Mycobiology.  2018 Dec;46(4):421-428. 10.1080/12298093.2018.1538072.

Development of Polymorphic Simple Sequence Repeat Markers using High-Throughput Sequencing in Button Mushroom (Agaricus bisporus)

  • 1Department of Forest Science, Chungbuk National University, Cheongju, Republic of Korea.
  • 2National Agrobiodiversity Center, National Institute of Agricultural Science, RDA, Jeonju, Republic of Korea.
  • 3Department of Industrial Plant Science and Technology, Chungbuk National University, Cheongju, Republic of Korea.
  • 4Mushroom Science Division, National Institute of Horticultural and Herbal Science, RDA, Eumseong, Republic of Korea.
  • 5Department of Biology, Chungbuk National University, Cheongju, Republic of Korea.
  • 6Department of Crop Science, Chungbuk National University, Cheongju, Republic of Korea.


The white button mushroom (Agaricus bisporus) is one of the most widely cultivated species of edible mushroom. Despite its economic importance, relatively little is known about the genetic diversity of this species. Illumina paired-end sequencing produced 43,871,558 clean reads and 69,174 contigs were generated from five offspring. These contigs were subsequently assembled into 57,594 unigenes. The unigenes were annotated with reference genome in which 6,559 unigenes were associated with clusters, indicating orthologous genes. Gene ontology classification assigned many unigenes. Based on genome data of the five offspring, 44 polymorphic simple sequence repeat (SSR) markers were developed. The major allele frequency ranged from 0.42 to 0.92. The number of genotypes and the number of alleles ranged from 1 to 4, and from 2 to 4, respectively. The observed heterozygosity and the expected heterozygosity ranged from 0.00 to 1.00, and from 0.15 to 0.64, respectively. The polymorphic information content value ranged from 0.14 to 0.57. The genetic distances and UPGMA clustering discriminated offspring strains. The SSR markers developed in this study can be applied in polymorphism analyses of button mushroom and for cultivar discrimination.


Agaricus bisporus; button mushroom; SSR; illumina sequencing

MeSH Terms

Discrimination (Psychology)
Gene Frequency
Gene Ontology
Genetic Variation
Microsatellite Repeats*
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