| Year |
Citation |
Score |
| 2024 |
Richards TA, Eme L, Archibald JM, Leonard G, Coelho SM, de Mendoza A, Dessimoz C, Dolezal P, Fritz-Laylin LK, Gabaldón T, Hampl V, Kops GJPL, Leger MM, Lopez-Garcia P, McInerney JO, et al. Reconstructing the last common ancestor of all eukaryotes. Plos Biology. 22: e3002917. PMID 39585925 DOI: 10.1371/journal.pbio.3002917 |
0.768 |
|
| 2024 |
Banos H, Wong TKF, Daneau J, Susko E, Minh BQ, Lanfear R, Brown MW, Eme L, Roger AJ. GTRpmix: A linked general-time reversible model for profile mixture models. Molecular Biology and Evolution. PMID 39158305 DOI: 10.1093/molbev/msae174 |
0.451 |
|
| 2024 |
Gutiérrez-Preciado A, Dede B, Baker BA, Eme L, Moreira D, López-García P. Extremely acidic proteomes and metabolic flexibility in bacteria and highly diversified archaea thriving in geothermal chaotropic brines. Nature Ecology & Evolution. PMID 39134651 DOI: 10.1038/s41559-024-02505-6 |
0.813 |
|
| 2024 |
Moreira D, Blaz J, Kim E, Eme L. A gene-rich mitochondrion with a unique ancestral protein transport system. Current Biology : Cb. PMID 39084221 DOI: 10.1016/j.cub.2024.07.017 |
0.837 |
|
| 2024 |
Williams TA, Davin AA, Szánthó LL, Stamatakis A, Wahl NA, Woodcroft BJ, Soo RM, Eme L, Sheridan PO, Gubry-Rangin C, Spang A, Hugenholtz P, Szöllősi GJ. Phylogenetic reconciliation: making the most of genomes to understand microbial ecology and evolution. The Isme Journal. PMID 39001714 DOI: 10.1093/ismejo/wrae129 |
0.745 |
|
| 2024 |
Eme L, Tamarit D. Microbial Diversity and Open Questions about the Deep Tree of Life. Genome Biology and Evolution. 16. PMID 38620144 DOI: 10.1093/gbe/evae053 |
0.771 |
|
| 2024 |
Baker BA, Gutiérrez-Preciado A, Rodríguez Del Río Á, McCarthy CGP, López-García P, Huerta-Cepas J, Susko E, Roger AJ, Eme L, Moreira D. Expanded phylogeny of extremely halophilic archaea shows multiple independent adaptations to hypersaline environments. Nature Microbiology. PMID 38519541 DOI: 10.1038/s41564-024-01647-4 |
0.834 |
|
| 2024 |
Jones RE, Tice AK, Eliáš M, Eme L, Kolísko M, Nenarokov S, Pánek T, Rokas A, Salomaki E, Strassert JFH, Shen XX, Žihala D, Brown MW. Create, Analyze, and Visualize Phylogenomic Datasets Using PhyloFisher. Current Protocols. 4: e969. PMID 38265166 DOI: 10.1002/cpz1.969 |
0.74 |
|
| 2023 |
Novák LVF, Treitli SC, Pyrih J, Hałakuc P, Pipaliya SV, Vacek V, Brzoň O, Soukal P, Eme L, Dacks JB, Karnkowska A, Eliáš M, Hampl V. Genomics of Preaxostyla Flagellates Illuminates the Path Towards the Loss of Mitochondria. Plos Genetics. 19: e1011050. PMID 38060519 DOI: 10.1371/journal.pgen.1011050 |
0.696 |
|
| 2023 |
Blaz J, Galindo LJ, Heiss AA, Kaur H, Torruella G, Yang A, Alexa Thompson L, Filbert A, Warring S, Narechania A, Shiratori T, Ishida KI, Dacks JB, López-García P, Moreira D, ... ... Eme L, et al. One high quality genome and two transcriptome datasets for new species of Mantamonas, a deep-branching eukaryote clade. Scientific Data. 10: 603. PMID 37689692 DOI: 10.1038/s41597-023-02488-2 |
0.832 |
|
| 2023 |
Yubuki N, Torruella G, Galindo LJ, Heiss AA, Ciobanu MC, Shiratori T, Ishida KI, Blaz J, Kim E, Moreira D, López-García P, Eme L. Molecular and morphological characterization of four new ancyromonad genera and proposal for an updated taxonomy of the Ancyromonadida. The Journal of Eukaryotic Microbiology. e12997. PMID 37606230 DOI: 10.1111/jeu.12997 |
0.803 |
|
| 2023 |
Eme L, Tamarit D, Caceres EF, Stairs CW, De Anda V, Schön ME, Seitz KW, Dombrowski N, Lewis WH, Homa F, Saw JH, Lombard J, Nunoura T, Li WJ, Hua ZS, et al. Inference and reconstruction of the heimdallarchaeial ancestry of eukaryotes. Nature. PMID 37316666 DOI: 10.1038/s41586-023-06186-2 |
0.813 |
|
| 2022 |
Eme L, Stairs CW. Life through the lens of metabolism. Nature Ecology & Evolution. PMID 36085313 DOI: 10.1038/s41559-022-01880-2 |
0.654 |
|
| 2022 |
Tamarit D, Caceres EF, Krupovic M, Nijland R, Eme L, Robinson NP, Ettema TJG. A closed Candidatus Odinarchaeum chromosome exposes Asgard archaeal viruses. Nature Microbiology. 7: 948-952. PMID 35760836 DOI: 10.1038/s41564-022-01122-y |
0.779 |
|
| 2022 |
van Beveren F, Eme L, López-García P, Ciobanu M, Moreira D. Independent Size Expansions and Intron Proliferation in Red Algal Plastid and Mitochondrial Genomes. Genome Biology and Evolution. PMID 35289373 DOI: 10.1093/gbe/evac037 |
0.354 |
|
| 2022 |
Zhang X, Hu Y, Eme L, Maruyama S, Eveleigh RJM, Curtis BA, Sibbald SJ, Hopkins JF, Filloramo GV, van Wijk KJ, Archibald JM. TreeTuner: A pipeline for minimizing redundancy and complexity in large phylogenetic datasets. Star Protocols. 3: 101175. PMID 35243369 DOI: 10.1016/j.xpro.2022.101175 |
0.687 |
|
| 2022 |
Muñoz-Gómez SA, Susko E, Williamson K, Eme L, Slamovits CH, Moreira D, López-García P, Roger AJ. Site-and-branch-heterogeneous analyses of an expanded dataset favour mitochondria as sister to known Alphaproteobacteria. Nature Ecology & Evolution. 6: 253-262. PMID 35027725 DOI: 10.1038/s41559-021-01638-2 |
0.784 |
|
| 2021 |
Stairs CW, Táborský P, Salomaki ED, Kolisko M, Pánek T, Eme L, Hradilová M, Vlček Č, Jerlström-Hultqvist J, Roger AJ, Čepička I. Anaeramoebae are a divergent lineage of eukaryotes that shed light on the transition from anaerobic mitochondria to hydrogenosomes. Current Biology : Cb. PMID 34710348 DOI: 10.1016/j.cub.2021.10.010 |
0.829 |
|
| 2021 |
Tice AK, Žihala D, Pánek T, Jones RE, Salomaki ED, Nenarokov S, Burki F, Eliáš M, Eme L, Roger AJ, Rokas A, Shen XX, Strassert JFH, Kolísko M, Brown MW. PhyloFisher: A phylogenomic package for resolving eukaryotic relationships. Plos Biology. 19: e3001365. PMID 34358228 DOI: 10.1371/journal.pbio.3001365 |
0.782 |
|
| 2021 |
Žárský V, Klimeš V, Pačes J, Vlček Č, Hradilová M, Beneš V, Nývltová E, Hrdý I, Pyrih J, Mach J, Barlow L, Stairs CW, Eme L, Hall N, Eliáš M, et al. The Mastigamoeba balamuthi genome and the nature of the free-living ancestor of Entamoeba. Molecular Biology and Evolution. PMID 33528570 DOI: 10.1093/molbev/msab020 |
0.797 |
|
| 2020 |
Stairs CW, Sharamshi JE, Tamarit D, Eme L, Jørgensen SL, Spang A, Ettema TJG. Chlamydial contribution to anaerobic metabolism during eukaryotic evolution. Science Advances. 6: eabb7258. PMID 32923644 DOI: 10.1126/Sciadv.Abb7258 |
0.805 |
|
| 2020 |
Salomaki ED, Eme L, Brown MW, Kolisko M. Releasing uncurated datasets is essential for reproducible phylogenomics. Nature Ecology & Evolution. PMID 32884150 DOI: 10.1038/S41559-020-01296-W |
0.663 |
|
| 2020 |
Sibbald SJ, Eme L, Archibald JM, Roger AJ. Lateral Gene Transfer Mechanisms and Pan-genomes in Eukaryotes. Trends in Parasitology. PMID 32828660 DOI: 10.1016/J.Pt.2020.07.014 |
0.825 |
|
| 2020 |
Dharamshi JE, Tamarit D, Eme L, Stairs CW, Martijn J, Homa F, Jørgensen SL, Spang A, Ettema TJG. Marine Sediments Illuminate Chlamydiae Diversity and Evolution. Current Biology : Cb. PMID 32142706 DOI: 10.1016/J.Cub.2020.02.016 |
0.814 |
|
| 2020 |
Stairs CW, Sharamshi JE, Tamarit D, Eme L, Jørgensen SL, Spang A, Ettema TJG. Chlamydial contribution to anaerobic metabolism during eukaryotic evolution Science Advances. 6: eabb7258. DOI: 10.1126/sciadv.abb7258 |
0.812 |
|
| 2019 |
Schön ME, Eme L, Ettema TJG. PhyloMagnet: Fast and accurate screening of short-read meta-omics data using gene-centric phylogenetics. Bioinformatics (Oxford, England). PMID 31647547 DOI: 10.1093/Bioinformatics/Btz799 |
0.766 |
|
| 2019 |
Karnkowska A, Treitli SC, Brzoň O, Novák L, Vacek V, Soukal P, Barlow LD, Herman EK, Pipaliya SV, Pánek T, Žihala D, Petrželková R, Butenko A, Eme L, Stairs CW, et al. The oxymonad genome displays canonical eukaryotic complexity in the absence of a mitochondrion. Molecular Biology and Evolution. PMID 31387118 DOI: 10.1093/Molbev/Msz147 |
0.816 |
|
| 2019 |
Muñoz-Gómez SA, Durnin K, Eme L, Paight C, Lane CE, Saffo MB, Slamovits CH. Nephromyces represents a diverse and novel lineage of the Apicomplexa that has retained apicoplasts. Genome Biology and Evolution. PMID 31328784 DOI: 10.1093/Gbe/Evz155 |
0.79 |
|
| 2019 |
Hess S, Eme L, Roger AJ, Simpson AGB. A natural toroidal microswimmer with a rotary eukaryotic flagellum. Nature Microbiology. PMID 31182800 DOI: 10.1038/S41564-019-0478-6 |
0.489 |
|
| 2019 |
Seitz KW, Dombrowski N, Eme L, Spang A, Lombard J, Sieber JR, Teske AP, Ettema TJG, Baker BJ. Asgard archaea capable of anaerobic hydrocarbon cycling. Nature Communications. 10: 1822. PMID 31015394 DOI: 10.1038/S41467-019-09364-X |
0.794 |
|
| 2019 |
Spang A, Stairs CW, Dombrowski N, Eme L, Lombard J, Caceres EF, Greening C, Baker BJ, Ettema TJG. Proposal of the reverse flow model for the origin of the eukaryotic cell based on comparative analyses of Asgard archaeal metabolism. Nature Microbiology. PMID 30936488 DOI: 10.1038/S41564-019-0406-9 |
0.8 |
|
| 2018 |
Cenci U, Sibbald SJ, Curtis BA, Kamikawa R, Eme L, Moog D, Henrissat B, Maréchal E, Chabi M, Djemiel C, Roger AJ, Kim E, Archibald JM. Nuclear genome sequence of the plastid-lacking cryptomonad Goniomonas avonlea provides insights into the evolution of secondary plastids. Bmc Biology. 16: 137. PMID 30482201 DOI: 10.1186/S12915-018-0593-5 |
0.814 |
|
| 2018 |
Lax G, Eglit Y, Eme L, Bertrand EM, Roger AJ, Simpson AGB. Hemimastigophora is a novel supra-kingdom-level lineage of eukaryotes. Nature. PMID 30429611 DOI: 10.1038/S41586-018-0708-8 |
0.628 |
|
| 2018 |
Eme L, Ettema TJG. The eukaryotic ancestor shapes up. Nature. 562: 352-353. PMID 30323225 DOI: 10.1038/D41586-018-06868-2 |
0.731 |
|
| 2018 |
Stairs CW, Eme L, Muñoz-Gómez S, Cohen A, Dellaire G, Shepherd JN, Fawcett JP, Roger AJ. Microbial eukaryotes have adapted to hypoxia by horizontal acquisitions of a gene involved in rhodoquinone biosynthesis. Elife. 7. PMID 29697049 DOI: 10.7554/Elife.34292 |
0.818 |
|
| 2018 |
Spang A, Eme L, Saw JH, Caceres EF, Zaremba-Niedzwiedzka K, Lombard J, Guy L, Ettema TJG. Asgard archaea are the closest prokaryotic relatives of eukaryotes. Plos Genetics. 14: e1007080. PMID 29596421 DOI: 10.1371/Journal.Pgen.1007080 |
0.796 |
|
| 2018 |
Leger MM, Eme L, Stairs CW, Roger AJ. Demystifying Eukaryote Lateral Gene Transfer (Response to Martin 2017 DOI: 10.1002/bies.201700115). Bioessays : News and Reviews in Molecular, Cellular and Developmental Biology. e1700242. PMID 29543982 DOI: 10.1002/Bies.201700242 |
0.816 |
|
| 2018 |
Raina JB, Eme L, Pollock FJ, Spang A, Archibald JM, Williams TA. Symbiosis in the microbial world: from ecology to genome evolution. Biology Open. 7. PMID 29472284 DOI: 10.1242/Bio.032524 |
0.708 |
|
| 2018 |
Stairs CW, Eme L, Muñoz-Gómez SA, Cohen A, Dellaire G, Shepherd JN, Fawcett JP, Roger AJ. Author response: Microbial eukaryotes have adapted to hypoxia by horizontal acquisitions of a gene involved in rhodoquinone biosynthesis Elife. DOI: 10.7554/Elife.34292.028 |
0.724 |
|
| 2017 |
Eme L, Spang A, Lombard J, Stairs CW, Ettema TJG. Archaea and the origin of eukaryotes. Nature Reviews. Microbiology. PMID 29176585 DOI: 10.1038/Nrmicro.2017.154 |
0.76 |
|
| 2017 |
Eme L, Spang A, Lombard J, Stairs CW, Ettema TJG. Archaea and the origin of eukaryotes. Nature Reviews. Microbiology. 15: 711-723. PMID 29123225 DOI: 10.1038/Nrmicro.2017.133 |
0.82 |
|
| 2017 |
Gentekaki E, Curtis BA, Stairs CW, Klimeš V, Eliáš M, Salas-Leiva DE, Herman EK, Eme L, Arias MC, Henrissat B, Hilliou F, Klute MJ, Suga H, Malik SB, Pightling AW, et al. Extreme genome diversity in the hyper-prevalent parasitic eukaryote Blastocystis. Plos Biology. 15: e2003769. PMID 28892507 DOI: 10.1371/Journal.Pbio.2003769 |
0.816 |
|
| 2017 |
Leger MM, Kolisko M, Kamikawa R, Stairs CW, Kume K, Čepička I, Silberman JD, Andersson JO, Xu F, Yabuki A, Eme L, Zhang Q, Takishita K, Inagaki Y, Simpson AGB, et al. Organelles that illuminate the origins of Trichomonas hydrogenosomes and Giardia mitosomes. Nature Ecology & Evolution. 1: 0092. PMID 28474007 DOI: 10.1038/S41559-017-0092 |
0.783 |
|
| 2017 |
Eme L, Gentekaki E, Curtis B, Archibald JM, Roger AJ. Lateral Gene Transfer in the Adaptation of the Anaerobic Parasite Blastocystis to the Gut. Current Biology : Cb. PMID 28262486 DOI: 10.1016/J.Cub.2017.02.003 |
0.781 |
|
| 2017 |
López-García P, Eme L, Moreira D. Symbiosis in eukaryotic evolution. Journal of Theoretical Biology. PMID 28254477 DOI: 10.1016/J.Jtbi.2017.02.031 |
0.477 |
|
| 2017 |
Leger MM, Eme L, Hug LA, Roger AJ. Corrigendum Correction to "Novel hydrogenosomes in the microaerophilic jakobid Stygiella incarcerate". Molecular Biology and Evolution. PMID 28158607 DOI: 10.1093/Molbev/Msx059 |
0.749 |
|
| 2016 |
Eme L, Doolittle WF. Microbial Evolution: Xenology (Apparently) Trumps Paralogy. Current Biology : Cb. 26: R1181-R1183. PMID 27875695 DOI: 10.1016/J.Cub.2016.09.049 |
0.64 |
|
| 2016 |
Dacks JB, Field MC, Buick R, Eme L, Gribaldo S, Roger AJ, Brochier-Armanet C, Devos DP. The changing view of eukaryogenesis - fossils, cells, lineages and how they all come together. Journal of Cell Science. PMID 27672020 DOI: 10.1242/Jcs.178566 |
0.734 |
|
| 2016 |
Leger MM, Eme L, Hug LA, Roger AJ. Novel hydrogenosomes in the microaerophilic jakobid Stygiella incarcerata. Molecular Biology and Evolution. PMID 27280585 DOI: 10.1093/Molbev/Msw103 |
0.822 |
|
| 2016 |
Cenci U, Moog D, Curtis BA, Tanifuji G, Eme L, Lukeš J, Archibald JM. Heme pathway evolution in kinetoplastid protists. Bmc Evolutionary Biology. 16: 109. PMID 27193376 DOI: 10.1186/S12862-016-0664-6 |
0.407 |
|
| 2016 |
Karnkowska A, Vacek V, Zubáčová Z, Treitli SC, Petrželková R, Eme L, Novák L, Žárský V, Barlow LD, Herman EK, Soukal P, Hroudová M, Doležal P, Stairs CW, Roger AJ, et al. A Eukaryote without a Mitochondrial Organelle. Current Biology : Cb. PMID 27185558 DOI: 10.1016/J.Cub.2016.03.053 |
0.83 |
|
| 2015 |
Groussin M, Boussau B, Szöllősi G, Eme L, Gouy M, Brochier-Armanet C, Daubin V. Gene acquisitions from bacteria at the origins of major archaeal clades are vastly overestimated. Molecular Biology and Evolution. PMID 26541173 DOI: 10.1093/Molbev/Msv249 |
0.664 |
|
| 2015 |
Eme L, Doolittle WF. Archaea. Current Biology : Cb. 25: R851-5. PMID 26439345 DOI: 10.1016/j.cub.2015.05.025 |
0.517 |
|
| 2015 |
Torruella G, de Mendoza A, Grau-Bové X, Antó M, Chaplin MA, Del Campo J, Eme L, Pérez-Cordón G, Whipps CM, Nichols KM, Paley R, Roger AJ, Sitjà-Bobadilla A, Donachie S, Ruiz-Trillo I. Phylogenomics Reveals Convergent Evolution of Lifestyles in Close Relatives of Animals and Fungi. Current Biology : Cb. 25: 2404-10. PMID 26365255 DOI: 10.1016/J.Cub.2015.07.053 |
0.737 |
|
| 2015 |
Gawryluk RM, Eme L, Roger AJ. Gene fusion, fission, lateral transfer, and loss: Not-so-rare events in the evolution of eukaryotic ATP citrate lyase. Molecular Phylogenetics and Evolution. 91: 12-6. PMID 26025427 DOI: 10.1016/J.Ympev.2015.05.010 |
0.825 |
|
| 2015 |
Leger MM, Petr? M, Žárský V, Eme L, Vl?ek ?, Harding T, Lang BF, Eliáš M, Doležal P, Roger AJ. An ancestral bacterial division system is widespread in eukaryotic mitochondria. Proceedings of the National Academy of Sciences of the United States of America. PMID 25831547 DOI: 10.1073/Pnas.1421392112 |
0.809 |
|
| 2015 |
Eme L, Doolittle WF. Microbial diversity: a bonanza of phyla. Current Biology : Cb. 25: R227-30. PMID 25784040 DOI: 10.1016/J.Cub.2014.12.044 |
0.625 |
|
| 2014 |
Eme L, Sharpe SC, Brown MW, Roger AJ. On the age of eukaryotes: evaluating evidence from fossils and molecular clocks. Cold Spring Harbor Perspectives in Biology. 6. PMID 25085908 DOI: 10.1101/Cshperspect.A016139 |
0.799 |
|
| 2014 |
Stairs CW, Eme L, Brown MW, Mutsaers C, Susko E, Dellaire G, Soanes DM, van der Giezen M, Roger AJ. A SUF Fe-S cluster biogenesis system in the mitochondrion-related organelles of the anaerobic protist Pygsuia. Current Biology : Cb. 24: 1176-86. PMID 24856215 DOI: 10.1016/J.Cub.2014.04.033 |
0.787 |
|
| 2014 |
Tsaousis AD, Gentekaki E, Eme L, Gaston D, Roger AJ. Evolution of the cytosolic iron-sulfur cluster assembly machinery in Blastocystis species and other microbial eukaryotes. Eukaryotic Cell. 13: 143-53. PMID 24243793 DOI: 10.1128/Ec.00158-13 |
0.801 |
|
| 2013 |
Eme L, Reigstad LJ, Spang A, Lanzén A, Weinmaier T, Rattei T, Schleper C, Brochier-Armanet C. Metagenomics of Kamchatkan hot spring filaments reveal two new major (hyper)thermophilic lineages related to Thaumarchaeota. Research in Microbiology. 164: 425-38. PMID 23470515 DOI: 10.1016/J.Resmic.2013.02.006 |
0.807 |
|
| 2011 |
Eme L, Trilles A, Moreira D, Brochier-Armanet C. The phylogenomic analysis of the anaphase promoting complex and its targets points to complex and modern-like control of the cell cycle in the last common ancestor of eukaryotes. Bmc Evolutionary Biology. 11: 265. PMID 21943402 DOI: 10.1186/1471-2148-11-265 |
0.585 |
|
| 2011 |
Boileau C, Eme L, Brochier-Armanet C, Janicki A, Zhang CC, Latifi A. A eukaryotic-like sulfiredoxin involved in oxidative stress responses and in the reduction of the sulfinic form of 2-Cys peroxiredoxin in the cyanobacterium Anabaena PCC 7120. The New Phytologist. 191: 1108-18. PMID 21651559 DOI: 10.1111/J.1469-8137.2011.03774.X |
0.672 |
|
| 2009 |
Eme L, Moreira D, Talla E, Brochier-Armanet C. A complex cell division machinery was present in the last common ancestor of eukaryotes. Plos One. 4: e5021. PMID 19352429 DOI: 10.1371/Journal.Pone.0005021 |
0.625 |
|
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