ArticleFrontiers in plant science2021
The Genome-Wide EMS Mutagenesis Bias Correlates With Sequence Context and Chromatin Structure in Rice.
Article in Frontiers in plant science, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers, 1 of them a synthesis that pooled it.
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Who cites it
22 citing papers in PubMed, 1 synthesis or guideline pooled it, 51 citations in OpenAlex.
- Epigenomics as Potential Tools for Enhancing Magnitude of Breeding Approaches for Developing Climate Resilient Chickpea.Frontiers in genetics · 2022Pooled it
- Ethyl methanesulfonate mutagenesis: Advancing bacterial genetics for sustainable agriculture.Folia microbiologica · 2026Review
- Haploid Mutation Mapping Identifies a Homoeologous Non-Reciprocal Translocation Linked to Reduced Fibre and Enhanced Protein in Brassica napus.Plant biotechnology journal · 2026Article
- Genome-Wide Association Analyses Reveal the Genetic Basis of EMS Mutagenesis Efficiency in Rice.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Enhanced Production of Astaxanthin and Zeaxanthin by Paracoccus Sp. LL1 Through Random Mutagenesis.Biotechnology and applied biochemistry · 2026Article
- EMS-induced genomic variation and QTL-seq analysis of safflower spininess through whole genome sequencing (WGS).BMC genomics · 2025Article
- The Potential of NGTs to Overcome Constraints in Plant Breeding and Their Regulatory Implications.International journal of molecular sciences · 2025Review
- Non-Random Distribution of EMS-Induced Mutations Reveals Preference for Open Chromatin and Expressed Genes in Rice.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025Article
- Characterization of phenotypic and genetic diversity in sodium azide-induced mutant populations in oat (Avena sativa).BMC plant biology · 2025Article
- Directed mutagenesis in fruit crops.3 Biotech · 2025Review
- Assessment of the In Vitro Phosphatidylinositol Glycan Class A (PIG-A) Gene Mutation Assay Using Human TK6 and Mouse Hepa1c1c7 Cell Lines.Journal of xenobiotics · 2024Article
- A machine learning enhanced EMS mutagenesis probability map for efficient identification of causal mutations in Caenorhabditis elegans.PLoS genetics · 2024Article
- Genomic variation induced by a low concentration of ethyl methanesulfonate (EMS) in quinoa 'Longli-4' variety.Botanical studies · 2024Article
- Chromatin dynamics and RNA metabolism are double-edged swords for the maintenance of plant genome integrity.Nature plants · 2024Review
- H3K4me1 recruits DNA repair proteins in plants.The Plant cell · 2024Article
- A Novel Allele in the Promoter ofPlants (Basel, Switzerland) · 2024Article
- Transcriptional and genetic characteristic of chimera pea generation via double ethyl methanesulfonate-induced mutation revealed by transcription analysis.Frontiers in plant science · 2024Article
- Identification of Induced Copy Number Variation from Low Coverage Sequence Data.Methods in molecular biology (Clifton, N.J.) · 2024Article
- Chitosan Nanoparticles Loaded withPharmaceutics · 2023Article
- Augmenting tomato functional genomics with a genome-wide induced genetic variation resource.Frontiers in plant science · 2023Article
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Authors and funding
4 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Ethyl methanesulfonate (EMS) is a chemical mutagen believed to mainly induce G/C to A/T transitions randomly in plant genomes. However, mutant screening for phenotypes often gets multiple alleles for one gene but no mutant for other genes. We investigated the potential EMS mutagenesis bias and the possible correlations with sequence context and chromatin structure using the whole genome resequencing data collected from 52 rice EMS mutants. We defined the EMS-induced single nucleotide polymorphic sites (SNPs) and explored the genomic factors associated with EMS mutagenesis bias. Compared with natural SNPs presented in the Rice3K project, EMS showed a preference on G/C sites with flanking sequences also higher in GC contents. The composition of local dinucleotides and trinucleotides was also associated with the efficiency of EMS mutagenesis. The biased distribution of EMS-induced SNPs was positively correlated with CpG numbers, transposable element contents, and repressive epigenetic markers but negatively with gene expression, the euchromatin marker DNase I hypersensitive sites, and active epigenetic markers, suggesting that sequence context and chromatin structure might correlate with the efficiency of EMS mutagenesis. Exploring the genome-wide features of EMS mutagenesis and correlations with epigenetic modifications will help in the understanding of DNA repair mechanism.
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