ArticleGenome biology and evolution2017
Pervasive Transcription of Mitochondrial, Plastid, and Nucleomorph Genomes across Diverse Plastid-Bearing Species.
Article in Genome biology and evolution, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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Who cites it
14 citing papers in PubMed, 49 citations in OpenAlex.
- Comparative genomics uncovers organellar genome structural divergence in Caryophyllales and reveals widespread non-coding transcription in Bougainvillea glabra organellar.BMC genomics · 2025Article
- Mitochondrial Genome Variations and Possible Adaptive Implications in Some Tephritid Flies (Diptera, Tephritidae).International journal of molecular sciences · 2025Article
- Characterization and analysis of multi-organ full-length transcriptomes in Sphaeropteris brunoniana and Alsophila latebrosa highlight secondary metabolism and chloroplast RNA editing pattern of tree ferns.BMC plant biology · 2024Article
- The chromatin organization of a chlorarachniophyte nucleomorph genome.Genome biology · 2022Article
- Tight association of genome rearrangements with gene expression in conifer plastomes.BMC plant biology · 2021Article
- Article
- Plant Ribonuclease J: An Essential Player in Maintaining Chloroplast RNA Quality Control for Gene Expression.Plants (Basel, Switzerland) · 2020Review
- Common Repeat Elements in the Mitochondrial and Plastid Genomes of Green Algae.Frontiers in genetics · 2020Article
- Complete mitochondrial genomes from transcriptomes: assessing pros and cons of data mining for assembling new mitogenomes.Scientific reports · 2019Article
- Nucleomorph Small RNAs in Cryptophyte and Chlorarachniophyte Algae.Genome biology and evolution · 2019Article
- Article
- Fungal Community Ecology Using MALDI-TOF MS Demands Curated Mass Spectral Databases.Frontiers in microbiology · 2019Article
- Review
- Evolution and Diversity of Pre-mRNA Splicing in Highly Reduced Nucleomorph Genomes.Genome biology and evolution · 2018Article
Corrections and comments
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Organelle genomes exhibit remarkable diversity in content, structure, and size, and in their modes of gene expression, which are governed by both organelle- and nuclear-encoded machinery. Next generation sequencing (NGS) has generated unprecedented amounts of genomic and transcriptomic data, which can be used to investigate organelle genome transcription. However, most of the available eukaryotic RNA-sequencing (RNA-seq) data are used to study nuclear transcription only, even though large numbers of organelle-derived reads can typically be mined from these experiments. Here, we use publicly available RNA-seq data to assess organelle genome transcription in 59 diverse plastid-bearing species. Our RNA mapping analyses unraveled pervasive (full or near-full) transcription of mitochondrial, plastid, and nucleomorph genomes. In all cases, 85% or more of the organelle genome was recovered from the RNA data, including noncoding (intergenic and intronic) regions. These results reinforce the idea that organelles transcribe all or nearly all of their genomic material and are dependent on post-transcriptional processing of polycistronic transcripts. We explore the possibility that transcribed intergenic regions are producing functional noncoding RNAs, and that organelle genome noncoding content might provide raw material for generating regulatory RNAs.
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