ArticleRice (New York, N.Y.)2023
Mutational Bias and Natural Selection Driving the Synonymous Codon Usage of Single-Exon Genes in Rice (Oryza sativa L.).
Article in Rice (New York, N.Y.), 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
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Who cites it
9 citing papers in PubMed, 17 citations in OpenAlex.
- Genomic diversity at thePlant diversity · 2026Article
- Evolution and Functional Implications of Codon Usage Bias in Eukaryotes.Journal of molecular evolution · 2026Review
- Exploring the genetic landscape of sesame: whole genome sequencing reveals distinct Egyptian lineages and SNP variability.Molecular genetics and genomics : MGG · 2026Article
- Article
- The CpG Landscape of Protein Coding DNA in Vertebrates.Evolutionary applications · 2025Article
- Analysis of heavy metal tolerance and genomics in an indigenous Kurthia strain from Kulik River reveals multi-metal resistance and dominance of selection pressure on codon usage patterns.Archives of microbiology · 2025Article
- Genome-wide identification of the OVATE gene family of proteins in soybean and expression profiling under salt stress.Frontiers in plant science · 2025Article
- Analysis of codon usage bias of thioredoxin in apicomplexan protozoa.Parasites & vectors · 2023Article
- Comparative analysis of codon usage patterns ofFrontiers in microbiology · 2023Article
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Authors and funding
6 authors at 2 institutions in 1 country.
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Abstract
The relative abundance of single-exon genes (SEGs) in higher plants is perplexing. Uncovering the synonymous codon usage pattern of SEGs will benefit for further understanding their underlying evolutionary mechanism in plants. Using internal correspondence analysis (ICA), we reveal a significant difference in synonymous codon usage between SEGs and multiple-exon genes (MEGs) in rice. But the effect is weak, accounting for only 2.61% of the total codon usage variability. SEGs and MEGs contain remarkably different base compositions, and are under clearly differential selective constraints, with the former having higher GC content, and evolving relatively faster during evolution. In the group of SEGs, the variability in synonymous codon usage among genes is partially due to the variations in GC content, gene function, and gene expression level, which accounts for 22.03%, 5.99%, and 3.32% of the total codon usage variability, respectively. Therefore, mutational bias and natural selection should work on affecting the synonymous codon usage of SEGs in rice. These findings may deepen our knowledge for the mechanisms of origination, differentiation and regulation of SEGs in plants.
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