
    National Institute of Agrobiological Sciences
  • Katayose Yuichi
    National Institute of Agrobiological Sciences
  • Tsumura Yoshihiko
    Department of Forest Molecular Genetics and Biotechnology, Forestry and Forest Products Research Institute, Forest Research and Management Organization Faculty of Life and Environmental Sciences, University of Tsukuba

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  • Scanning RNA-Seq and RAD-Seq approach to develop SNP markers closely linked to MALE STERILITY 1 (MS1) in Cryptomeria japonica D. Don

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Abstract

<p>Cryptomeria japonica is a major forestry tree species in Japan. Male sterility of the species is caused by a recessive gene, which shows dysfunction of pollen development and results in no dispersed pollen. Because the pollen of C. japonica induces pollinosis, breeding of pollen-free C. japonica is desired. In this study, single nucleotide polymorphism (SNP) markers located at 1.78 and 0.58 cM to a male sterility locus (MS1) were identified from an analysis of RNA-Seq and RAD-Seq, respectively. SNPs closely linked to MS1 were first scanned by a method similar to MutMap, where a type of index was calculated to measure the strength of the linkage between a marker sequence and MS1. Linkage analysis of selected SNP markers confirmed a higher efficiency of the current method to construct a partial map around MS1. Allele-specific PCR primer pair for the most closely linked SNP with MS1 was developed as a codominant marker, and visualization of the PCR products on an agarose gel enabled rapid screening of male sterile C. japonica. The allele-specific primers developed in this study would be useful for establishing the selection of male sterile C. japonica.</p>

Journal

  • Breeding Science

    Breeding Science 69 (1), 19-29, 2019

    Japanese Society of Breeding

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