Complex archaea that bridge the gap between prokaryotes and eukaryotes
Open accessAbstract
The origin of the eukaryotic cell remains one of the most contentious puzzles in modern biology. Recent studies have provided support for the emergence of the eukaryotic host cell from within the archaeal domain of life, but the identity and nature of the putative archaeal ancestor remain a subject of debate. Here we describe the discovery of 'Lokiarchaeota', a novel candidate archaeal phylum, which forms a monophyletic group with eukaryotes in phylogenomic analyses, and whose genomes encode an expanded repertoire of eukaryotic signature proteins that are suggestive of sophisticated membrane remodelling capabilities. Our results provide strong support for hypotheses in which the eukaryotic host evolved from a bona fide archaeon, and demonstrate that many components that underpin eukaryote-specific features were already present in that ancestor. This provided the host with a rich genomic 'starter-kit' to support the increase in the cellular and genomic complexity that is characteristic of eukaryotes.
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
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?
Asgard archaea form a monophyletic group with Eukaryotes in phylogenetic analyses and encode various eukaryotic signature proteins.
“a scenario that has gained recent support from the discovery of the Asgard archaea, which form a monophyletic group with Eukaryotes in phylogenetic analyses and encode various eukaryotic signature proteins (Spang et al. 2015;Zaremba-Niedzwiedzka et al. 2017;Eme et al. 2018).”
From The Emergence of Life (2019) · cites this paper as Spang et al. 2015
In ‘A “complex” archaeal ancestor of Eukarya,’ the paper reports that Lokiarchaeota form a monophyletic group with eukaryotes in phylogenomic analyses and that the Lokiarchaeum genome contains numerous eukaryotic signature proteins. The cited paper establishes these points for Lokiarchaeota, not for Asgard archaea as a whole. (LLM, conf=0.86)
Experimental — accuracy not yet measuredATP synthase evolution supports scenarios on eukaryotic origins from an asgardarchaeal host and an alphaproteobacterial symbiont.
“Furthermore, ATP synthase evolution supports scenarios on eukaryotic origins from an asgardarchaeal host3,4,13,14 and alphaproteobacterial symbiont107,108”
From ATP synthase evolution on a cross-braced dated tree of life (2023) · cites this paper as [3]
The Abstract and “A ‘complex’ archaeal ancestor of Eukarya” support an archaeal host for eukaryotic origins, based on Lokiarchaeota phylogenomics and genome content. The citation is attached to the host portion of the sentence, not the alphaproteobacterial symbiont portion. Our copy does not attribute that support to ATP synthase evolution; searches for ATP synthase yielded no relevant passage. (LLM, conf=0.86)
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.
Cites
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
Altschul, S. (1997) · Nucleic Acids Research · doi:10.1093/nar/25.17.3389 · Cited by 73,302 · see citing works
Trimmomatic: a flexible trimmer for Illumina sequence data
Bolger, A. M., Lohse, M., & Usadel, B. (2014) · Bioinformatics · doi:10.1093/bioinformatics/btu170 · Cited by 65,548 · see citing works
Fast and accurate short read alignment with Burrows-Wheeler transform
Li, H., & Durbin, R. (2009) · Bioinformatics · doi:10.1093/bioinformatics/btp324 · Cited by 58,607 · see citing works
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 · see citing works
The SILVA ribosomal RNA gene database project: improved data processing and web-based tools
Quast, C., Pruesse, E., Yilmaz, P., Gerken, J., Schweer, T., Yarza, P., Peplies, J., & Glöckner, F. O. (2012) · Nucleic Acids Research · doi:10.1093/nar/gks1219 · Cited by 33,055 · see citing works
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 · see citing works
SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing
Bankevich, A., Nurk, S., Antipov, D., Gurevich, A. A., Dvorkin, M. V., Kulikov, A. S., Lesin, V. M., Nikolenko, S., Pham, S., Prjibelski, A. D., et al. (2012) · Journal of Computational Biology · doi:10.1089/cmb.2012.0021 · Cited by 25,691 · see citing works
Schloss, P. D., Westcott, S. L., Ryabin, T., Hall, J. R., Hartmann, M., Hollister, E. B., Lesniewski, R. A., Oakley, B. B., Parks, D. H., Robinson, C. J., et al. (2009) · Applied and Environmental Microbiology · doi:10.1128/aem.01541-09 · Cited by 20,966 · see citing works
Search and clustering orders of magnitude faster than BLAST
Edgar, R. C. (2010) · Bioinformatics · doi:10.1093/bioinformatics/btq461 · Cited by 20,617 · see citing works
Prokka: rapid prokaryotic genome annotation
Seemann, T. (2014) · Bioinformatics · doi:10.1093/bioinformatics/btu153 · Cited by 18,512 · see citing works
UPARSE: highly accurate OTU sequences from microbial amplicon reads
Edgar, R. C. (2013) · Nature Methods · doi:10.1038/nmeth.2604 · Cited by 16,587 · see citing works
Modern Applied Statistics with S
Venables, W., & Ripley, B. (2010) · Statisctics and computing/Statistics and computing · doi:10.1007/978-0-387-21706-2 · Cited by 16,188 · see citing works
UCHIME improves sensitivity and speed of chimera detection
Edgar, R. C., Haas, B. J., Clemente, J. C., Quince, C., & Knight, R. (2011) · Bioinformatics · doi:10.1093/bioinformatics/btr381 · Cited by 15,114 · see citing works
Prodigal: prokaryotic gene recognition and translation initiation site identification
Hyatt, D., Chen, G.-L., LoCascio, P. F., Land, M., Larimer, F. W., & Hauser, L. (2010) · BMC Bioinformatics · doi:10.1186/1471-2105-11-119 · Cited by 12,426 · see citing works
trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses
Capella-Gutiérrez, S., Silla-Martinez, J., & Gabaldón, T. (2009) · Bioinform. · doi:10.1093/bioinformatics/btp348 · Cited by 12,052 · see citing works
tRNAscan-SE: A Program for Improved Detection of Transfer RNA Genes in Genomic Sequence
Lowe, T. M., & Eddy, S. R. (1997) · Nucleic Acids Research · doi:10.1093/nar/25.5.955 · Cited by 11,120 · see citing works
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 · see citing works
RNAmmer: consistent and rapid annotation of ribosomal RNA genes
Lagesen, K., Hallin, P., Rødland, E., Stærfeldt, H., Rognes, T., & Ussery, D. (2007) · Nucleic Acids Research · doi:10.1093/nar/gkm160 · Cited by 5,965 · see citing works
Gouy, M., Guindon, S., & Gascuel, O. (2009) · Molecular Biology and Evolution · doi:10.1093/molbev/msp259 · Cited by 5,820 · see citing works
Cellular Motility Driven by Assembly and Disassembly of Actin Filaments
Pollard, T. D., & Borisy, G. G. (2003) · Cell · doi:10.1016/s0092-8674(03)00120-x · Cited by 4,203 · see citing works
Protein structure prediction on the Web: a case study using the Phyre server
Kelley, L. A., & Sternberg, M. J. E. (2009) · Nature Protocols · doi:10.1038/nprot.2009.2 · Cited by 4,154 · see citing works
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 · see citing works
MEGAN analysis of metagenomic dataPreprint
Huson, D. H., Auch, A. F., Qi, J., & Schuster, S. C. (2007) · Genome Research · doi:10.1101/gr.5969107 · Cited by 3,293 · see citing works
SINA: Accurate high-throughput multiple sequence alignment of ribosomal RNA genes
Pruesse, E., Peplies, J., & Glöckner, F. (2012) · Bioinform. · doi:10.1093/bioinformatics/bts252 · Cited by 2,989 · see citing works
InterProScan: protein domains identifier
Quévillon, E., Silventoinen, V., Pillai, S., Harte, N., Mulder, N., Apweiler, R., & López, R. (2005) · Nucleic Acids Research · doi:10.1093/nar/gki442 · Cited by 2,976 · see citing works
InterProScan – an integration platform for the signature-recognition methods in InterPro
Zdobnov, E. M., & Apweiler, R. (2001) · Bioinformatics · doi:10.1093/bioinformatics/17.9.847 · Cited by 2,915 · see citing works
An approximately unbiased test of phylogenetic tree selection
Shimodaira, H. (2002) · Systematic Biology · doi:10.1080/10635150290069913 · Cited by 2,791 · see citing works
Takai, Y., Sasaki, T., & Matozaki, T. (2001) · Physiological Reviews · doi:10.1152/physrev.2001.81.1.153 · Cited by 2,481 · see citing works
Insights into the phylogeny and coding potential of microbial dark matter
Rinke, C., Schwientek, P., Sczyrba, A., Ivanova, N. N., Anderson, I. J., Cheng, J.-F., Darling, A., Malfatti, S., Swan, B. K., Gies, E. A., et al. (2013) · Nature · doi:10.1038/nature12352 · Cited by 2,394 · see citing works
Actin, a Central Player in Cell Shape and Movement
Pollard, T. D., & Cooper, J. A. (2009) · Science · doi:10.1126/science.1175862 · Cited by 2,094 · see citing works
Complete Genome Sequence of the Methanogenic Archaeon, Methanococcus jannaschii
Bult, C. J., White, O. R., Olsen, G. J., Zhou, L., Fleischmann, R. D., Sutton, G. G., Blake, J. A., Fitzgerald, L. M., Clayton, R. A., Gocayne, J. D., et al. (1996) · Science · doi:10.1126/science.273.5278.1058 · Cited by 2,086 · see citing works
CONSEL: for assessing the confidence of phylogenetic tree selection
Shimodaira, H., & Hasegawa, M. (2001) · Bioinformatics · doi:10.1093/bioinformatics/17.12.1246 · Cited by 2,051 · see citing works
DendroPy: a Python library for phylogenetic computing
Sukumaran, J., & Holder, M. T. (2010) · Bioinformatics · doi:10.1093/bioinformatics/btq228 · Cited by 1,637 · see citing works
Interactive Tree Of Life v2: online annotation and display of phylogenetic trees made easy
Letunić, I., & Peer Bork, B. (2011) · Nucleic Acids Research · doi:10.1093/nar/gkr201 · Cited by 1,462 · see citing works
The ESCRT machinery in endosomal sorting of ubiquitylated membrane proteins
Raiborg, C., & Stenmark, H. (2009) · Nature · doi:10.1038/nature07961 · Cited by 1,408 · see citing works
A phylogeny-driven genomic encyclopaedia of Bacteria and Archaea
Wu, D., Hugenholtz, P., Mavromatis, K., Pukall, R., Dalin, E., Ivanova, N., Kunin, V., Goodwin, L., Wu, M., Tindall, B. J., et al. (2009) · Nature · doi:10.1038/nature08656 · Cited by 998 · see citing works
Novel Division Level Bacterial Diversity in a Yellowstone Hot Spring
Hugenholtz, P., Pitulle, C., Hershberger, K. L., & Pace, N. R. (1998) · Journal of Bacteriology · doi:10.1128/jb.180.2.366-376.1998 · Cited by 891 · see citing works
Lartillot, N., Rodrigue, N., Stubbs, D., & Richer, J. (2013) · Systematic Biology · doi:10.1093/sysbio/syt022 · Cited by 871 · see citing works
Eukaryotic evolution, changes and challenges
Embley, T. M., & Martin, W. (2006) · Nature · doi:10.1038/nature04546 · Cited by 867 · see citing works
The Newick utilities: high-throughput phylogenetic tree processing in the U nix shell
Junier, T., & Zdobnov, E. M. (2010) · Bioinformatics · doi:10.1093/bioinformatics/btq243 · Cited by 802 · see citing works
genoPlotR: comparative gene and genome visualization in R
Guy, L., Kultima, J. R., & Andersson, S. G. E. (2010) · Bioinformatics · doi:10.1093/bioinformatics/btq413 · Cited by 664 · see citing works
Self-citationeggNOG v4.0: nested orthology inference across 3686 organisms
Powell, S., Forslund, K., Szklarczyk, D., Trachana, K., Roth, A., Huerta-Cepas, J., Gabaldón, T., Rattei, T., Creevey, C., Kuhn, M., et al. (2014) · Nucleic Acids Research · doi:10.1093/nar/gkt1253 · Cited by 652 · see citing works
Genomic evidence for two functionally distinct gene classes
Rivera, M. C., Jain, R., Moore, J. E., & Lake, J. A. (1998) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.95.11.6239 · Cited by 544 · see citing works
Phymm and PhymmBL: metagenomic phylogenetic classification with interpolated Markov models
Brady, A., & Salzberg, S. L. (2009) · Nature Methods · doi:10.1038/nmeth.1358 · Cited by 526 · see citing works
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 · see citing works
Vetriani, C., Jannasch, H. W., MacGregor, B. J., Stahl, D. A., & Reysenbach, A. (1999) · Applied and Environmental Microbiology · doi:10.1128/aem.65.10.4375-4384.1999 · Cited by 458 · see citing works
Inagaki, F., Suzuki, M., Takai, K., Oida, H., Sakamoto, T., Aoki, K., Nealson, K. H., & Horikoshi, K. (2003) · Applied and Environmental Microbiology · doi:10.1128/aem.69.12.7224-7235.2003 · Cited by 443 · see citing works
MaGe: a microbial genome annotation system supported by synteny results
Vallenet, D. (2006) · Nucleic Acids Research · doi:10.1093/nar/gkj406 · Cited by 399 · see citing works
The 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 381 · see citing works
Hurley, J. H. (2010) · Critical Reviews in Biochemistry and Molecular Biology · doi:10.3109/10409238.2010.502516 · Cited by 347 · see citing works
A unique cell division machinery in the Archaea
Lindås, A., Karlsson, E. A., Lindgren, M. T., Ettema, T. J. G., & Bernander, R. (2008) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0809467105 · Cited by 345 · see citing works
Self-citationThe origin and early evolution of eukaryotes in the light of phylogenomics
Koonin, E. V. (2010) · Genome Biology · doi:10.1186/gb-2010-11-5-209 · Cited by 345 · see citing works
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 344 · see citing works
Self-citationThe 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 · see citing works
Origin of the eukaryotic nucleus determined by rate-invariant analysis of rRNA sequences
Lake, J. A. (1988) · Nature · doi:10.1038/331184a0 · Cited by 325 · see citing works
Jørgensen, S. L., Hannisdal, B., Lanzén, A., Baumberger, T., Flesland, K., Fonseca, R., Øvreås, L., Steen, I. H., Thorseth, I. H., Pedersen, R. B., et al. (2012) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1207574109 · Cited by 315 · see citing works
Self-citationNunoura, T., Takaki, Y., Kakuta, J., Nishi, S., Sugahara, J., Kazama, H., Chee, G.-J., Hattori, M., Kanai, A., Atomi, H., et al. (2010) · Nucleic Acids Research · doi:10.1093/nar/gkq1228 · Cited by 291 · see citing works
Evolution of the Multivesicular Body ESCRT Machinery; Retention Across the Eukaryotic Lineage
Leung, K. F., Dacks, J. B., & Field, M. C. (2008) · Traffic · doi:10.1111/j.1600-0854.2008.00797.x · Cited by 282 · see citing works
Origins of major archaeal clades correspond to gene acquisitions from bacteria
Sathi, S. N., Sousa, F. L., Roettger, M., Lozada‐Chávez, A. N., Thiergart, T., Janssen, A., Bryant, D., Landan, G., Schönheit, P., Siebers, B., et al. (2014) · Nature · doi:10.1038/nature13805 · Cited by 255 · see citing works
Phylogenomics of Prokaryotic Ribosomal Proteins
Yutin, N., Puigbò, P., Koonin, E. V., & Wolf, Y. I. (2012) · PLoS ONE · doi:10.1371/journal.pone.0036972 · Cited by 253 · see citing works
The origins of phagocytosis and eukaryogenesis
Yutin, N., Wolf, M. Y., Wolf, Y. I., & Koonin, E. V. (2009) · Biology Direct · doi:10.1186/1745-6150-4-9 · Cited by 247 · see citing works
Pühler, G., Leffers, H. C. B., Gropp, F., Palm, P., Klenk, H., Lottspeich, F., Garrett, R. A., & Zillig, W. (1989) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.86.12.4569 · Cited by 246 · see citing works
Molecular paleontology and complexity in the last eukaryotic common ancestor
Koumandou, V. L., Wickstead, B., Ginger, M. L., van der Giezen, M., Dacks, J. B., & Field, M. C. (2013) · Critical Reviews in Biochemistry and Molecular Biology · doi:10.3109/10409238.2013.821444 · Cited by 231 · see citing works
Evolution of diverse cell division and vesicle formation systems in Archaea
Makarova, K. S., Yutin, N., Bell, S. D., & Koonin, E. V. (2010) · Nature Reviews Microbiology · doi:10.1038/nrmicro2406 · Cited by 228 · see citing works
Kristensen, D. M., Kannan, L., Coleman, M. K., Wolf, Y. I., Sorokin, A. V., Koonin, E. V., & Mushegian, A. R. (2010) · Bioinformatics · doi:10.1093/bioinformatics/btq229 · Cited by 223 · see citing works
Discovery of a black smoker vent field and vent fauna at the Arctic Mid-Ocean Ridge
Pedersen, R. B., Rapp, H. T., Thorseth, I. H., Lilley, M. D., Barriga, F., Baumberger, T., Flesland, K., Fonseca, R., Früh‐Green, G. L., & Jørgensen, S. L. (2010) · Nature Communications · doi:10.1038/ncomms1124 · Cited by 217 · see citing works
Self-citationThe Deep Archaeal Roots of Eukaryotes
Yutin, N., Makarova, K. S., Mekhedov, S., Wolf, Y. I., & Koonin, E. V. (2008) · Molecular Biology and Evolution · doi:10.1093/molbev/msn108 · Cited by 181 · see citing works
Thiergart, T., Landan, G., Schenk, M., Dagan, T., & Martin, W. F. (2012) · Genome Biology and Evolution · doi:10.1093/gbe/evs018 · Cited by 170 · see citing works
Wolf, Y. I., Makarova, K. S., Yutin, N., & Koonin, E. V. (2012) · Biology Direct · doi:10.1186/1745-6150-7-46 · Cited by 166 · see citing works
An actin‐based cytoskeleton in archaea
Ettema, T. J. G., Lindås, A., & Bernander, R. (2011) · Molecular Microbiology · doi:10.1111/j.1365-2958.2011.07635.x · Cited by 166 · see citing works
Self-citationThe origin of eukaryotes and their relationship with the Archaea: are we at a phylogenomic impasse?
Gribaldo, S., Poole, A. M., Daubin, V., Forterre, P., & Brochier‐Armanet, C. (2010) · Nature Reviews Microbiology · doi:10.1038/nrmicro2426 · Cited by 159 · see citing works
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 148 · see citing works
The 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 138 · see citing works
Independent Genome Reduction and Phylogenetic Reclassification of the Oceanic SAR11 Clade
Viklund, J., Ettema, T. J. G., & Andersson, S. G. E. (2011) · Molecular Biology and Evolution · doi:10.1093/molbev/msr203 · Cited by 130 · see citing works
Self-citationFrom 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 123 · see citing works
Self-citationField, M. C., & Dacks, J. B. (2009) · Current Opinion in Cell Biology · doi:10.1016/j.ceb.2008.12.004 · Cited by 122 · see citing works
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 120 · see citing works
Molecular evolution of the actin family
Goodson, H. V., & Hawse, W. F. (2002) · Journal of Cell Science · doi:10.1242/jcs.115.13.2619 · Cited by 119 · see citing works
The Dispersed Archaeal Eukaryome and the Complex Archaeal Ancestor of EukaryotesPreprint
Koonin, E. V., & Yutin, N. (2014) · Cold Spring Harbor Perspectives in Biology · doi:10.1101/cshperspect.a016188 · Cited by 116 · see citing works
Structural and Functional Organization of the ESCRT-I Trafficking Complex
Kostelansky, M. S., Sun, J., Lee, S., Kim, J., Ghirlando, R., Hierro, A., Emr, S. D., & Hurley, J. H. (2006) · Cell · doi:10.1016/j.cell.2006.01.049 · Cited by 115 · see citing works
Eukaryotic Origins: How and When Was the Mitochondrion Acquired?Preprint
Poole, A. M., & Gribaldo, S. (2014) · Cold Spring Harbor Perspectives in Biology · doi:10.1101/cshperspect.a015990 · Cited by 113 · see citing works
Zhang, Y. E., Franco, M., Ducret, A., & Mignot, T. (2010) · PLoS Biology · doi:10.1371/journal.pbio.1000430 · Cited by 101 · see citing works
Yutin, N., & Koonin, E. V. (2012) · Biology Direct · doi:10.1186/1745-6150-7-10 · Cited by 100 · see citing works
Deschamps, P., Zivanovic, Y., Moreira, D., Rodríguez‐Valera, F., & López‐García, P. (2014) · Genome Biology and Evolution · doi:10.1093/gbe/evu127 · Cited by 100 · see citing works
Durbin, A. M., & Teske, A. (2012) · Frontiers in Microbiology · doi:10.3389/fmicb.2012.00168 · Cited by 94 · see citing works
Phylogenomic Test of the Hypotheses for the Evolutionary Origin of Eukaryotes
Rochette, N. C., Brochier‐Armanet, C., & Gouy, M. (2014) · Molecular Biology and Evolution · doi:10.1093/molbev/mst272 · Cited by 82 · see citing works
The Archaeal Legacy of Eukaryotes: A Phylogenomic Perspective
Guy, L., Saw, J. H., & Ettema, T. J. G. (2014) · Cold Spring Harbor Perspectives in Biology · doi:10.1101/cshperspect.a016022 · Cited by 65 · see citing works
Self-citationKawai, M., Futagami, T., Toyoda, A., Takaki, Y., Nishi, S., Hori, S., Arai, W., Tsubouchi, T., Morono, Y., Uchiyama, I., et al. (2014) · Frontiers in Microbiology · doi:10.3389/fmicb.2014.00080 · Cited by 64 · see citing works
The effects of model choice and mitigating bias on the ribosomal tree of life
Lasek‐Nesselquist, E., & Gogarten, J. P. (2013) · Molecular Phylogenetics and Evolution · doi:10.1016/j.ympev.2013.05.006 · Cited by 63 · see citing works
SPLITS: A New Program for Predicting Split and Intron-Containing tRNA Genes at the Genome Level
Sugahara, J., Yachie, N., Sekine, Y., Soma, A., Matsui, M., Tomita, M., & Kanai, A. (2006) · In Silico Biology · doi:10.3233/isb-00254 · Cited by 53 · see citing works
Jørgensen, S. L., Thorseth, I. H., Pedersen, R. B., Baumberger, T., & Schleper, C. (2013) · Frontiers in Microbiology · doi:10.3389/fmicb.2013.00299 · Cited by 53 · see citing works
Self-citationDong, J.-H., Wen, J.-F., & Tian, H.-F. (2007) · Gene · doi:10.1016/j.gene.2007.03.001 · Cited by 52 · see citing works
Hot-Alkaline DNA Extraction Method for Deep-Subseafloor Archaeal Communities
Morono, Y., Terada, T., Hoshino, T., & Inagaki, F. (2014) · Applied and Environmental Microbiology · doi:10.1128/aem.04150-13 · Cited by 52 · see citing works
Henderson, E. R., Oakes, M. I., Clark, M. W., Lake, J. A., Matheson, A. T., & Zillig, W. (1984) · Science · doi:10.1126/science.6429855 · Cited by 51 · see citing works
An archaeal origin for the actin cytoskeleton: Implications for eukaryogenesis
Bernander, R., Lind, A. E., & Ettema, T. J. G. (2011) · Communicative & Integrative Biology · doi:10.4161/cib.16974 · Cited by 33 · see citing works
Self-citationGuy, L., Spang, A., Saw, J. H. W., & Ettema, T. J. G. (2014) · The ISME Journal · doi:10.1038/ismej.2014.6 · Cited by 20 · see citing works
Self-citationThe Function of Loki in Snorri Sturluson's "Edda"
von Schnurbein, S. (2000) · History of Religions · doi:10.1086/463618 · Cited by 18 · see citing works
Flagged first, then by citations
1 of the 98 references couldn’t be matched to a known paper.
Research works printed but not linked: 6
- [51]Jorgensen SL Correlating microbial community profiles with geochemical data in highly stratified sediments from the Arctic Mid-Ocean Ridge Proc. Natl Acad. Sci. USA 2012 109 E2846 E2855 23027979 PMC3479504
- [52]Jorgensen SL Thorseth IH Pedersen RB Baumberger T Schleper C Quantitative and phylogenetic study of the deep sea archaeal group in sediments of the Arctic Mid-Ocean spreading ridge Front. Microbiol 2013 4 299 24109477 PMC3790079
- [79]Guy L Saw JH Ettema TJ The Archaeal Legacy of Eukaryotes: A Phylogenomic Perspective Cold Spring Harb. Perspect. Biol 2014 6 a016022 24993577 PMC4176008
- [95]Kawai M High frequency of phylogenetically diverse reductive dehalogenase-homologous genes in deep subseafloor sedimentary metagenomes Front. Microbiol 2014 5 80 24624126 PMC3939436
- [100]Ettema TJ Lindas AC Bernander R An actin-based cytoskeleton in archaea Mol. Microbiol 2011 80 1052 1061 21414041
- [101]Yutin N Wolf MY Wolf YI Koonin EV The origins of phagocytosis and eukaryogenesis Biol. Direct 2009 4 9 19245710 PMC2651865
Cited by
Sorted by citations
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 · see citing works
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 · see citing works
Rawlings, N. D., Barrett, A. J., Thomas, P. D., Huang, X., Bateman, A., & Finn, R. D. (2018) · Nucleic Acids Research · doi:10.1093/nar/gkx1134 · Cited by 1,749 · see citing works
Verkhratsky, A., & Nedergaard, M. (2018) · Physiological Reviews · doi:10.1152/physrev.00042.2016 · Cited by 1,678 · see citing works
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 · see citing works
Self-citationDRAM for distilling microbial metabolism to automate the curation of microbiome function
Shaffer, M., Borton, M., McGivern, B. B., Zayed, A., Rosa, S. L. L., Solden, L., Liu, P.-F., Narrowe, A. B., Rodríguez-Ramos, J. A., Bolduc, B., et al. (2020) · bioRxiv · doi:10.1093/nar/gkaa621 · Cited by 1,043 · see citing works
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 · see citing works
Actin and Actin-Binding ProteinsPreprint
Pollard, T. D. (2016) · Cold Spring Harbor Perspectives in Biology · doi:10.1101/cshperspect.a018226 · Cited by 929 · see citing works
Hurley, J. H. (2015) · The EMBO Journal · doi:10.15252/embj.201592484 · Cited by 668 · see citing works
Endosymbiosis and Eukaryotic Cell Evolution
Archibald, J. M. (2015) · Current Biology · doi:10.1016/j.cub.2015.07.055 · Cited by 654 · see citing works
Microbial diversity in extreme environments
Shu, W.-S., & Huang, L.-N. (2021) · Nature Reviews Microbiology · doi:10.1038/s41579-021-00648-y · Cited by 556 · see citing works
Isolation of an archaeon at the prokaryote–eukaryote interface
Imachi, H., Nobu, M. K., Nakahara, N., Morono, Y., Ogawara, M., Takaki, Y., Takano, Y., Uematsu, K., Ikuta, T., Ito, M., et al. (2020) · Nature · doi:10.1038/s41586-019-1916-6 · Cited by 624 · see citing works
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 614 · see citing works
Self-citationMajor 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 · see citing works
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 549 · see citing works
Self-citationHydDB: A web tool for hydrogenase classification and analysis
Søndergaard, D., Pedersen, C. N. S., & Greening, C. (2016) · Scientific Reports · doi:10.1038/srep34212 · Cited by 514 · see citing works
Diversity, ecology and evolution of Archaea
Baker, B., de Anda, V., Seitz, K., Dombrowski, N., Santoro, A., & Lloyd, K. (2020) · Nature Microbiology · doi:10.1038/s41564-020-0715-z · Cited by 447 · see citing works
Extracellular membrane vesicles in the three domains of life and beyond
Gill, S., Catchpole, R. J., & Forterre, P. (2018) · FEMS Microbiology Reviews · doi:10.1093/femsre/fuy042 · Cited by 501 · see citing works
A standardized archaeal taxonomy for the Genome Taxonomy Database
Rinke, C., Chuvochina, M. S., Mussig, A. J., Chaumeil, P.-A., Davín, A., Waite, D. W., Whitman, W. B., Parks, D. H., & Hugenholtz, P. (2021) · Nature Microbiology · doi:10.1038/s41564-021-00918-8 · Cited by 491 · see citing works
Functional horizontal gene transfer from bacteria to eukaryotes
Husník, F., & McCutcheon, J. P. (2017) · Nature Reviews Microbiology · doi:10.1038/nrmicro.2017.137 · Cited by 482 · see citing works
Integrated 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 · see citing works
The growing tree of Archaea: new perspectives on their diversity, evolution and ecology
Adam, P., Borrel, G., Brochier-Armanet, C., & Gribaldo, S. (2017) · The ISME Journal · doi:10.1038/ismej.2017.122 · Cited by 359 · see citing works
Astrocytes as secretory cells of the central nervous system: idiosyncrasies of vesicular secretion
Verkhratsky, A., Matteoli, M., Parpura, V., Mothet, J., & Zorec, R. (2016) · The EMBO Journal · doi:10.15252/embj.201592705 · Cited by 397 · see citing works
The microbiomes of deep-sea hydrothermal vents: distributed globally, shaped locally
Dick, G. J. (2019) · Nature Reviews Microbiology · doi:10.1038/s41579-019-0160-2 · Cited by 365 · see citing works
Forty Years of Clathrin‐coated Vesicles
Robinson, M. S. (2015) · Traffic · doi:10.1111/tra.12335 · Cited by 359 · see citing works
Genomic exploration of the diversity, ecology, and evolution of the archaeal domain of life
Spang, A., Caceres, E. F., & Ettema, T. J. G. (2017) · Science · doi:10.1126/science.aaf3883 · Cited by 346 · see citing works
Self-citationExpanded 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 324 · see citing works
Early photosynthetic eukaryotes inhabited low-salinity habitats
Sánchez-Baracaldo, P., Raven, J., Pisani, D., & Knoll, A. (2017) · Proceedings of the National Academy of Sciences of the United States of America · doi:10.1073/pnas.1620089114 · Cited by 294 · see citing works
Functional Mitochondria in Health and Disease
Herst, P. M., Rowe, M. R., Carson, G. M., & Berridge, M. V. (2017) · Frontiers in Endocrinology · doi:10.3389/fendo.2017.00296 · Cited by 324 · see citing works
The fate of organic carbon in marine sediments - New insights from recent data and analysis
LaRowe, D. E., Arndt, S., Bradley, J. A., Estes, E. R., Hoarfrost, A., Lang, S. Q., Lloyd, K. G., Mahmoudi, N., Orsi, W. D., Walter, S. R. S., et al. (2020) · Earth-Science Reviews · doi:10.1016/j.earscirev.2020.103146 · Cited by 300 · see citing works
Archaea Are Interactive Components of Complex Microbiomes
Moissl‐Eichinger, C., Pausan, M.-R., Taffner, J., Berg, G., Bang, C., & Schmitz, R. A. (2017) · Trends in Microbiology · doi:10.1016/j.tim.2017.07.004 · Cited by 292 · see citing works
The bright side of microbial dark matter: lessons learned from the uncultivated majority.
Solden, L., Lloyd, K., & Wrighton, K. (2016) · Current Opinion in Microbiology · doi:10.1016/j.mib.2016.04.020 · Cited by 253 · see citing works
Liu, J., Zhu, S., Liu, X., Yao, P., Ge, T., & Zhang, X. (2020) · The ISME Journal · doi:10.1038/s41396-020-0621-7 · Cited by 278 · see citing works
Phylogenomics provides robust support for a two-domains tree of life
Williams, T. A., Cox, C. J., Foster, P. G., Szöllősi, G. J., & Embley, T. M. (2019) · Nature Ecology & Evolution · doi:10.1038/s41559-019-1040-x · Cited by 274 · see citing works
Olson, K. R., & Straub, K. D. (2015) · Physiology · doi:10.1152/physiol.00024.2015 · Cited by 271 · see citing works
Machine learning for microbiologists
Asnicar, F., Thomas, A. M., Passerini, A., Waldron, L., & Segata, N. (2023) · Nature Reviews Microbiology · doi:10.1038/s41579-023-00984-1 · Cited by 269 · see citing works
Metaorganisms in extreme environments: do microbes play a role in organismal adaptation?
Bang, C., Dagan, T., Deines, P., Dubilier, N., Duschl, W. J., Fraune, S., Hentschel, U., Heribert Hirt, A., Hülter, N. F., Lachnit, T., et al. (2018) · Zoology · doi:10.1016/j.zool.2018.02.004 · Cited by 250 · see citing works
Late acquisition of mitochondria by a host with chimaeric prokaryotic ancestry
Pittis, A. A., & Gabaldón, T. (2016) · Nature · doi:10.1038/nature16941 · Cited by 259 · see citing works
Metagenome-assembled genomes uncover a global brackish microbiome
Hugerth, L., Larsson, J., Alneberg, J., Lindh, M., Legrand, C., Pinhassi, J., & Andersson, A. (2015) · Genome Biology · doi:10.1186/s13059-015-0834-7 · Cited by 66 · see citing works
Inference and reconstruction of the heimdallarchaeial ancestry of eukaryotes
Eme, L., Tamarit, D., Caceres, E., Stairs, C. W., Anda, V. D., Schön, M. E., Seitz, K. W., Dombrowski, N., Lewis, W. H., Homa, F., et al. (2023) · Nature · doi:10.1038/s41586-023-06186-2 · Cited by 236 · see citing works
Self-citationThe nature of the last universal common ancestor and its impact on the early Earth system
Moody, E. R. R., Álvarez-Carretero, S., Mahendrarajah, T., Clark, J., Betts, H. C., Dombrowski, N., Szánthó, L. L., Boyle, R. A., Daines, S. J., Chen, X., et al. (2024) · Nature Ecology & Evolution · doi:10.1038/s41559-024-02461-1 · Cited by 256 · see citing works
Self-citationMicrobiome Selection Could Spur Next-Generation Plant Breeding Strategies
Gopal, M., & Gupta, A. (2016) · Frontiers in Microbiology · doi:10.3389/fmicb.2016.01971 · Cited by 247 · see citing works
ARF GTPases and their GEFs and GAPs: concepts and challenges
Sztul, E., Chen, P.-W., Casanova, J. E., Cherfils, J., Dacks, J. B., Lambright, D. G., Lee, F.-J. S., Randazzo, P. A., Santy, L. C., Schürmann, A., et al. (2019) · Molecular Biology of the Cell · doi:10.1091/mbc.e18-12-0820 · Cited by 239 · see citing works
Burroughs, A. M., Zhang, D., Schäffer, D. E., Iyer, L. M., & Aravind, L. (2015) · Nucleic Acids Research · doi:10.1093/nar/gkv1267 · Cited by 237 · see citing works
Integrative 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 · see citing works
Self-citationMolecular Mechanisms of mtDNA-Mediated Inflammation
Gaetano, A. D., Solodka, K., Zanini, G., Selleri, V., Mattioli, A. V., Nasi, M., & Pinti, M. (2021) · Cells · doi:10.3390/cells10112898 · Cited by 235 · see citing works
Genomic diversity, lifestyles and evolutionary origins of DPANN archaea
Dombrowski, N., Lee, J.-H., Williams, T. A., Offre, P., & Spang, A. (2019) · FEMS Microbiology Letters · doi:10.1093/femsle/fnz008 · Cited by 230 · see citing works
Self-citationPawlowski, J. W., Bruce, K., Panksep, K., Aguirre, F. I., Amalfitano, S., Apothéloz‐Perret‐Gentil, L., Baussant, T., Bouchez, A., Carugati, L., Cermakova, K., et al. (2021) · The Science of The Total Environment · doi:10.1016/j.scitotenv.2021.151783 · Cited by 232 · see citing works
Asgard archaea capable of anaerobic hydrocarbon cycling
Seitz, K. W., Dombrowski, N., Eme, L., Spang, A., Lombard, J., Sieber, J. R., Teske, A., Ettema, T. J. G., & Baker, B. J. (2019) · Nature Communications · doi:10.1038/s41467-019-09364-x · Cited by 225 · see citing works
Self-citationNext-Generation Sequencing — An Overview of the History, Tools, and “Omic” Applications
Kulski, J. K. (2016) · InTech eBooks · doi:10.5772/61964 · Cited by 219 · see citing works
Metagenomics uncovers gaps in amplicon-based detection of microbial diversity
Eloe-Fadrosh, E., Ivanova, N., Woyke, T., & Kyrpides, N. (2016) · Nature Microbiology · doi:10.1038/nmicrobiol.2015.32 · Cited by 216 · see citing works
Structure of histone-based chromatin in Archaea
Mattiroli, F., Bhattacharyya, S., Dyer, P. N., White, A. E., Sandman, K., Burkhart, B. W., Byrne, K. R., Lee, T., Ahn, N. G., Santangelo, T. J., et al. (2017) · Science · doi:10.1126/science.aaj1849 · Cited by 213 · see citing works
Cunha, V. D., Gaïa, M., Gadelle, D., Nasir, A., & Forterre, P. (2017) · PLoS Genetics · doi:10.1371/journal.pgen.1006810 · Cited by 212 · see citing works
Mitchell, A., Scheremetjew, M., Denise, H., Potter, S., Tarkowska, A., Qureshi, M., Salazar, G. A., Pesseat, S., Boland, M. A., Hunter, F. M. I., et al. (2017) · Nucleic Acids Research · doi:10.1093/nar/gkx967 · Cited by 208 · see citing works
Seitz, K. W., Lazar, C. S., Hinrichs, K., Teske, A., & Baker, B. J. (2016) · The ISME Journal · doi:10.1038/ismej.2015.233 · Cited by 202 · see citing works
Actin cytoskeleton and complex cell architecture in an Asgard archaeon
Rodrigues-Oliveira, T., Wollweber, F., Ponce-Toledo, R. I., Xu, J., Rittmann, S. K. ‐. R., Klingl, A., Pilhofer, M., & Schleper, C. (2022) · Nature · doi:10.1038/s41586-022-05550-y · Cited by 196 · see citing works
Self-citationThe Syntrophy hypothesis for the origin of eukaryotes revisited
López-García, P., & Moreira, D. (2020) · Nature Microbiology · doi:10.1038/s41564-020-0710-4 · Cited by 201 · see citing works
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 · see citing works
Self-citationMetagenomic tools in microbial ecology research.
Taş, N., de Jong, A. E. E., Li, Y.-M., Trubl, G., Xue, Y.-X., & Dove, N. (2021) · Current Opinion in Biotechnology · doi:10.1016/j.copbio.2021.01.019 · Cited by 169 · see citing works
Liu, J., Meng, Z., Liu, X., & Zhang, X. (2019) · Marine Life Science & Technology · doi:10.1007/s42995-019-00004-3 · Cited by 199 · see citing works
Bacterial Vesicle Secretion and the Evolutionary Origin of the Eukaryotic Endomembrane System
Gould, S. B., Garg, S. G., & Martin, W. F. (2016) · Trends in Microbiology · doi:10.1016/j.tim.2016.03.005 · Cited by 193 · see citing works
Physiology, Biochemistry, and Applications of F 420 - and F o -Dependent Redox Reactions
Greening, C., Ahmed, F. H., Mohamed, A. E., Lee, B. M., Pandey, G., Warden, A. C., Scott, C. S., Oakeshott, J. G., Taylor, M. C., & Jackson, C. J. (2016) · Microbiology and Molecular Biology Reviews · doi:10.1128/mmbr.00070-15 · Cited by 188 · see citing works
Dance to the Tune of Life: Biological Relativity
Noble, D. (2017) · Cited by 195 · see citing works
Erdmann, S., Tschitschko, B., Zhong, L., Raftery, M. J., & Cavicchioli, R. (2017) · Nature Microbiology · doi:10.1038/s41564-017-0009-2 · Cited by 196 · see citing works
The soil microbial food web revisited: Predatory myxobacteria as keystone taxa?
Petters, S., Groß, V., Söllinger, A., Pichler, M., Reinhard, A., Bengtsson, M. M., & Urich, T. (2021) · The ISME Journal · doi:10.1038/s41396-021-00958-2 · Cited by 196 · see citing works
Programmed Cell Death in Unicellular Phytoplankton
Bidle, K. D. (2016) · Current Biology · doi:10.1016/j.cub.2016.05.056 · Cited by 193 · see citing works
The planktonic protist interactome: where do we stand after a century of research?
Bjorbækmo, M. F. M., Evenstad, A., Røsæg, L. L., Krabberød, A. K., & Logares, R. (2019) · The ISME Journal · doi:10.1038/s41396-019-0542-5 · Cited by 193 · see citing works
Hitch, T. C. A., Riedel, T., Oren, A., Overmann, J., Lawley, T. D., & Clavel, T. (2021) · ISME Communications · doi:10.1038/s43705-021-00017-z · Cited by 193 · see citing works
The Double-Stranded DNA Virosphere as a Modular Hierarchical Network of Gene Sharing
Iranzo, J., Krupovìč, M., & Koonin, E. V. (2016) · mBio · doi:10.1128/mbio.00978-16 · Cited by 190 · see citing works
The last universal common ancestor between ancient Earth chemistry and the onset of genetics
Weiss, M. C., Preiner, M., Xavier, J. C., Zimorski, V., & Martin, W. F. (2018) · PLOS Genetics · doi:10.1371/journal.pgen.1007518 · Cited by 186 · see citing works
Mitochondrial function in development and disease
Rossmann, M. P., Dubois, S. M., Agarwal, S., & Zon, L. I. (2021) · Disease Models & Mechanisms · doi:10.1242/dmm.048912 · Cited by 191 · see citing works
The universal tree of life: an update
Forterre, P. (2015) · Frontiers in Microbiology · doi:10.3389/fmicb.2015.00717 · Cited by 186 · see citing works
Plasmid detection and assembly in genomic and metagenomic data setsPreprint
Antipov, D., Raiko, M., Lapidus, A. L., & Pevzner, P. A. (2019) · Genome Research · doi:10.1101/gr.241299.118 · Cited by 183 · see citing works
The trajectory of microbial single-cell sequencing
Woyke, T., Doud, D. F. R., & Schulz, F. (2017) · Nature Methods · doi:10.1038/nmeth.4469 · Cited by 176 · see citing works
From cultured to uncultured genome sequences: metagenomics and modeling microbial ecosystems
Garza, D. R., & Dutilh, B. E. (2015) · Cellular and Molecular Life Sciences · doi:10.1007/s00018-015-2004-1 · Cited by 183 · see citing works
Tree of motility – A proposed history of motility systems in the tree of life
Miyata, M., Robinson, R. C., Uyeda, T. Q. P., Fukumori, Y., Fukushima, S., Haruta, S., Homma, M., Inaba, K., Ito, M., Kaito, C., et al. (2020) · Genes to Cells · doi:10.1111/gtc.12737 · Cited by 170 · see citing works
Genomes of Asgard archaea encode profilins that regulate actin
Akıl, C., & Robinson, R. C. (2018) · Nature · doi:10.1038/s41586-018-0548-6 · Cited by 176 · see citing works
Linking metagenomics to aquatic microbial ecology and biogeochemical cycles
Grossart, H., Massana, R., McMahon, K. D., & Walsh, D. A. (2019) · Limnology and Oceanography · doi:10.1002/lno.11382 · Cited by 174 · see citing works
Current Trends in Methylotrophy
Chistoserdova, L., & Kalyuzhnaya, M. G. (2018) · Trends in Microbiology · doi:10.1016/j.tim.2018.01.011 · Cited by 168 · see citing works
Bahram, M., Anslan, S., Hildebrand, F., Peer Bork, B., & Tedersoo, L. (2018) · Environmental Microbiology Reports · doi:10.1111/1758-2229.12684 · Cited by 167 · see citing works
Metagenomic Approaches for Understanding New Concepts in Microbial Science
Alves, L. D. F., Westmann, C., Lovate, G. L., de Siqueira, G. M. V., Borelli, T., & Guazzaroni, M. (2018) · International Journal of Genomics · doi:10.1155/2018/2312987 · Cited by 135 · see citing works
Viruses and mobile elements as drivers of evolutionary transitions
Koonin, E. V. (2016) · Philosophical Transactions of the Royal Society B: Biological Sciences · doi:10.1098/rstb.2015.0442 · Cited by 161 · see citing works
Overview of the Cytoskeleton from an Evolutionary PerspectivePreprint
Pollard, T. D., & Goldman, R. D. (2018) · Cold Spring Harbor Perspectives in Biology · doi:10.1101/cshperspect.a030288 · Cited by 160 · see citing works
Koonin, E. V. (2017) · Biology Direct · doi:10.1186/s13062-017-0177-2 · Cited by 152 · see citing works
Marine Protists Are Not Just Big Bacteria
Keeling, P. J., & del Campo, J. (2017) · Current Biology · doi:10.1016/j.cub.2017.03.075 · Cited by 158 · see citing works
Structural basis for activation, assembly and membrane binding of ESCRT-III Snf7 filaments
Tang, S., Henne, W. M., Borbat, P. P., Buchkovich, N. J., Freed, J. H., Mao, Y., Fromme, J. C., & Emr, S. D. (2015) · eLife · doi:10.7554/elife.12548 · Cited by 156 · see citing works
Symbiosis in eukaryotic evolution
López-García, P., Eme, L., & Moreira, D. (2017) · Journal of Theoretical Biology · doi:10.1016/j.jtbi.2017.02.031 · Cited by 154 · see citing works
The Physiology of Phagocytosis in the Context of Mitochondrial Origin
Martin, W., Tielens, A. G., Mentel, M., Garg, S., & Gould, S. (2017) · Microbiology and Molecular Biology Reviews · doi:10.1128/mmbr.00008-17 · Cited by 109 · see citing works
DNA Polymerases Divide the Labor of Genome Replication
Lujan, S. A., Williams, J. S., & Kunkel, T. A. (2016) · Trends in Cell Biology · doi:10.1016/j.tcb.2016.04.012 · Cited by 153 · see citing works
Microbial community assembly in marine sediments
Petro, C., Starnawski, P., Schramm, A., & Kjeldsen, K. U. (2017) · Aquatic Microbial Ecology · doi:10.3354/ame01826 · Cited by 153 · see citing works
Eukaryogenesis and oxygen in Earth history
Mills, D. B., Boyle, R. A., Daines, S. J., Sperling, E. A., Pisani, D., Donoghue, P. C. J., & Lenton, T. M. (2022) · Nature Ecology & Evolution · doi:10.1038/s41559-022-01733-y · Cited by 153 · see citing works
Bäckström, D., Yutin, N., Jørgensen, S., Dharamshi, J. E., Homa, F., Zaremba-Niedwiedzka, K., Spang, A., Wolf, Y., Koonin, E., & Ettema, T. (2018) · mBio · doi:10.1128/mbio.02497-18 · Cited by 115 · see citing works
Self-citationRoadmap for naming uncultivated Archaea and Bacteria
Murray, A., Freudenstein, J., Gribaldo, S., Hatzenpichler, R., Hugenholtz, P., Kämpfer, P., Konstantinidis, K., Lane, C. E., Papke, R., Parks, D., et al. (2020) · Nature Microbiology · doi:10.1038/s41564-020-0733-x · Cited by 132 · see citing works
Self-citationDelmont, T. O., Kiefl, E., Kilinc, O., Esen, Ö. C., Uysal, I., Rappé, M. S., Giovannoni, S. J., & Eren, A. M. (2019) · eLife · doi:10.7554/elife.46497 · Cited by 137 · see citing works
Identification of Oxa1 homologs operating in the eukaryotic endoplasmic reticulum.
Anghel, S. A., McGilvray, P. T., Hegde, R. S., & Keenan, R. J. (2017) · Cell Reports · doi:10.1016/j.celrep.2017.12.006 · Cited by 150 · see citing works
A social niche breadth score reveals niche range strategies of generalists and specialists
von Meijenfeldt, F. A. B., Hogeweg, P., & Dutilh, B. E. (2023) · Nature Ecology & Evolution · doi:10.1038/s41559-023-02027-7 · Cited by 150 · see citing works
Isolation of an archaeon at the prokaryote-eukaryote interfacePreprint
Imachi, H., Nobu, M. K., Nakahara, N., Morono, Y., Ogawara, M., Takaki, Y., Takano, Y., Uematsu, K., Ikuta, T., Ito, M., et al. (2019) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/726976 · Cited by 150 · see citing works
Koonin, E. V. (2015) · Philosophical Transactions of the Royal Society B: Biological Sciences · doi:10.1098/rstb.2014.0333 · Cited by 145 · see citing works
Prokaryotic cytoskeletons: protein filaments organizing small cells
Wagstaff, J. M., & Löwe, J. (2018) · Nature Reviews Microbiology · doi:10.1038/nrmicro.2017.153 · Cited by 136 · see citing works
Global metagenomic survey reveals a new bacterial candidate phylum in geothermal springs
Eloe-Fadrosh, E., Páez-Espino, D., Jarett, J., Dunfield, P., Hedlund, B., Dekas, A., Grasby, S., Brady, A., Dong, H.-L., Briggs, B., et al. (2016) · Nature Communications · doi:10.1038/ncomms10476 · Cited by 151 · see citing works
- Authors
- 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.
- Affiliations
- Uppsala University (SE)
- University of Bergen (NO)
- University of Vienna (AT)
- Corresponding author
- Guy, Lionel
- Ettema, Thijs J. G.
- ORCID
- Venue
- Nature
- Published
- 2015-05
- Volume
- 521
- Issue
- 7551
- Pages
- 173-179
- ISSN
- 0028-0836 (ISSN-L)
- 1476-4687
- PMC
- PMC4444528
- OpenAlex
- W1939911045
- Cited by
- 1,324
- References
- 98
- Citations by year
- 2026: 85 · 2025: 88 · 2024: 118 · 2023: 127 · 2022: 116 · 2021: 125 · 2020: 136 · 2019: 117 · 2018: 118 · 2017: 118 · 2016: 118 · 2015: 54 · 2014: 1
- FWCI
- 58.70
- Type
- journal article
- Language
- en
- Open access
- green
- www.ncbi.nlm.nih.gov
- Licence
- www.springer.com/tdm (tdm)
- Locations
- Nature (publishedVersion)
- PubMed (publishedVersion)
- Europe PMC (PubMed Central) (acceptedVersion)
- PubMed Central (acceptedVersion)
- Socio-Environmental Systems Modeling (acceptedVersion)
- RePEc: Research Papers in Economics (submittedVersion)
- Data Archiving and Networked Services (DANS) (submittedVersion)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Protist diversity and phylogeny
- Physical Sciences › Physics and Astronomy › Astronomy and Astrophysics › Origins and Evolution of Life
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
- Keywords
- Lokiarchaeota, eukaryotic origin, archaea, membrane remodeling, phylogenomics, cellular complexity
- MeSH terms
- Actins, Archaea, Arctic Regions, Eukaryotic Cells, Actin Cytoskeleton, Molecular Sequence Data, Phylogeny, Prokaryotic Cells, Evolution, Molecular, Proteome, Monomeric GTP-Binding Proteins, Metagenome, Endosomal Sorting Complexes Required for Transport, Eukaryota, Hydrothermal Vents
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