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Cited by 22Plant tissue culture and regenerationEpigenetics and DNA MethylationPlant Molecular Biology Research

DNA methylation variation is crucial to restore adventitious rooting ability during in vitro shoot culture‐induced rejuvenation in apple rootstock

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Wang, Zhe, Li, Zhengnan, Wu, Dongchen, Tian, Qiuye, Su, Shenghui, Cheng, Chenxia, Nie, Jiyun, Yuan, Yongbing +2 more·2023·The Plant Journal
DOI 10.1111/tpj.16153
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Abstract

SUMMARY: In vitro shoot culture has been widely used for restoring adventitious rooting ability in rooting recalcitrant woody perennial species for the past few decades, but its molecular mechanism is largely uncovered. DNA methylation is an essential epigenetic mark that participates in many biological processes. Recent reports suggested a role of DNA methylation in vitro culture in plants. In this study, we characterized the single‐base resolution DNA methylome and transcriptome of adult and in vitro shoot culture‐induced rejuvenation cuttings of apple rootstock M9T337. We found a global decrease in DNA methylation during rejuvenation, which may be correlated with increased expression of DNA demethylase genes and decreased expression of DNA methyltransferase genes. We additionally documented DNA hypomethylation in ‘T337’_R in gene protomer associated with higher transcript levels of several adventitious rooting‐related genes. The application of a DNA methylation inhibitor (5‐azacytidine) enhanced the adventitious rooting ability and the expression level of adventitious rooting‐related genes, such as, MdANT , MdMPK3 , MdABCB21 , MdCDC48 , MdKIN8B , pri‐MdMIR156a5 and pri‐MdMIR156a12 . Together, the DNA hypomethylation is critical for the rejuvenation‐dependent adventitious rooting ability in apple rootstock. In addition, increased DNA methylation was also found in thousands of genes in ‘T337’_R. We additionally documented that DNA hypermethylation is required for inhibition of adventitious rooting‐repressed genes, such as MdGAD5a , encoding glutamate decarboxylase, which can catalyze glutamate decarboxylated to form γ‐aminobutyric acid (GABA). Our results revealed that in vitro shoot culture‐dependent DNA methylation variation plays important roles in adventitious rooting in apple rootstock.

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Cited by

Sorted by citations

Authors
Wang, Z., Li, Z., Wu, D., Tian, Q., Su, S., Cheng, C., Nie, J., Yuan, Y., Wang, Y., & Xu, X.
Affiliations
  • Qingdao Agricultural University (CN)
  • Inner Mongolia Agricultural University (CN)
Corresponding author
  • Yuan, Yongbing
  • Wang, Yongzhang
  • Xu, Xiaozhao
ORCID
Venue
The Plant Journal
Publisher
Wiley
Published
2023-03-13
Volume
114
Issue
3
Pages
554-569
ISSN
  • 0960-7412 (ISSN-L)
  • 1365-313X
DOI
10.1111/tpj.16153
OpenAlex
W4321168795
Cited by
22
References
1
Citations by year
2026: 10 · 2025: 6 · 2024: 3 · 2023: 3
FWCI
1.96
Type
journal article
Language
en
Open access
Licence
onlinelibrary.wiley.com/termsAndConditions#vor (vor)
Locations
  • The Plant Journal (publishedVersion)
  • PubMed (publishedVersion)
Funders
National Natural Science Foundation of China (31801824, 32160031, 32172523)
Topics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Plant tissue culture and regeneration
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Epigenetics and DNA Methylation
  • Life Sciences › Agricultural and Biological Sciences › Plant Science › Plant Molecular Biology Research
Keywords
DNA methylation, adventitious rooting, in vitro shoot culture, rejuvenation, apple rootstocks, DNA methyltransferase genes, DNA hypomethylation, DNA hypermethylation, azacitidine, microRNA, glutamic acid decarboxylase, GABA, epigenetics, perennial woody plants
MeSH terms
DNA, Plant Proteins, Rejuvenation, Gene Expression Regulation, Plant, Plant Roots, DNA Methylation, Malus

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