ArticleGenome biology and evolution2016
Plastid-Nuclear Interaction and Accelerated Coevolution in Plastid Ribosomal Genes in Geraniaceae.
Article in Genome biology and evolution, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 54 papers.
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54 citing papers in PubMed, 89 citations in OpenAlex.
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- Correlated Evolutionary Rates Reveal Novel Components and Cross-Compartment Connectivity in Plant Proteostasis Systems.Genome biology and evolution · 2026Article
- Patterns of plastid gene evolution: identifying candidate genes for plastid-nuclear incompatibility across the Campanulaceae.Frontiers in plant science · 2026Article
- Plastome evolution at the edge: structural rearrangements, IR expansion, and gene flux in Hypericaceae (Malpighiales).BMC plant biology · 2025Article
- Comparative organelle genome analysis of the sister genera Ceratocephala and Myosurus (Ranunculaceae) reveals fast evolutionary rates in arid and aquatic environments.BMC plant biology · 2025Article
- Elucidating the evolutionary dynamics of parasitism in Cuscuta: in-depth phylogenetic reconstruction and extensive plastomes reduction.BMC genomics · 2025Article
- Cytonuclear evolution in fully heterotrophic plants: lifestyles and gene function determine scenarios.BMC plant biology · 2024Article
- Dynamic changes in the plastid and mitochondrial genomes of the angiosperm Corydalis pauciovulata (Papaveraceae).BMC plant biology · 2024Article
- Whether niche changes promote the evolution of species: a case study ofFrontiers in plant science · 2024Article
- Polyphyly ofFrontiers in plant science · 2024Article
- Distinctive plastome evolution in carnivorous angiosperms.BMC plant biology · 2023Article
- Genomic Analysis of Plastid-Nuclear Interactions and Differential Evolution Rates in Coevolved Genes across Juglandaceae Species.Genome biology and evolution · 2023Article
- Mutation pressure, drift, and the pace of molecular coevolution.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- Incompatibility and Interchangeability in Molecular Evolution.Genome biology and evolution · 2023Review
- What is the potential impact of genetic divergence of plastid ribosomal genes betweenFrontiers in plant science · 2023Article
- Cytonuclear coevolution in a holoparasitic plant with highly disparate organellar genomes.Plant molecular biology · 2022Article
- Inheritance through the cytoplasm.Heredity · 2022Review
- Mito-nuclear coevolution and phylogenetic artifacts: the case of bivalve mollusks.Scientific reports · 2022Article
- Global Patterns of Subgenome Evolution in Organelle-Targeted Genes of Six Allotetraploid Angiosperms.Molecular biology and evolution · 2022Article
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Authors and funding
3 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Plastids and mitochondria have many protein complexes that include subunits encoded by organelle and nuclear genomes. In animal cells, compensatory evolution between mitochondrial and nuclear-encoded subunits was identified and the high mitochondrial mutation rates were hypothesized to drive compensatory evolution in nuclear genomes. In plant cells, compensatory evolution between plastid and nucleus has rarely been investigated in a phylogenetic framework. To investigate plastid-nuclear coevolution, we focused on plastid ribosomal protein genes that are encoded by plastid and nuclear genomes from 27 Geraniales species. Substitution rates were compared for five sets of genes representing plastid- and nuclear-encoded ribosomal subunit proteins targeted to the cytosol or the plastid as well as nonribosomal protein controls. We found that nonsynonymous substitution rates (dN) and the ratios of nonsynonymous to synonymous substitution rates (ω) were accelerated in both plastid- (CpRP) and nuclear-encoded subunits (NuCpRP) of the plastid ribosome relative to control sequences. Our analyses revealed strong signals of cytonuclear coevolution between plastid- and nuclear-encoded subunits, in which nonsynonymous substitutions in CpRP and NuCpRP tend to occur along the same branches in the Geraniaceae phylogeny. This coevolution pattern cannot be explained by physical interaction between amino acid residues. The forces driving accelerated coevolution varied with cellular compartment of the sequence. Increased ω in CpRP was mainly due to intensified positive selection whereas increased ω in NuCpRP was caused by relaxed purifying selection. In addition, the many indels identified in plastid rRNA genes in Geraniaceae may have contributed to changes in plastid subunits.
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