, Volume 173, Issue 3, pp 321–328 | Cite as

Development of microsatellite markers in cultivated and wild species of sections Cepa and Phyllodolon in Allium

  • Naoyuki Araki
  • Shin-Ichi Masuzaki
  • Hikaru Tsukazaki
  • Shigenori Yaguchi
  • Tadayuki Wako
  • Yosuke Tashiro
  • Naoki Yamauchi
  • Masayoshi Shigyo


The potential of microsatellite markers for use in genetic studies has been evaluated in Allium cultivated species (Allium cepa, A. fistulosum) and its allied species (A. altaicum, A. galanthum, A. roylei, A. vavilovii). A total of 77 polymerase chain reaction (PCR) primer pairs were employed, 76 of which amplified a single product or several products in either of the species. The 29 AMS primer pairs derived from A. cepa and 46 microsatellites primer pairs from A. fistulosum revealed a lot of polymorphic amplicons between seven Allium species. Some of the microsatellite markers were effective not only for identifying an intraspecific F1 hybrid between shallot and bulb onion but also for applying to segregation analyses in its F2 population. All of the microsatellite markers can be used for interspecific taxonomic analyses among two cultivated and four wild species of sections Cepa and Phyllodolon in Allium. Generally, our data support the results obtained from recently performed analyses using molecular and morphological markers. However, the phylogeny of A. roylei, a threatened species with several favorable genes, was still ambiguous due to its different positions in each dendrogram generated from the two primer sets originated from A. cepa and A. fistulosum.


Allium Microsatellite markers DNA polymorphism 



The authors wish to thank Misses N. Yamane, N. Matsubara, Y. Kousabara and M. Anraku (former students in Yamaguchi University) together with Messrs Y. Kosaka and S. Hasegawa (present students in YU) for their technical contributions to this study. The authors are grateful to Dr. C. Kik and Mr. W. Wietsma in PRI for the kind gift of wild species. The Polymorphic examinations were supported in part by a funding for ‘Research project for utilizing advanced technologies in agriculture, forestry and fisheries’ from the Ministry of Agriculture, Forestry and Fisheries of Japan, and segregation analyses by a Grant-in-Aid for Scientific Research (C) (No. 15580025) from the Ministry of Education, Science, Sports, and Culture of Japan.

Supplementary material

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Supplementary material 1 (DOC 275 kb)


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Copyright information

© Springer Science+Business Media B.V. 2009

Authors and Affiliations

  • Naoyuki Araki
    • 1
    • 2
  • Shin-Ichi Masuzaki
    • 2
  • Hikaru Tsukazaki
    • 3
  • Shigenori Yaguchi
    • 4
  • Tadayuki Wako
    • 3
  • Yosuke Tashiro
    • 5
  • Naoki Yamauchi
    • 6
  • Masayoshi Shigyo
    • 6
  1. 1.The United Graduate School of Agricultural SciencesTottori UniversityTottoriJapan
  2. 2.Forensic Science LaboratoryYamaguchi Prefectural Police HeadquartersYamaguchiJapan
  3. 3.National Institute of Vegetable and Tea Science (NIVTS)National Agriculture and Food Research Organization (NARO)TsuJapan
  4. 4.Toricon Co., Ltd.Ouchi-gunJapan
  5. 5.Department of Applied Biological Sciences, Faculty of AgricultureSaga UniversitySagaJapan
  6. 6.Department of Biological and Environmental Science, Faculty of AgricultureYamaguchi UniversityYamaguchiJapan

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