ArticleBMC plant biology2018
Global Methylome and gene expression analysis during early Peanut pod development.
Article in BMC plant biology, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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Who cites it
12 citing papers in PubMed, 24 citations in OpenAlex.
- Experimental evolution to thermal stress indicates climate resilience in a cosmopolitan arthropod.eLife · 2026Article
- Epigenetic modifications regulate peg elongation and underground fruiting in peanut in response to environmental cues.The plant genome · 2026Review
- Regulation of DNA Methylation in Peanut Leaves and Roots: Uncovering the Molecular Mechanisms for Increased Yield After Single-Seed Sowing.Plant biotechnology journal · 2025Article
- Transcriptional response of cultivated peanut (Arachis hypogaea L.) roots to salt stress and the role of DNA methylation.Plant cell reports · 2025Article
- DNA methylation dynamics play crucial roles in shaping the distinct transcriptomic profiles for different root-type initiation in rice.Genome biology · 2025Article
- Article
- Genome-wide characterization of phospholipase D family genes in allotetraploid peanut and its diploid progenitors revealed their crucial roles in growth and abiotic stress responses.Frontiers in plant science · 2023Article
- Deep transcriptomic study reveals the role of cell wall biosynthesis and organization networks in the developing shell of peanut pod.BMC plant biology · 2021Article
- Comprehensive Transcriptome Analyses Reveal Candidate Genes for Variation in Seed Size/Weight During Peanut (Frontiers in plant science · 2021Article
- Alternative splicing profiling provides insights into the molecular mechanisms of peanut peg development.BMC plant biology · 2020Article
- Comprehensive identification and analysis of DELLA genes throughout the plant kingdom.BMC plant biology · 2020Article
- Genetic mechanisms of salt stress responses in halophytes.Plant signaling & behavior · 2020Article
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Authors and funding
13 authors at 5 institutions in 3 countries.
Funding
Abstract
backgroundEarly peanut pod development is an important process of peanut reproductive development. Modes of DNA methylation during early peanut pod development are still unclear, possibly because its allotetraploid genome may cause difficulty for the methylome analysis.
resultsTo investigate the functions of the dynamic DNA methylation during the early development of the peanut pod, global methylome and gene expression analyses were carried out by Illumina high throughput sequencing. A novel mapping strategy of reads was developed and used for methylome and gene expression analysis. Differentially methylated genes, such as nodulin, cell number regulator-like protein, and senescence-associated genes, were identified during the early developmental stages of the peanut pod. The expression levels of gibberellin-related genes changed during this period of pod development. From the stage one (S1) gynophore to the stage two (S2) gynophore, the expression levels of two key methyltransferase genes, DRM2 and MET1, were up-regulated, which may lead to global DNA methylation changes between these two stages. The differentially methylated and expressed genes identified in the S1, S2, and stage 3 (S3) gynophore are involved in different biological processes such as stem cell fate determination, response to red, blue, and UV light, post-embryonic morphogenesis, and auxin biosynthesis. The expression levels of many genes were co-related by their DNA methylation levels. In addition, our results showed that the abundance of some 24-nucleotide siRNAs and miRNAs were positively associated with DNA methylation levels of their target loci in peanut pods.
conclusionA novel mapping strategy of reads was described and verified in this study. Our results suggest that the methylated modes of the S1, S2, and S3 gynophore are different. The methylation changes that were identified during early peanut pod development provide useful information for understanding the roles of epigenetic regulation in peanut pod development.
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