ArticleGenome biology and evolution2014
Global phylogenomic analysis disentangles the complex evolutionary history of DNA replication in archaea.
Article in Genome biology and evolution, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 52 papers.
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Who cites it
52 citing papers in PubMed, 84 citations in OpenAlex.
- Phylogenetic reconciliation supports a methanogenic ancestor of the Archaea and a derived origin for host-associated lineages.Nature communications · 2026Article
- Molecular Evolution of the Archaeal DNA-Dependent RNA Polymerase: Cooperative Changes in Subunit Composition and Specific Domains of Small Subunits.International journal of molecular sciences · 2026Article
- Serial innovations by Asgard archaea shaped the DNA replication machinery of the early eukaryotic ancestor.Nature ecology & evolution · 2025Article
- DPANN Archaea and CPR Bacteria: insights into early cellular evolution?Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2025Review
- Regulation of DNA Topology in Archaea: State of the Art and Perspectives.Molecular microbiology · 2025Review
- Archaeal DNA replication initiation: bridging LUCA's legacy and modern mechanisms.Frontiers in microbiology · 2025Article
- Complete genomes of Asgard archaea reveal diverse integrated and mobile genetic elements.Genome research · 2024Article
- Intein splicing efficiency and RadA levels can control the mode of archaeal DNA replication.Science advances · 2024Article
- Article
- DNA-binding mechanism and evolution of replication protein A.Nature communications · 2023Article
- Expanded Dataset Reveals the Emergence and Evolution of DNA Gyrase in Archaea.Molecular biology and evolution · 2022Article
- Evolving Perspective on the Origin and Diversification of Cellular Life and the Virosphere.Genome biology and evolution · 2022Review
- Viral origin of eukaryotic type IIA DNA topoisomerases.Virus evolution · 2022Article
- The hyperthermophilic archaeon Thermococcus kodakarensis is resistant to pervasive negative supercoiling activity of DNA gyrase.Nucleic acids research · 2021Article
- Six-State Amino Acid Recoding is not an Effective Strategy to Offset Compositional Heterogeneity and Saturation in Phylogenetic Analyses.Systematic biology · 2021Article
- An Efficient, Nonphylogenetic Method for Detecting Genes Sharing Evolutionary Signals in Phylogenomic Data Sets.Genome biology and evolution · 2021Article
- Archaeal tyrosine recombinases.FEMS microbiology reviews · 2021Review
- Article
- Review
- Diversity and evolution of B-family DNA polymerases.Nucleic acids research · 2020Review
Corrections and comments
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Authors and funding
4 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The archaeal machinery responsible for DNA replication is largely homologous to that of eukaryotes and is clearly distinct from its bacterial counterpart. Moreover, it shows high diversity in the various archaeal lineages, including different sets of components, heterogeneous taxonomic distribution, and a large number of additional copies that are sometimes highly divergent. This has made the evolutionary history of this cellular system particularly challenging to dissect. Here, we have carried out an exhaustive identification of homologs of all major replication components in over 140 complete archaeal genomes. Phylogenomic analysis allowed assigning them to either a conserved and probably essential core of replication components that were mainly vertically inherited, or to a variable and highly divergent shell of extra copies that have likely arisen from integrative elements. This suggests that replication proteins are frequently exchanged between extrachromosomal elements and cellular genomes. Our study allowed clarifying the history that shaped this key cellular process (ancestral components, horizontal gene transfers, and gene losses), providing important evolutionary and functional information. Finally, our precise identification of core components permitted to show that the phylogenetic signal carried by DNA replication is highly consistent with that harbored by two other key informational machineries (translation and transcription), strengthening the existence of a robust organismal tree for the Archaea.
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