The DOI matches its Crossref record; 92 of the 94 references it cites were found in a registry or an index, and 2 are not checked yet.
Phylogenomics provides robust support for a two-domains tree of life
Open accessAbstract
Hypotheses about the origin of eukaryotic cells are classically framed within the context of a universal 'tree of life' based on conserved core genes. Vigorous ongoing debate about eukaryote origins is based on assertions that the topology of the tree of life depends on the taxa included and the choice and quality of genomic data analysed. Here we have reanalysed the evidence underpinning those claims and apply more data to the question by using supertree and coalescent methods to interrogate >3,000 gene families in archaea and eukaryotes. We find that eukaryotes consistently originate from within the archaea in a two-domains tree when due consideration is given to the fit between model and data. Our analyses support a close relationship between eukaryotes and Asgard archaea and identify the Heimdallarchaeota as the current best candidate for the closest archaeal relatives of the eukaryotic nuclear lineage.
Overview
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Verification
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
The source backs part of the claim, not all of it — or backs it for a different population, condition or comparison.
In the citing paper
“CAT/CATGTR offers improved resilience to long-branch attraction artefacts (LBA)22 and is almost always better fitting than standard site-homogeneous amino acid substitution models (e.g. WAG)8–10,23–29.”
From Evidence for sponges as sister to all other animals from partitioned phylogenomics with mixture models and recoding (2021) · cites this paper as [28]
Experimental — accuracy not yet measured
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Citations
Cites
MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability
Katoh, K., & Standley, D. M. (2013) · Molecular Biology and Evolution · doi:10.1093/molbev/mst010 · Cited by 46,209
RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies
Stamatakis, A. (2014) · Bioinformatics · doi:10.1093/bioinformatics/btu033 · Cited by 32,291
IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies
Nguyen, L.-T., Schmidt, H. A., von Haeseler, A., & Minh, B. Q. (2015) · Molecular Biology and Evolution · doi:10.1093/molbev/msu300 · Cited by 26,046
Guindon, S., Dufayard, J.-F., Lefort, V., Anisimova, M., Hordijk, W., & Gascuel, O. (2010) · Systematic Biology · doi:10.1093/sysbio/syq010 · Cited by 18,376
UFBoot2: Improving the Ultrafast Bootstrap Approximation
Hoang, D. T., Chernomor, O., von Haeseler, A., Minh, B. Q., & Vinh, L. S. (2018) · Molecular Biology and Evolution · doi:10.1093/molbev/msx281 · Cited by 10,881
Accelerated Profile HMM Searches
Eddy, S. R. (2011) · PLoS Computational Biology · doi:10.1371/journal.pcbi.1002195 · Cited by 6,975
Towards a natural system of organisms: proposal for the domains Archaea, Bacteria, and Eucarya.
Woese, C. R., Kandler, O., & Wheelis, M. L. (1990) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.87.12.4576 · Cited by 6,128
Phylogenetic structure of the prokaryotic domain: The primary kingdoms
Woese, C. R., & Fox, G. E. (1977) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.74.11.5088 · Cited by 4,131
An Improved General Amino Acid Replacement Matrix
Le, S. Q., & Gascuel, O. (2008) · Molecular Biology and Evolution · doi:10.1093/molbev/msn067 · Cited by 3,127
A new view of the tree of life
Hug, L. A., Baker, B. J., Anantharaman, K., Brown, C. T., Probst, A. J., Castelle, C. J., Butterfield, C. N., Hernsdorf, A. W., Amano, Y., Ise, K., et al. (2016) · Nature Microbiology · doi:10.1038/nmicrobiol.2016.48 · Cited by 2,039
Recovery of nearly 8,000 metagenome-assembled genomes substantially expands the tree of life
Parks, D. H., Rinke, C., Chuvochina, M., Chaumeil, P.-A., Woodcroft, B. J., Evans, P. N., Hugenholtz, P., & Tyson, G. W. (2017) · Nature Microbiology · doi:10.1038/s41564-017-0012-7 · Cited by 1,882
Criscuolo, A., & Gribaldo, S. (2010) · BMC Evolutionary Biology · doi:10.1186/1471-2148-10-210 · Cited by 1,667
Endosymbiotic gene transfer: organelle genomes forge eukaryotic chromosomes
Timmis, J. N., Ayliffe, M., Huang, C. Y., & Martin, W. F. (2004) · Nature Reviews Genetics · doi:10.1038/nrg1271 · Cited by 1,603
A Bayesian Mixture Model for Across-Site Heterogeneities in the Amino-Acid Replacement Process
Lartillot, N., & Philippe, H. (2004) · Molecular Biology and Evolution · doi:10.1093/molbev/msh112 · Cited by 1,516
Complex archaea that bridge the gap between prokaryotes and eukaryotes
Spang, A., Saw, J. H., Jørgensen, S. L., Zaremba-Niedzwiedzka, K., Martijn, J., Lind, A. E., van Eijk, R., Schleper, C., Guy, L., & Ettema, T. J. G. (2015) · Nature · doi:10.1038/nature14447 · Cited by 1,324
Asgard archaea illuminate the origin of eukaryotic cellular complexity
Zaremba-Niedzwiedzka, K., Caceres, E. F., Saw, J. H., Bäckström, D., Juzokaite, L., Vancaester, E., Seitz, K. W., Anantharaman, K., Starnawski, P., Kjeldsen, K. U., et al. (2017) · Nature · doi:10.1038/nature21031 · Cited by 1,226
A review of long-branch attraction
Bergsten, J. (2005) · Cladistics · doi:10.1111/j.1096-0031.2005.00059.x · Cited by 1,162
The Origin and Diversification of Mitochondria
Roger, A. J., Muñoz-Gómez, S. A., & Kamikawa, R. (2017) · Current Biology · doi:10.1016/j.cub.2017.09.015 · Cited by 1,142
Iwabe, N., Kuma, K., Hasegawa, M., Osawa, S., & Miyata, T. (1989) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.86.23.9355 · Cited by 902
Estimating the timing of early eukaryotic diversification with multigene molecular clocks
Parfrey, L. W., Lahr, D. J. G., Knoll, A. H., & Katz, L. A. (2011) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1110633108 · Cited by 899
Lartillot, N., Rodrigue, N., Stubbs, D., & Richer, J. (2013) · Systematic Biology · doi:10.1093/sysbio/syt022 · Cited by 871
Eukaryotic evolution, changes and challenges
Embley, T. M., & Martin, W. (2006) · Nature · doi:10.1038/nature04546 · Cited by 867
Self-citationEvolution of the vacuolar H+-ATPase: implications for the origin of eukaryotes.
Gogarten, J. P., Kibak, H., Dittrich, P., Taiz, L., Bowman, E. J., Bowman, B. J., Manolson, M. F., Poole, R. J., Date, T., Oshima, T., et al. (1989) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.86.17.6661 · Cited by 781
Is It Better to Add Taxa or Characters to a Difficult Phylogenetic Problem?
Graybeal, A. (1998) · Systematic Biology · doi:10.1080/106351598260996 · Cited by 745
Lartillot, N., Brinkmann, H., & Philippe, H. (2007) · BMC Evolutionary Biology · doi:10.1186/1471-2148-7-s1-s4 · Cited by 705
Major New Microbial Groups Expand Diversity and Alter our Understanding of the Tree of Life
Castelle, C. J., & Banfield, J. F. (2018) · Cell · doi:10.1016/j.cell.2018.02.016 · Cited by 595
Endosymbiotic theories for eukaryote origin
Martin, W. F., Garg, S., & Zimorski, V. (2015) · Philosophical Transactions of the Royal Society B: Biological Sciences · doi:10.1098/rstb.2014.0330 · Cited by 583
Archaea and the origin of eukaryotes
Eme, L., Spang, A., Lombard, J., Stairs, C. W., & Ettema, T. J. G. (2017) · Nature Reviews Microbiology · doi:10.1038/nrmicro.2017.133 · Cited by 575
Has the endosymbiont hypothesis been proven?
Gray, M. W., & Doolittle, W. F. (1982) · Microbiological Reviews · doi:10.1128/mr.46.1.1-42.1982 · Cited by 535
An archaeal origin of eukaryotes supports only two primary domains of life
Williams, T. A., Foster, P. G., Cox, C. J., & Embley, T. M. (2013) · Nature · doi:10.1038/nature12779 · Cited by 519
Self-citationHirt, R. P., Logsdon, J. M., Jr., Healy, B., Dorey, M. W., Doolittle, W. F., & Embley, T. M. (1999) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.96.2.580 · Cited by 518
Self-citationModeling compositional heterogeneity
Foster, P. G. (2004) · Systematic Biology · doi:10.1080/10635150490445779 · Cited by 474
Self-citationIntegrated genomic and fossil evidence illuminates life’s early evolution and eukaryote origin
Betts, H. C., Puttick, M. N., Clark, J. W., Williams, T. A., Donoghue, P. C. J., & Pisani, D. (2018) · Nature Ecology & Evolution · doi:10.1038/s41559-018-0644-x · Cited by 437
Self-citationThe archaebacterial origin of eukaryotes
Cox, C. J., Foster, P. G., Hirt, R. P., Harris, S. R., & Embley, T. M. (2008) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0810647105 · Cited by 395
Self-citationPaleobiological Perspectives on Early Eukaryotic Evolution
Knoll, A. H. (2014) · Cold Spring Harbor Perspectives in Biology · doi:10.1101/cshperspect.a016121 · Cited by 394
Root of the universal tree of life based on ancient aminoacyl-tRNA synthetase gene duplications.
Brown, J. R., & Doolittle, W. F. (1995) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.92.7.2441 · Cited by 379
The archaeal ‘TACK’ superphylum and the origin of eukaryotes
Guy, L., & Ettema, T. J. G. (2011) · Trends in Microbiology · doi:10.1016/j.tim.2011.09.002 · Cited by 372
The origin of the eukaryotic cell: A genomic investigation
Hartman, H., & Fedorov, A. N. (2002) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.032658599 · Cited by 336
The two-domain tree of life is linked to a new root for the Archaea
Raymann, K., Brochier‐Armanet, C., & Gribaldo, S. (2015) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1420858112 · Cited by 309
Resolution of Phylogenetic Conflict in Large Data Sets by Increased Taxon Sampling
Hedtke, S. M., Townsend, T. M., & Hillis, D. M. (2006) · Systematic Biology · doi:10.1080/10635150600697358 · Cited by 303
Eocytes: a new ribosome structure indicates a kingdom with a close relationship to eukaryotes.
Lake, J. A., Henderson, E. R., Oakes, M., & Clark, M. (1984) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.81.12.3786 · Cited by 296
Mathematical Elegance with Biochemical Realism: The Covarion Model of Molecular Evolution
Penny, D., McComish, B. J., Charleston, M. A., & Hendy, M. D. (2001) · Journal of Molecular Evolution · doi:10.1007/s002390010258 · Cited by 287
The Rooting of the Universal Tree of Life Is Not Reliable
Philippe, H., & Forterre, P. (1999) · Journal of Molecular Evolution · doi:10.1007/pl00006573 · Cited by 267
Trichomonas hydrogenosomes contain the NADH dehydrogenase module of mitochondrial complex I
Hrdy, I., Hirt, R. P., Dolezal, P., Bardonová, L., Foster, P. G., Tachezy, J., & Martin Embley, T. (2004) · Nature · doi:10.1038/nature03149 · Cited by 262
Self-citationRoch, S., & Steel, M. (2014) · Theoretical Population Biology · doi:10.1016/j.tpb.2014.12.005 · Cited by 252
Phylogenetic rooting using minimal ancestor deviation
Tria, F. D. K., Landan, G., & Dagan, T. (2017) · Nature Ecology & Evolution · doi:10.1038/s41559-017-0193 · Cited by 241
Efficient Exploration of the Space of Reconciled Gene Trees
Szöllősi, G. J., Rosikiewicz, W., Boussau, B., Tannier, É., & Daubin, V. (2013) · Systematic Biology · doi:10.1093/sysbio/syt054 · Cited by 234
Self-citationIntegrative modeling of gene and genome evolution roots the archaeal tree of life
Williams, T. A., Szöllősi, G. J., Spang, A., Foster, P. G., Heaps, S. E., Boussau, B., Ettema, T. J. G., & Embley, T. M. (2017) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1618463114 · Cited by 233
Self-citationPhylogeny determined by protein domain content
Yang, S. Y., Doolittle, R. F., & Bourne, P. E. (2005) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0408810102 · Cited by 232
Early evolution of the Eukaryota
Butterfield, N. J. F. (2014) · Palaeontology · doi:10.1111/pala.12139 · Cited by 225
Rooting the tree of life by transition analyses.
Cavalier‐Smith, T. (2006) · Biology Direct · doi:10.1186/1745-6150-1-19 · Cited by 224
Genomics and the Irreducible Nature of Eukaryote Cells
Kurland, C. G., Collins, L. J., & Penny, D. (2006) · Science · doi:10.1126/science.1121674 · Cited by 220
Cunha, V. D., Gaïa, M., Gadelle, D., Nasir, A., & Forterre, P. (2017) · PLoS Genetics · doi:10.1371/journal.pgen.1006810 · Cited by 216
ASTRAL-III: Increased Scalability and Impacts of Contracting Low Support Branches
Zhang, C., Sayyari, E., & Mirarab, S. (2017) · Lecture notes in computer science · doi:10.1007/978-3-319-67979-2_4 · Cited by 215
Bayesian Model Adequacy and Choice in Phylogenetics
Bollback, J. P. (2002) · Molecular Biology and Evolution · doi:10.1093/oxfordjournals.molbev.a004175 · Cited by 215
Standardized benchmarking in the quest for orthologs
Quest for Orthologs consortium, Altenhoff, A. M., Boeckmann, B., Capella-Gutierrez, S., Dalquen, D. A., DeLuca, T., Forslund, K., Huerta-Cepas, J., Linard, B., Pereira, C., et al. (2016) · Nature Methods · doi:10.1038/nmeth.3830 · Cited by 214
GHOST: Recovering Historical Signal from Heterotachously Evolved Sequence Alignments
Crotty, S., Minh, B. Q., Bean, N. G., Holland, B. R., Tuke, J., Jermiin, L. S., & von Haeseler, A. (2019) · Systematic Biology · doi:10.1093/sysbio/syz051 · Cited by 206
Spang, A., Stairs, C. W., Dombrowski, N., Eme, L., Lombard, J., Caceres, E. F., Greening, C., Baker, B. J., & Ettema, T. J. G. (2019) · Nature Microbiology · doi:10.1038/s41564-019-0406-9 · Cited by 200
Mayr, E. (1998) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.95.17.9720 · Cited by 183
Algorithm of OMA for large-scale orthology inference
Roth, A. C., Gonnet, G. H., & Dessimoz, C. (2008) · BMC Bioinformatics · doi:10.1186/1471-2105-9-518 · Cited by 181
On Reduced Amino Acid Alphabets for Phylogenetic Inference
Susko, E., & Roger, A. J. (2007) · Molecular Biology and Evolution · doi:10.1093/molbev/msm144 · Cited by 177
Brochier‐Armanet, C., Gribaldo, S., Zivanovic, Y., Confalonieri, F., & Forterre, P. (2005) · Genome biology · doi:10.1186/gb-2005-6-5-r42 · Cited by 168
An Evolutionarily Structured Universe of Protein ArchitecturePreprint
Caetano‐Anollés, G., & Caetano-Anollés, D. (2003) · Genome Research · doi:10.1101/gr.1161903 · Cited by 165
A congruent phylogenomic signal places eukaryotes within the Archaea
Williams, T. A., Foster, P. G., Nye, T. M. W., Cox, C. J., & Embley, T. M. (2012) · Proceedings of the Royal Society B Biological Sciences · doi:10.1098/rspb.2012.1795 · Cited by 153
Self-citationThe hybrid nature of the Eukaryota and a consilient view of life on Earth
McInerney, J. O., O’Connell, M. J., & Pisani, D. (2014) · Nature Reviews Microbiology · doi:10.1038/nrmicro3271 · Cited by 141
From archaeon to eukaryote: the evolutionary dark ages of the eukaryotic cell
Martijn, J., & Ettema, T. J. G. (2013) · Biochemical Society Transactions · doi:10.1042/bst20120292 · Cited by 126
Asgard archaea are the closest prokaryotic relatives of eukaryotes
Spang, A., Eme, L., Saw, J. H. W., Caceres, E., Zaremba-Niedźwiedzka, K., Lombard, J., Guy, L., & Ettema, T. J. G. (2018) · PLoS Genetics · doi:10.1371/journal.pgen.1007080 · Cited by 125
The primary divisions of life: a phylogenomic approach employing composition-heterogeneous methods
Foster, P. G., Cox, C. J., & Embley, T. M. (2009) · Philosophical Transactions of the Royal Society B Biological Sciences · doi:10.1098/rstb.2009.0034 · Cited by 124
Self-citationSteel, M., & Rodrigo, A. G. (2008) · Systematic Biology · doi:10.1080/10635150802033014 · Cited by 121
Brochier‐Armanet, C., Forterre, P., & Gribaldo, S. (2004) · Genome biology · doi:10.1186/gb-2004-5-3-r17 · Cited by 115
Archaeal “Dark Matter” and the Origin of Eukaryotes
Williams, T. A., & Embley, T. M. (2014) · Genome Biology and Evolution · doi:10.1093/gbe/evu031 · Cited by 103
Self-citationRooting the tree of life: the phylogenetic jury is still out
Gouy, R., Baurain, D., & Philippe, H. (2015) · Philosophical Transactions of the Royal Society B: Biological Sciences · doi:10.1098/rstb.2014.0329 · Cited by 96
Asgard archaea do not close the debate about the universal tree of life topology
Cunha, V. D., Gaïa, M., Nasir, A., & Forterre, P. (2018) · PLoS Genetics · doi:10.1371/journal.pgen.1007215 · Cited by 93
Roch, S., Nute, M., & Warnow, T. J. (2018) · Systematic Biology · doi:10.1093/sysbio/syy061 · Cited by 92
GHOST: Recovering Historical Signal from Heterotachously-evolved Sequence AlignmentsPreprint
Crotty, S., Minh, B. Q., Bean, N. G., et al. (2017) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/174789 · Cited by 81
Ancient gene duplications and the root(s) of the tree of life
Zhaxybayeva, O., Lapierre, P., & Gogarten, J. P. (2005) · PROTOPLASMA · doi:10.1007/s00709-005-0135-1 · Cited by 77
Genome beginnings: rooting the tree of life
Lake, J. A., Skophammer, R. G., Herbold, C. W., & Servin, J. A. (2009) · Philosophical Transactions of the Royal Society B Biological Sciences · doi:10.1098/rstb.2009.0035 · Cited by 74
A Nonstationary Markov Model Detects Directional Evolution in Hymenopteran Morphology
Klopfstein, S., Vilhelmsen, L., & Ronquist, F. (2015) · Systematic Biology · doi:10.1093/sysbio/syv052 · Cited by 72
Rooting the Ribosomal Tree of Life
Fournier, G. P., & Gogarten, J. P. (2010) · Molecular Biology and Evolution · doi:10.1093/molbev/msq057 · Cited by 72
Tourasse, N. J., & Gouy, M. (1999) · Molecular Phylogenetics and Evolution · doi:10.1006/mpev.1999.0675 · Cited by 68
Arguments Reinforcing the Three-Domain View of Diversified Cellular Life
Nasir, A., Kim, K. M., Cunha, V. D., & Caetano‐Anollés, G. (2016) · Archaea · doi:10.1155/2016/1851865 · Cited by 62
New substitution models for rooting phylogenetic trees
Williams, T. A., Heaps, S. E., Cherlin, S., Nye, T. M. W., Boys, R. J., & Embley, T. M. (2015) · Philosophical Transactions of the Royal Society B: Biological Sciences · doi:10.1098/rstb.2014.0336 · Cited by 61
Self-citationImplementing and testing Bayesian and maximum-likelihood supertree methods in phylogenetics
Akanni, W. A., Wilkinson, M., Creevey, C. J., Foster, P. G., & Pisani, D. (2015) · Royal Society Open Science · doi:10.1098/rsos.140436 · Cited by 55
Self-citationNarrowe, A. B., Spang, A., Stairs, C. W., Caceres, E., Baker, B. J., Miller, C. S., & Ettema, T. J. G. (2018) · Genome Biology and Evolution · doi:10.1093/gbe/evy154 · Cited by 42
Spatial and Temporal Heterogeneity in Nucleotide Sequence Evolution
Whelan, S. (2008) · Molecular Biology and Evolution · doi:10.1093/molbev/msn119 · Cited by 40
Zhou, Y., Brinkmann, H., Rodrigue, N., Lartillot, N., & Philippe, H. (2009) · Molecular Biology and Evolution · doi:10.1093/molbev/msp248 · Cited by 35
Akaryotes and Eukaryotes are independent descendants of a universal common ancestor
Harish, A., & Kurland, C. G. (2017) · Biochimie · doi:10.1016/j.biochi.2017.04.013 · Cited by 33
Empirical genome evolution models root the tree of life
Harish, A., & Kurland, C. G. (2017) · Biochimie · doi:10.1016/j.biochi.2017.04.014 · Cited by 33
Changing ideas about eukaryotic origins
Williams, T. A., & Embley, T. M. (2015) · Philosophical Transactions of the Royal Society B Biological Sciences · doi:10.1098/rstb.2014.0318 · Cited by 27
Self-citationEfficient Exploration of the Space of Reconciled Gene TreesPreprint
Szöllősi, G. J., Rosikiewicz, W., Boussau, B., Tannier, É., & Daubin, V. (2013) · arXiv (Cornell University) · doi:10.48550/arxiv.1306.2167 · Cited by 27
Self-citationGaïa, M., Cunha, V. D., & Forterre, P. (2018) · Grand challenges in biology and biotechnology · doi:10.1007/978-3-319-69078-0_3 · Cited by 16
The Effect of Nonreversibility on Inferring Rooted Phylogenies
Cherlin, S., Heaps, S., Nye, T., Boys, R., Williams, T., & Embley, T. (2015) · Molecular biology and evolution · doi:10.1093/molbev/msx294 · Cited by 12
Self-citationNarrowe, A. B., Spang, A., Stairs, C. W., et al. (2018) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/262600 · Cited by 7
Data from "Phylogenomics provides robust support for a two-domains tree of life"
Williams, T. (2019) · Figshare · doi:10.6084/m9.figshare.8950859 · Cited by 1
Self-citation
Cited by
Sorted by citations
MEGA12: Molecular Evolutionary Genetic Analysis Version 12 for Adaptive and Green Computing
Kumar, S., Stecher, G., Suleski, M., Sanderford, M. D., Sharma, S., & Tamura, K. (2024) · Molecular Biology and Evolution · doi:10.1093/molbev/msae263 · Cited by 2,582
Innovations to culturing the uncultured microbial majority
Lewis, W. H., Tahon, G., Geesink, P., Sousa, D. Z., & Ettema, T. J. G. (2020) · Nature Reviews Microbiology · doi:10.1038/s41579-020-00458-8 · Cited by 639
Expanded diversity of Asgard archaea and their relationships with eukaryotes
Liu, Y., Makarova, K. S., Huang, W.-C., Wolf, Y. I., Nikolskaya, A. N., Zhang, X., Cai, M., Zhang, C., Xu, W., Luo, Z.-H., et al. (2021) · Nature · doi:10.1038/s41586-021-03494-3 · Cited by 338
Integrated phylogenomics and fossil data illuminate the evolution of beetles
Cai, C., Tihelka, E., Giacomelli, M., Lawrence, J. F., Ślipiński, A., Kundrata, R., Yamamoto, S., Thayer, M. K., Newton, A. F., Leschen, R. A. B., et al. (2022) · Royal Society Open Science · doi:10.1098/rsos.211771 · Cited by 289
Incongruence in the phylogenomics era
Steenwyk, J. L., Li, Y., Zhou, X., Shen, X., & Rokas, A. (2023) · Nature Reviews Genetics · doi:10.1038/s41576-023-00620-x · Cited by 292
Metadata
- Authors
- Williams, T. A., Cox, C. J., Foster, P. G., Szöllősi, G. J., & Embley, T. M.
- Affiliations
- University of Bristol (GB)
- University of Algarve (PT)
- Natural History Museum (GB)
- Eötvös Loránd University (HU)
- Newcastle University (GB)
- Corresponding author
- Williams, Tom A.
- Embley, T. Martin
- Venue
- Nature Ecology & Evolution
- Published
- 2019-12-09
- Volume
- 4
- Issue
- 1
- Pages
- 138-147
- ISSN
- 2397-334X (ISSN-L)
- PMC
- PMC6942926
- OpenAlex
- W2993939447
- Cited by
- 274
- References
- 93
- Citations by year
- 2026: 20 · 2025: 36 · 2024: 38 · 2023: 31 · 2022: 57 · 2021: 48 · 2020: 41 · 2019: 3
- FWCI
- 12.32
- Type
- journal article
- Language
- en
- Update notices
- correction (2020-10-19)
- Open access
- green
- www.ncbi.nlm.nih.gov
- Licence
- Locations
- Nature Ecology & Evolution (publishedVersion)
- PubMed (publishedVersion)
- PubMed Central (acceptedVersion)
- Bristol Research (University of Bristol) (submittedVersion, other-oa)
- Portuguese National Funding Agency for Science, Research and Technology (RCAAP Project by FCT) (submittedVersion)
- Newcastle University ePrints (Newcastle Univesity)
- Funders
- Natural Environment Research Council (NE/P00251X/1, NE/M015831/1)
- Topics
- Life Sciences › Agricultural and Biological Sciences › Ecology, Evolution, Behavior and Systematics › Protist diversity and phylogeny
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
- Physical Sciences › Physics and Astronomy › Astronomy and Astrophysics › Origins and Evolution of Life
- Keywords
- eukaryotic origin, archaea, eukaryotes, Asgard archaea, coalescent methods, gene family phylogeny
- MeSH terms
- Archaea, Eukaryotic Cells, Phylogeny, Genomics, Eukaryota
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
