ArticleMolecular genetics and genomics : MGG2015
Genome-wide identification and evolutionary analysis of positively selected miRNA genes in domesticated rice.
Article in Molecular genetics and genomics : MGG, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.
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Who cites it
7 citing papers in PubMed.
- Copper-sensitive OsSPL9 TF regulates expression of indica rice domestication-associated miRNAs and phenotypes.Communications biology · 2026Article
- Rice and shine: a review of miRNA-mediated responses to abiotic stress inFrontiers in plant science · 2026Review
- Identification and characterization of Populus microRNAs in response to plant growth-promoting endophytic Streptomyces sp. SSD49.World journal of microbiology & biotechnology · 2019Article
- Functional Identification ofFrontiers in plant science · 2019Article
- Comprehensive survey and evolutionary analysis of genome-wide miRNA genes from ten diploid Oryza species.BMC genomics · 2017Article
- The evolution of microRNAs in plants.Current opinion in plant biology · 2017Review
- Deep-sequence profiling of miRNAs and their target prediction in Monotropa hypopitys.Plant molecular biology · 2016Article
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4 authors.
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Abstract
The next-generation sequencing of tens to hundreds of plant genotypes made the uncovering of miRNA genes evolution available at the genome-wide level. Using the combinations of population genetics and evolutionary biology approaches, we have identified 21 miRNA loci having significant negative Tajima's D and Fu and Li's D* and F* values, of which 14 miRNAs (ps-miRNAs) showing clear signatures of positive selection in domesticated rice. The average sequence diversity (π) of the 21 miRNAs in cultivated rice is only 13.8 % of that in their wild progenitors. Interestingly, protein-coding genes immediately flanking these ps-miRNAs are apparently under weaker selective constraints. Totally, the 21 miRNAs are predicted to target 68 mRNA genes, of which 12 targets are estimated to have endured positive selection during rice evolution. In addition, the expression pattern and potential biological functions of ps-miRNAs targets are further investigated by searching published micro-array data and different mutant databases, respectively. We conclude that miRNAs, like protein-coding genes, should be crucial for driving rice evolution. These analyses may deepen our understanding on the miRNA genes evolution and functions during rice domestication.
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