ArticleGenetics2014
Insights into three whole-genome duplications gleaned from the Paramecium caudatum genome sequence.
Article in Genetics, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 47 papers.
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Who cites it
47 citing papers in PubMed, 84 citations in OpenAlex.
- Ancient conservation of androglobin expression reveals its evolutionary link to ciliary processes.Molecular biology and evolution · 2026Article
- The tiny germline chromosomes of Paramecium aurelia have an exceptionally high recombination rate and are capped by a new class of Helitrons.BMC biology · 2026Article
- Article
- Bromodomain protein IBD1 bridges histone acetylation and H2A.Z deposition to fine-tune transcription.Nucleic acids research · 2026Article
- Whole-genome duplications revealed by macronuclear genomes of five rare species of the model ciliates Paramecium.Science China. Life sciences · 2025Article
- De Novo Genome Sequence Assembly of the RNAi-Tractable Paramecium bursaria 186b: An Endosymbiotic Model System.Genome biology and evolution · 2025Article
- Whole-genome duplication in an algal symbiont bolsters coral heat tolerance.Science advances · 2024Article
- A new method for ecologists to estimate heterozygote excess and deficit for multi-locus gene families.Ecology and evolution · 2024Article
- Integrative analyses on the ciliatesmSystems · 2024Article
- Application of RNA interference and protein localization to investigate housekeeping and developmentally regulated genes in the emerging model protozoan Paramecium caudatum.Communications biology · 2024Article
- Somatic genome architecture and molecular evolution are decoupled in "young" linage-specific gene families in ciliates.PloS one · 2024Article
- Review
- Evolutionary bioenergetics of ciliates.The Journal of eukaryotic microbiology · 2022Review
- Comparative Analysis Between Paramecium Strains with Different Syngens Using the RAPD Method.Microbial ecology · 2022Article
- A Population-Genetic Lens into the Process of Gene Loss Following Whole-Genome Duplication.Molecular biology and evolution · 2022Article
- Convergent evolution of polyploid genomes from across the eukaryotic tree of life.G3 (Bethesda, Md.) · 2022Article
- Distinction of Paramecium strains by a combination method of RAPD analysis and multiplex PCR.PloS one · 2022Article
- The Codon Usage Bias Analysis of Free-Living Ciliates' Macronuclear Genomes and Clustered Regularly Interspaced Short Palindromic Repeats/Cas9 Vector Construction ofFrontiers in microbiology · 2022Article
- Massive colonization of protein-coding exons by selfish genetic elements in Paramecium germline genomes.PLoS biology · 2021Article
- Ciliary Ca2+ pumps regulate intraciliary Ca2+ from the action potential and may co-localize with ciliary voltage-gated Ca2+ channels.The Journal of experimental biology · 2021Article
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Authors and funding
5 authors at 2 institutions in 2 countries.
Funding
Abstract
Paramecium has long been a model eukaryote. The sequence of the Paramecium tetraurelia genome reveals a history of three successive whole-genome duplications (WGDs), and the sequences of P. biaurelia and P. sexaurelia suggest that these WGDs are shared by all members of the aurelia species complex. Here, we present the genome sequence of P. caudatum, a species closely related to the P. aurelia species group. P. caudatum shares only the most ancient of the three WGDs with the aurelia complex. We found that P. caudatum maintains twice as many paralogs from this early event as the P. aurelia species, suggesting that post-WGD gene retention is influenced by subsequent WGDs and supporting the importance of selection for dosage in gene retention. The availability of P. caudatum as an outgroup allows an expanded analysis of the aurelia intermediate and recent WGD events. Both the Guanine+Cytosine (GC) content and the expression level of preduplication genes are significant predictors of duplicate retention. We find widespread asymmetrical evolution among aurelia paralogs, which is likely caused by gradual pseudogenization rather than by neofunctionalization. Finally, cases of divergent resolution of intermediate WGD duplicates between aurelia species implicate this process acts as an ongoing reinforcement mechanism of reproductive isolation long after a WGD event.
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