ArticleProceedings of the National Academy of Sciences of the United States of America2022
Pan-mitogenomics reveals the genetic basis of cytonuclear conflicts in citrus hybridization, domestication, and diversification.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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27 citing papers in PubMed, 68 citations in OpenAlex.
- A Compact Multipartite Mitogenome ofInternational journal of molecular sciences · 2026Article
- RhoMitoAnnotator and Polypods, Bioinformatics Tools for theInternational journal of molecular sciences · 2026Article
- A Super-Pangenome for Cultivated Citrus Reveals Evolutive Features During the Allopatric Phase of Their Reticulate Evolution.Plant biotechnology journal · 2026Article
- Comprehensive Analysis of Wild Rice Mitochondrial Genomes Reveals Structural Variation, Repeat Dynamics, and the Evolution ofPlants (Basel, Switzerland) · 2026Article
- Mitochondrial Graph-Based Pan-Genome Analysis ofInternational journal of molecular sciences · 2026Article
- The complete mitochondrial genome of Prinsepia uniflora (Rosaceae): De novo assembly, characterization, and phylogenetic analysis.BMC genomics · 2026Article
- The mitochondrial genome of Phoebe Bournei highlighted the structure variation driven evolution in magnoliids.BMC plant biology · 2025Article
- The molecular evolutionary basis of species formation revisited.Trends in genetics : TIG · 2025Review
- The role of cytonuclear interactions to plant adaptation across aProceedings. Biological sciences · 2025Article
- Banana breeding by genome design.Journal of integrative plant biology · 2025Review
- The cytonuclear interactions during grapevine domestication.Journal of integrative plant biology · 2025Article
- Frequent genetic exchanges revealed by a pan-mitogenome graph of a fungal plant pathogen.mBio · 2024Article
- Gene expression profiles and metabolic pathways responsible for male sterility in cybrid pummelo.Plant cell reports · 2024Article
- Mitogenomes comparison of 3 species of Asparagus L shedding light on their functions due to domestication and adaptative evolution.BMC genomics · 2024Article
- Complete mitochondrial genome of Agropyron cristatum reveals gene transfer and RNA editing events.BMC plant biology · 2024Article
- De novo assembly of the complete mitochondrial genome of pepino (Solanum muricatum) using PacBio HiFi sequencing: insights into structure, phylogenetic implications, and RNA editing.BMC plant biology · 2024Article
- Association Analysis Provides Insights into Plant Mitonuclear Interactions.Molecular biology and evolution · 2024Article
- Editorial: Advances on genomics and genetics of horticultural crops and their contribution to breeding efforts - volume II.Frontiers in plant science · 2024Article
- The first mitogenome of Lauraceae (Plant diversity · 2024Article
- Article
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Authors and funding
11 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Although interactions between the cytoplasmic and nuclear genomes occurred during diversification of many plants, the evolutionary conflicts due to cytonuclear interactions are poorly understood in crop breeding. Here, we constructed a pan-mitogenome and identified chimeric open reading frames (ORFs) generated by extensive structural variations (SVs). Meanwhile, short reads from 184 accessions of citrus species were combined to construct three variation maps for the nuclear, mitochondrial, and chloroplast genomes. The population genomic data showed discordant topologies between the cytoplasmic and nuclear genomes because of differences in mutation rates and levels of heteroplasmy from paternal leakage. An analysis of species-specific SVs indicated that mitochondrial heteroplasmy was common and that chloroplast heteroplasmy was undetectable. Interestingly, we found a prominent divergence in the mitogenomes and the highest genetic load in the, which may provide the basis for cytoplasmic male sterility (CMS) and thus influence the reshuffling of the cytoplasmic and nuclear genomes during hybridization. Using cytoplasmic replacement experiments, we identified a type of species-specific CMS in mandarin related to two chimeric mitochondrial genes. Our analyses indicate that cytoplasmic genomes from mandarin have rarely been maintained in hybrids and that paternal leakage produced very low levels of mitochondrial heteroplasmy in mandarin. A genome-wide association study (GWAS) provided evidence for three nuclear genes that encode pentatricopeptide repeat (PPR) proteins contributing to the cytonuclear interactions in the
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