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Identification of microsatellite markers in the rye genome

Abstract

The rye genomic library, which consists of DNA fragments in the range of 0.5–1.1 kb, was screened for the presence of tri-and tetranucleotide and compound microsatellites. Of the 1,600,000 clones analysed, 102 clones were positive and 41 were suitable for SSR primer pair design. Twenty-six primer pairs amplified specific products, and six of them were capable of detecting polymorphism among 30 rye accessions of different genetic backgrounds. Using a set of Chinese Spring-Imperial wheat-rye addition lines, it was possible to locate 3 newly identified microsatellites on chromosomes 3R, 4R and 7R.

Abbreviations

SSR:

simple sequence repeat

ISSR:

inter-simple sequence repeat

SAMPL:

selective amplification of microsatellite polymorphic loci

EST:

expressed sequence tags

IS:

insert size [bp]

GmS:

genome size [bp]

GS:

genetic similarity

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Correspondence to Monika Rakoczy-Trojanowska.

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Bolibok, H., Rakoczy-Trojanowska, M., Wyrzykowska, M. et al. Identification of microsatellite markers in the rye genome. Cell. Mol. Biol. Lett. 11, 291–298 (2006). https://doi.org/10.2478/s11658-006-0023-5

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Key words

  • Rye
  • Genomic library
  • SSR
  • Microsatellite
  • Wheat-rye addition lines