ArticleProceedings of the National Academy of Sciences of the United States of America2017
Integrative modeling of gene and genome evolution roots the archaeal tree of life.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 132 papers.
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132 citing papers in PubMed, 241 citations in OpenAlex.
- Diversity of electron-bifurcating COScience advances · 2026Article
- Phylogenetic reconciliation supports a methanogenic ancestor of the Archaea and a derived origin for host-associated lineages.Nature communications · 2026Article
- Abiotic sources of fixed nitrogen sustained early ecosystems for several hundred million years after the origin of life.Science advances · 2026Article
- New lineages provide insights into the convergent evolution of extreme salt adaptation within symbiotic Archaea.Molecular biology and evolution · 2026Article
- Microbial Evolution and Systematics: Archaea and Bacteria.Progress in molecular and subcellular biology · 2026Review
- Phylogenomic Analyses Reveal that Panguiarchaeum Is a Clade of Genome-Reduced Asgard Archaea Within the Njordarchaeia.Molecular biology and 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
- The emergence of metabolisms through Earth history and implications for biospheric evolution.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2025Article
- Phylogenomic analyses indicate the archaeal superphylum DPANN originated from free-living euryarchaeal-like ancestors.Nature microbiology · 2025Article
- Exploring glycolytic enzymes in disease: potential biomarkers and therapeutic targets in neurodegeneration, cancer and parasitic infections.Open biology · 2025Review
- The early evolution of the glycolytic pathway from autotrophic origins to glycogen and back.FEMS microbiology reviews · 2025Review
- Article
- Challenges in Assembling the Dated Tree of Life.Genome biology and evolution · 2024Article
- Introduction to the Special Issue on Early Evolution and the Last Common Ancestor.Journal of molecular evolution · 2024Article
- Evolution of Cellular Organization Along the First Branches of the Tree of Life.Journal of molecular evolution · 2024Article
- The nature of the last universal common ancestor and its impact on the early Earth system.Nature ecology & evolution · 2024Article
- Food for thought: Making the case for food produced via regenerative agriculture in the battle against non-communicable chronic diseases (NCDs).One health (Amsterdam, Netherlands) · 2024Review
- Timing the evolution of phosphorus-cycling enzymes through geological time using phylogenomics.Nature communications · 2024Article
- Primitive purine biosynthesis connects ancient geochemistry to modern metabolism.Nature ecology & evolution · 2024Article
- Microbial Diversity and Open Questions about the Deep Tree of Life.Genome biology and evolution · 2024Article
72 more citing papers are in PubMed but not listed here.
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Authors and funding
8 authors at 6 institutions in 4 countries.
Funding
Abstract
A root for the archaeal tree is essential for reconstructing the metabolism and ecology of early cells and for testing hypotheses that propose that the eukaryotic nuclear lineage originated from within the Archaea; however, published studies based on outgroup rooting disagree regarding the position of the archaeal root. Here we constructed a consensus unrooted archaeal topology using protein concatenation and a multigene supertree method based on 3,242 single gene trees, and then rooted this tree using a recently developed model of genome evolution. This model uses evidence from gene duplications, horizontal transfers, and gene losses contained in 31,236 archaeal gene families to identify the most likely root for the tree. Our analyses support the monophyly of DPANN (Diapherotrites, Parvarchaeota, Aenigmarchaeota, Nanoarchaeota, Nanohaloarchaea), a recently discovered cosmopolitan and genetically diverse lineage, and, in contrast to previous work, place the tree root between DPANN and all other Archaea. The sister group to DPANN comprises the Euryarchaeota and the TACK Archaea, including
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.