ArticleMolecular biology and evolution2012
Miniature inverted-repeat transposable elements (MITEs) have been accumulated through amplification bursts and play important roles in gene expression and species diversity in Oryza sativa.
Article in Molecular biology and evolution, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 122 papers.
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122 citing papers in PubMed.
- Evolutionary Study of Transposable Elements: Structural Characterization and Phylogenomic Profiling in Plant Genomes.Journal of molecular evolution · 2026Review
- Haploid Mutation Mapping Identifies a Homoeologous Non-Reciprocal Translocation Linked to Reduced Fibre and Enhanced Protein in Brassica napus.Plant biotechnology journal · 2026Article
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- Miniature inverted repeat transposable elements in the genome of sugar beet and their impact on gene expression.Scientific reports · 2025Article
- Plant MITEs: miniature transposable elements with major impacts.Mobile DNA · 2025Review
- MITE Annotation and Landscape in 207 Plant Genomes Reveal Their Evolutionary Dynamics and Functional Roles.Molecular ecology resources · 2025Article
- Exploring the genomic landscape of mites and harnessing MITE insertion polymorphism markers in jute (Corchorus sp.).Scientific reports · 2025Article
- Epigenetic regulation ofaBIOTECH · 2025Article
- The role of mobile DNA elements in the dynamics of plant genome plasticity.Journal of experimental botany · 2025Review
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- Exploring the complexity of genome size reduction in angiosperms.Plant molecular biology · 2024Review
- Genetic variability of aquaporin expression in maize: From eQTLs to a MITE insertion regulating PIP2;5 expression.Plant physiology · 2024Article
- Hijackers, hitchhikers, or co-drivers? The mysteries of mobilizable genetic elements.PLoS biology · 2024Article
- Transposable elements cause the loss of self-incompatibility in citrus.Plant biotechnology journal · 2024Article
- Neofunctionalization of anProceedings of the National Academy of Sciences of the United States of America · 2024Article
- Review
- Genome-wide characterization and evolution analysis of miniature inverted-repeat transposable elements in Barley (Frontiers in plant science · 2024Article
- Miniature-inverted-repeat transposable elements contribute to phenotypic variation regulation of rice induced by space environment.Frontiers in plant science · 2024Article
- Genome variation and LTR-RT analyses of an ancient peach landrace reveal mechanism of blood-flesh fruit color formation and fruit maturity date advancement.Horticulture research · 2024Article
- From parasites to partners: exploring the intricacies of host-transposon dynamics and coevolution.Functional & integrative genomics · 2023Review
62 more citing papers are in PubMed but not listed here.
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Abstract
Miniature inverted-repeat transposable elements (MITEs) are predicted to play important roles on genome evolution. We developed a BLASTN-based approach for de novo identification of MITEs and systematically analyzed MITEs in rice genome. The genome of rice cultivar Nipponbare (Oryza sativa ssp. japonica) harbors 178,533 MITE-related sequences classified into 338 families. Pairwise nucleotide diversity and phylogenetic tree analysis indicated that individual MITE families were resulted from one or multiple rounds of amplification bursts. The timing of amplification burst varied considerably between different MITE families or subfamilies. MITEs are associated with 23,623 (58.2%) genes in rice genome. At least 7,887 MITEs are transcribed and more than 3,463 were transcribed with rice genes. The MITE sequences transcribed with rice coding genes form 1,130 pairs of potential natural sense/antisense transcripts. MITEs generate 23.5% (183,837 of 781,885) of all small RNAs identified from rice. Some MITE families generated small RNAs mainly from the terminals, while other families generated small RNAs predominantly from the central region. More than half (51.8%) of the MITE-derived small RNAs were generated exclusively by MITEs located away from genes. Genome-wide analysis showed that genes associated with MITEs have significantly lower expression than genes away from MITEs. Approximately 14.8% of loci with full-length MITEs have presence/absence polymorphism between rice cultivars 93-11 (O. sativa ssp. indica) and Nipponbare. Considering that different sets of genes may be regulated by MITE-derived small RNAs in different genotypes, MITEs provide considerable diversity for O. sativa.
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