ArticlePloS one2013
An RNA-seq transcriptome analysis of histone modifiers and RNA silencing genes in soybean during floral initiation process.
Article in PloS one, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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Who cites it
19 citing papers in PubMed, 39 citations in OpenAlex.
- Targeting histone acetylation to enhance somatic embryogenesis in Quercus suber L.Tree physiology · 2025Article
- Temporal Shifts in Hormone Signaling Networks Orchestrate Soybean Floral Development Under Field Conditions: An RNA-Seq Study.International journal of molecular sciences · 2025Article
- Yield and yield component trait analysis with DArT genotyping for GWAS in soybean grown in drought conditions of Kazakhstan.Frontiers in plant science · 2025Article
- Evaluation of Muscle Long Non-Coding RNA Profile during Rearing and Finishing Phase of Bulls Subjected to Different Prenatal Nutritional Strategies.Animals : an open access journal from MDPI · 2024Article
- Circular RNAs modulate the floral fate acquisition in soybean shoot apical meristem.BMC plant biology · 2023Article
- Beyond transcription factors: more regulatory layers affecting soybean gene expression under abiotic stress.Genetics and molecular biology · 2023Article
- Genome-Wide Identification of Maize Protein Arginine Methyltransferase Genes and Functional Analysis ofInternational journal of molecular sciences · 2022Article
- Genome-Wide Analysis of the HDAC Gene Family and Its Functional Characterization at Low Temperatures in Tartary Buckwheat (International journal of molecular sciences · 2022Article
- Biological Parts for Engineering Abiotic Stress Tolerance in Plants.Biodesign research · 2022Review
- Molecular characterization of a soybean FT homologue, GmFT7.Scientific reports · 2021Article
- Genome-Wide Identification of Epigenetic Regulators inInternational journal of molecular sciences · 2020Article
- Histone Deacetylase (HDAC) Gene Family in Allotetraploid Cotton and Its Diploid Progenitors: In Silico Identification, Molecular Characterization, and Gene Expression Analysis under Multiple Abiotic Stresses, DNA Damage and Phytohormone Treatments.International journal of molecular sciences · 2020Article
- Dynamic Changes in Genome-Wide Histone3 Lysine27 Trimethylation and Gene Expression of Soybean Roots in Response to Salt Stress.Frontiers in plant science · 2019Article
- Root morphogenic pathways in Eucalyptus grandis are modified by the activity of protein arginine methyltransferases.BMC plant biology · 2017Article
- Plant Responses to Abiotic Stress Regulated by Histone Deacetylases.Frontiers in plant science · 2017Review
- Transcriptome comparison reveals key candidate genes in response to vernalization of Oriental lily.BMC genomics · 2016Article
- De novo transcriptome sequence assembly from coconut leaves and seeds with a focus on factors involved in RNA-directed DNA methylation.G3 (Bethesda, Md.) · 2014Article
- Comparing bioinformatic gene expression profiling methods: microarray and RNA-Seq.Medical science monitor basic research · 2014Review
- RNA-seq analyses of multiple meristems of soybean: novel and alternative transcripts, evolutionary and functional implications.BMC plant biology · 2014Article
Corrections and comments
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Epigenetics has been recognised to play vital roles in many plant developmental processes, including floral initiation through the epigenetic regulation of gene expression. The histone modifying proteins that mediate these modifications involve the SET domain-containing histone methyltransferases, JmjC domain-containing demethylase, acetylases and deacetylases. In addition, RNA interference (RNAi)-associated genes are also involved in epigenetic regulation via RNA-directed DNA methylation and post-transcriptional gene silencing. Soybean, a major crop legume, requires a short day to induce flowering. How histone modifications regulate the plant response to external cues that initiate flowering is still largely unknown. Here, we used RNA-seq to address the dynamics of transcripts that are potentially involved in the epigenetic programming and RNAi mediated gene silencing during the floral initiation of soybean. Soybean is a paleopolyploid that has been subjected to at least two rounds of whole genome duplication events. We report that the expanded genomic repertoire of histone modifiers and RNA silencing genes in soybean includes 14 histone acetyltransferases, 24 histone deacetylases, 47 histone methyltransferases, 15 protein arginine methyltransferases, 24 JmjC domain-containing demethylases and 47 RNAi-associated genes. To investigate the role of these histone modifiers and RNA silencing genes during floral initiation, we compared the transcriptional dynamics of the leaf and shoot apical meristem at different time points after a short-day treatment. Our data reveal that the extensive activation of genes that are usually involved in the epigenetic programming and RNAi gene silencing in the soybean shoot apical meristem are reprogrammed for floral development following an exposure to inductive conditions.
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