ArticleBMC plant biology2022
Integrated transcriptome and methylome analyses reveal the molecular regulation of drought stress in wild strawberry (Fragaria nilgerrensis).
Article in BMC plant biology, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed, 31 citations in OpenAlex.
- Integrated Genomic and Functional Analyses IdentifyInternational journal of molecular sciences · 2026Article
- Molecular Mechanisms in Responses to Combined Stresses in Strawberry.Current issues in molecular biology · 2026Review
- Integrated transcriptomic and biochemical analyses reveal mechanisms of drought adaptation in strawberry (Fragaria × ananassa L.).BMC plant biology · 2026Article
- Genome-wide identification of the FAD gene family in Fragaria nilgerrensis reveals distinct roles of two FnFAD3 genes in peach-like aroma formation.Genes & genomics · 2026Article
- Comprehensive UPLC-MS/MS Profiling of Bioactive Phenolics and Their MYB Regulatory Networks in Wild and Cultivated Strawberries.Molecules (Basel, Switzerland) · 2026Article
- Genome-Wide Identification and Functional Analysis of DNA Methylation-Related Genes inPlants (Basel, Switzerland) · 2026Article
- Bi-functional transcription factor FnZHD9 regulates leaf curling and drought resistance in fragaria nilgerrensis.BMC plant biology · 2026Article
- An integrative multi-omics analysis of histone modifications and DNA methylation reveals the epigenomic landscape in apple under drought stress.Plant biotechnology journal · 2025Article
- Screening of strawberry (Frontiers in plant science · 2025Article
- Drought stress-induced physiological and molecular changes in strawberries: an integrated transcriptomic and metabolomic perspective.Frontiers in plant science · 2025Article
- Endophytic Bacteria Enterobacter cloacae PN7 Promotes Biosynthesis and Accumulation of Saponins in Panax notoginseng.Current microbiology · 2024Article
- Article
- Transcriptomic and Physiological Analyses for the Role of Hormones and Sugar in Axillary Bud Development of Wild Strawberry Stolon.Plants (Basel, Switzerland) · 2024Article
- DNA Methylation Dynamics in Response to Drought Stress in Crops.Plants (Basel, Switzerland) · 2024Review
- Recent Advances in Studies of Genomic DNA Methylation and Its Involvement in Regulating Drought Stress Response in Crops.Plants (Basel, Switzerland) · 2024Review
- DNA methylation regulates the secondary metabolism of saponins to improve the adaptability of Eleutherococcus senticosus during drought stress.BMC genomics · 2024Article
- Comparative analysis of the microbiomes of strawberry wild speciesFrontiers in microbiology · 2024Article
- The Development of Plant Genome Sequencing Technology and Its Conservation and Application in Endangered Gymnosperms.Plants (Basel, Switzerland) · 2023Review
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Authors and funding
8 authors at 5 institutions in 2 countries.
Funding
Abstract
backgroundFragaria nilgerrensis, which is a diploid wild strawberry with excellent drought-resistance, would provide useful candidate genes for improving drought resistance of cultivated strawberry. So far, its molecular regulatory networks involved in drought stress are unclear. We therefore investigated the drought response regulatory networks of F. nilgerrensis based on the integrated analysis of DNA methylation, transcriptome and physiological traits during four time points under drought stress.
resultsThe most differentially expressed genes and the physiological changes were found at 8 days (T8) compared with 0 day (T0, control). Methylome analysis revealed slight dynamic changes in genome-wide mC levels under drought conditions, while the most hypomethylated and hypermethylated regions were identified at T4 and T8. Association analysis of the methylome and transcriptome revealed that unexpressed genes exhibited expected hypermethylation levels in mCHG and mCHH contexts, and highly expressed genes exhibited corresponding hypomethylation levels in the gene body, but mCG contexts showed the opposite trend. Then, 835 differentially methylated and expressed genes were identified and grouped into four clustering patterns to characterize their functions. The genes with either negative or positive correlation between methylation and gene expression were mainly associated with kinases, Reactive Oxygen Species (ROS) synthesis, scavenging, and the abscisic acid (ABA) signal pathway. Consistently, weighted gene co-expression network analysis (WGCNA) revealed Hub genes including NCED, CYP707A2, PP2Cs and others that play important roles in the ABA signaling pathway.
conclusionF. nilgerrensis drought is dominated by ABA-dependent pathways, possibly accompanied by ABA-independent crosstalk. DNA methylation may affect gene expression, but their correlation was more subtle and multiple types of association exist. Maintaining the balance between ROS regeneration and scavenging is an important factor in drought resistance in F. nilgerrensis. These results deepen our understanding of drought resistance and its application in breeding in strawberry plants.
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