ArticleNature communications2022
Pervasive misannotation of microexons that are evolutionarily conserved and crucial for gene function in plants.
Article in Nature communications, 2022. 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.
- Phylogenomic profile of exon-intron organization across angiosperms, their relationships with protein domains, and functional implications.Nature communications · 2026Article
- MEPDB: Database of microExons in plants.The New phytologist · 2025Article
- Characterization of the mitochondrial genomes forIMA fungus · 2025Article
- Genomes of multicellular algal sisters to land plants illuminate signaling network evolution.Nature genetics · 2024Article
- Regulation of micro- and small-exon retention and other splicing processes by GRP20 for flower development.Nature plants · 2024Article
- Identification and quantification of small exon-containing isoforms in long-read RNA sequencing data.Nucleic acids research · 2023Article
- Gene fusions, micro-exons and splice variants define stress signaling by AP2/ERF and WRKY transcription factors in the sesame pan-genome.Frontiers in plant science · 2022Article
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Authors and funding
10 authors.
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Abstract
It is challenging to identify the smallest microexons (≤15-nt) due to their small size. Consequently, these microexons are often misannotated or missed entirely during genome annotation. Here, we develop a pipeline to accurately identify 2,398 small microexons in 10 diverse plant species using 990 RNA-seq datasets, and most of them have not been annotated in the reference genomes. Analysis reveals that microexons tend to have increased detained flanking introns that require post-transcriptional splicing after polyadenylation. Examination of 45 conserved microexon clusters demonstrates that microexons and associated gene structures can be traced back to the origin of land plants. Based on these clusters, we develop an algorithm to genome-wide model coding microexons in 132 plants and find that microexons provide a strong phylogenetic signal for plant organismal relationships. Microexon modeling reveals diverse evolutionary trajectories, involving microexon gain and loss and alternative splicing. Our work provides a comprehensive view of microexons in plants.
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