ArticleGenome biology2022
Gene fusion as an important mechanism to generate new genes in the genus Oryza.
Article in Genome biology, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed, 30 citations in OpenAlex.
- Origins and Molecular Features of a Chimeric Type-P4A ATPase-Guanylate Cyclase from Stramenopiles and Alveolates.International journal of molecular sciences · 2026Article
- The hidden sources of spurious fusion transcripts in plants.Genome biology · 2026Article
- Hexokinase expansion in thermophilic snails supports extreme heat tolerance.Science China. Life sciences · 2026Article
- Characterization and analysis of the full-length transcriptome of Frankliniella occidentalis (Thysanoptera: Thripidae).BMC genomics · 2026Article
- PFGPred: a stack ensemble classifier for the identification of fusion genes in plants.DNA research : an international journal for rapid publication of reports on genes and genomes · 2026Article
- Highly accurate ab initio gene annotation with ANNEVO.Nature methods · 2026Article
- Importance of De Novo Gene Evolution to Emerging Viral Threats: The ORF10 Strain-Restricted Orphan Gene of SARS-CoV-2 Promotes Pathogenesis.Molecular biology and evolution · 2025Article
- Functional innovation through new genes as a general evolutionary process.Nature genetics · 2025Review
- The landscape of fusion transcripts in plants: a new insight into genome complexity.BMC plant biology · 2024Article
- Direct RNA sequencing in plants: Practical applications and future perspectives.Plant communications · 2024Review
- Article
- Conserved features and diversity attributes of chimeric RNAs across accessions in four plants.Plant biotechnology journal · 2024Article
- ChimeraTE: a pipeline to detect chimeric transcripts derived from genes and transposable elements.Nucleic acids research · 2023Article
- Genome-Wide Identification and Characterization of the Msr Gene Family in Alfalfa under Abiotic Stress.International journal of molecular sciences · 2023Article
- Transcriptome-wide analyses of early immune responses in lumpfish leukocytes upon stimulation with poly(I:C).Frontiers in immunology · 2023Article
- Gene fusion as an important mechanism to generate new genes in the genus Oryza.Genome biology · 2022Article
- 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 at 4 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundEvents of gene fusion have been reported in several organisms. However, the general role of gene fusion as part of new gene origination remains unknown.
resultsWe conduct genome-wide interrogations of four Oryza genomes by designing and implementing novel pipelines to detect fusion genes. Based on the phylogeny of ten plant species, we detect 310 fusion genes across four Oryza species. The estimated rate of origination of fusion genes in the Oryza genus is as high as 63 fusion genes per species per million years, which is fixed at 16 fusion genes per species per million years and much higher than that in flies. By RNA sequencing analysis, we find more than 44% of the fusion genes are expressed and 90% of gene pairs show strong signals of purifying selection. Further analysis of CRISPR/Cas9 knockout lines indicates that newly formed fusion genes regulate phenotype traits including seed germination, shoot length and root length, suggesting the functional significance of these genes.
conclusionsWe detect new fusion genes that may drive phenotype evolution in Oryza. This study provides novel insights into the genome evolution of Oryza.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.