ArticleGenome research2015
Organelle DNA rearrangement mapping reveals U-turn-like inversions as a major source of genomic instability in Arabidopsis and humans.
Article in Genome research, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 39 papers.
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39 citing papers in PubMed, 55 citations in OpenAlex.
- Landscape of plastid DNA breaks in Arabidopsis during development and environmental stimulus.The Plant cell · 2026Article
- Diversification of plant specific organellar single-stranded DNA binding genes and their roles in mitochondrial genome rearrangements in Arabidopsis and rice.BMC plant biology · 2026Article
- Species-specific marker development for accurate identification of three red algae (Marine life science & technology · 2025Article
- Plant MutS2 proteins function in plastid ribosome quality control.bioRxiv : the preprint server for biology · 2025Article
- The evolutionary dynamics of organellar pan-genomes in Arabidopsis thaliana.Genome biology · 2025Article
- ESSENTIAL MEIOTIC ENDONUCLEASE 1 is required for chloroplast development and DNA repair in rice.Plant biotechnology journal · 2025Article
- Mapping-based genome size estimation.BMC genomics · 2025Article
- Disruption of recombination machinery alters the mutational landscape in plant organellar genomes.G3 (Bethesda, Md.) · 2025Article
- WHIRLY proteins, multi-layer regulators linking the nucleus and organelles in developmental and stress-induced senescence of plants.Annals of botany · 2024Review
- Disruption of recombination machinery alters the mutational landscape in plant organellar genomes.bioRxiv : the preprint server for biology · 2024Article
- Mechanistic insights into DNA damage recognition and checkpoint control in plants.Nature plants · 2024Review
- Evolution ofFrontiers in plant science · 2024Article
- WHIRLY proteins maintain seed longevity by effects on seed oxygen signalling during imbibition.The Biochemical journal · 2023Article
- UPL5 modulates WHY2 protein distribution in a Kub-site dependent ubiquitination in response to [CaiScience · 2023Article
- WHIRLY protein functions in plants.Food and energy security · 2023Review
- Plant environmental sensing relies on specialized plastids.Journal of experimental botany · 2022Review
- RADA-dependent branch migration has a predominant role in plant mitochondria and its defect leads to mtDNA instability and cell cycle arrest.PLoS genetics · 2022Article
- Efficient control of western flower thrips by plastid-mediated RNA interference.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- WHIRLIES Are Multifunctional DNA-Binding Proteins With Impact on Plant Development and Stress Resistance.Frontiers in plant science · 2022Review
- RNase H1C collaborates with ssDNA binding proteins WHY1/3 and recombinase RecA1 to fulfill the DNA damage repair in Arabidopsis chloroplasts.Nucleic acids research · 2021Article
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Authors and funding
5 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Failure to maintain organelle genome stability has been linked to numerous phenotypes, including variegation and cytosolic male sterility (CMS) in plants, as well as cancer and neurodegenerative diseases in mammals. Here we describe a next-generation sequencing approach that precisely maps and characterizes organelle DNA rearrangements in a single genome-wide experiment. In addition to displaying global portraits of genomic instability, it surprisingly unveiled an abundance of short-range rearrangements in Arabidopsis thaliana and human organelles. Among these, short-range U-turn-like inversions reach 25% of total rearrangements in wild-type Arabidopsis plastids and 60% in human mitochondria. Furthermore, we show that replication stress correlates with the accumulation of this type of rearrangement, suggesting that U-turn-like rearrangements could be the outcome of a replication-dependent mechanism. We also show that U-turn-like rearrangements are mostly generated using microhomologies and are repressed in plastids by Whirly proteins WHY1 and WHY3. A synergistic interaction is also observed between the genes for the plastid DNA recombinase RECA1 and those encoding plastid Whirly proteins, and the triple mutant why1why3reca1 accumulates almost 60 times the WT levels of U-turn-like rearrangements. We thus propose that the process leading to U-turn-like rearrangements may constitute a RecA-independent mechanism to restart stalled forks. Our results reveal that short-range rearrangements, and especially U-turn-like rearrangements, are a major factor of genomic instability in organelles, and this raises the question of whether they could have been underestimated in diseases associated with mitochondrial dysfunction.
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