Genome-wide analysis of DNA methylation in subcultured Cordyceps militaris

  • Xiangdong Xin
  • Juan Yin
  • Bei Zhang
  • Zhiyong Li
  • Shan Zhao
  • Zhongzheng GuiEmail author
Original Paper


The entomopathogenic mushroom Cordyceps militaris is a storehouse of various medicinal compounds and pharmacological effects. However, the high frequency of strain degeneration during subculture and preservation severely limits the large-scale production of C. militaris. DNA methylation is an important epigenomic modification involved in gene regulation. In this study, we used bisulfite sequencing for DNA methylation profiling of wild-type and mutant C. militaris. The differentially methylated regions (DMRs) of the two types were analyzed using Gene Ontology (GO) clustering and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis. DNA methylation levels of the wild-type and mutant-type C. militaris were 0.48% and 0.56%, respectively. Methylation appeared at CHH dinucleotides in 58.62% and 58.20% of all methylated cytosine sites in the wild and mutant types, respectively. In all, 188 DMRs were identified from the wild and mutant types. Most of the DMRs ranged from 200 to 350 bp in length. KEGG pathways of the expression of DMR-related genes, which are involved in pyruvate metabolism, glycerophospholipid metabolism, DNA replication, and N-glycan biosynthesis. This contributes to the knowledge and understanding of the possible mechanisms of C. militaris strain degeneration.


Cordyceps militaris Bisulfite sequencing DNA methylation Degenerative Analysis 



This research was funded by the Special Fund for Agro-scientific Research in the Public Interest of China (No. 201403064), and Postgraduate Research & Practice Innovation Program of Jiangsu Province (SJCX17_0610).

Compliance with ethical standards

Conflict of interest

All authors declare that they have no conflict of interest.


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Copyright information

© Springer-Verlag GmbH Germany, part of Springer Nature 2019

Authors and Affiliations

  • Xiangdong Xin
    • 1
  • Juan Yin
    • 1
  • Bei Zhang
    • 1
  • Zhiyong Li
    • 1
  • Shan Zhao
    • 1
  • Zhongzheng Gui
    • 1
    • 2
    Email author
  1. 1.School of BiotechnologyJiangsu University of Science and TechnologyZhenjiangChina
  2. 2.Sericultural Research InstituteChinese Academy of Agricultural ScienceZhenjiangChina

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