• 2023
  Silale A, Zhu Y, Witwinowski J, Smith RE, Newman KE, Bhamidimarri SP, Baslé A, Khalid S, Beloin C, Gribaldo S, van den Berg B, Dual function of OmpM as outer membrane tether and nutrient uptake channel in diderm Firmicutes., Nat Commun 2023 Nov; 14(1): 7152.
• 2023
  Garcia PS, Barras F, Gribaldo S, Components of iron-Sulfur cluster assembly machineries are robust phylogenetic markers to trace the origin of mitochondria and plastids., PLoS Biol 2023 Nov; 21(11): e3002374.
• 2023
  Medvedeva S, Borrel G, Krupovic M, Gribaldo S, A compendium of viruses from methanogenic archaea reveals their diversity and adaptations to the gut environment., Nat Microbiol 2023 Nov; 8(11): 2170-2182.
• 2023
  Shrestha S, Taib N, Gribaldo S, Shen A, Analyses of cell wall synthesis in Clostridioides difficile reveal a diversification in cell division mechanisms in endospore-forming bacteria., bioRxiv 2023 Aug; (): .
• 2023
  Schoelmerich MC, Ly L, West-Roberts J, Shi LD, Shen C, Malvankar NS, Taib N, Gribaldo S, Woodcroft BJ, Schadt CW, Al-Shayeb B, Dai X, Mozsary C, Hickey S, He C, Beaulaurier J, Juul S, Sachdeva R, Banfield JF, Borg extrachromosomal elements of methane-oxidizing archaea have conserved and expressed genetic repertoires, .
• 2023
  Uzum Z, Ershov D, Pavia MJ, Mallet A, Gorgette O, Plantard O, Sassera D, Stavru F, Three-dimensional images reveal the impact of the endosymbiont Midichloria mitochondrii on the host mitochondria., Nat Commun 2023 Jul; 14(1): 4133.
• 2023
  Grasekamp KP, Beaud B, Taib N, Audrain B, Bardiaux B, Rossez Y, Izadi-Pruneyre N, Lejeune M, Trivelli X, Chouit Z, Guerardel Y, Ghigo JM, Gribaldo S*, Beloin C*, Bridges instead of boats? The Mla system of diderm Firmicute Veillonella parvula reveals an ancestral transenvelope core of phospholipid trafficking, .
• 2023
  Nussbaum P, Kureisaite-Ciziene D, Bellini D, van der Does C, Kojic M, Taib N, Gribaldo S, Loose M, Löwe J, Albers SV, PRC domain-containing proteins modulate FtsZ-based archaeal cell division, .
• 2022
  Megrian D, Taib N, Jaffe AL, Banfield JF, Gribaldo S, Ancient origin and constrained evolution of the division and cell wall gene cluster in Bacteria., Nat Microbiol 2022 Dec; 7(12): 2114-2127.
• 2022
  Fatton M, Filippidou S, Junier T, Cailleau G, Berge M, Poppleton D, Blum TB, Kaminek M, Odriozola A, Blom J, Johnson SL, Abrahams JP, Chain PS, Gribaldo S, Tocheva EI, Zuber B, Viollier PH, Junier P, Cryptosporulation in Kurthia spp. forces a rethinking of asporogenesis in Firmicutes., Environ Microbiol 2022 Dec; 24(12): 6320-6335.
• 2022
  Hocher A, Borrel G, Fadhlaoui K, Brugère JF, Gribaldo S, Warnecke T, Growth temperature and chromatinization in archaea., Nat Microbiol 2022 Nov; 7(11): 1932-1942.
• 2022
  van Wolferen M, Pulschen AA, Baum B, Gribaldo S, Albers SV, The cell biology of archaea., Nat Microbiol 2022 Nov; 7(11): 1744-1755.
• 2022
  Chan H, Taib N, Gilmore MC, Mohamed AMT, Hanna K, Luhur J, Nguyen H, Hafiz E, Cava F, Gribaldo S, Rudner D, Rodrigues CDA, Genetic Screens Identify Additional Genes Implicated in Envelope Remodeling during the Engulfment Stage of Bacillus subtilis Sporulation., mBio 2022 Oct; 13(5): e0173222.
• 2022
  Garcia PS, D'Angelo F, Ollagnier de Choudens S, Dussouchaud M, Bouveret E, Gribaldo S, Barras F, An early origin of iron-sulfur cluster biosynthesis machineries before Earth oxygenation., Nat Ecol Evol 2022 Oct; 6(10): 1564-1572.
• 2022
  Garcia PS, Gribaldo S, Borrel G, Diversity and Evolution of Methane-Related Pathways in Archaea., Annu Rev Microbiol 2022 Sep; 76(): 727-755.
• 2022
  Medvedeva S, Sun J, Yutin N, Koonin EV, Nunoura T, Rinke C, Krupovic M, Three families of Asgard archaeal viruses identified in metagenome-assembled genomes, Nat Microbiol 2022 Jul; 7(7): 962-973.
• 2022
  Cantoni D, Osborne A, Taib N, Thompson G, Martín-Escolano R, Kazana E, Edrich E, Brown IR, Gribaldo S, Gourlay CW, Tsaousis AD, Localization and functional characterization of the alternative oxidase in Naegleria., J Eukaryot Microbiol 2022 Jul; 69(4): e12908.
• 2022
  Ithurbide S, Gribaldo S, Albers SV, Pende N, Spotlight on FtsZ-based cell division in Archaea., Trends Microbiol 2022 Jul; 30(7): 665-678.
• 2022
  Thomas CM, Desmond-Le Quéméner E, Gribaldo S, Borrel G, Factors shaping the abundance and diversity of the gut archaeome across the animal kingdom., Nat Commun 2022 Jun; 13(1): 3358.
• 2022
  D'Angelo F, Fernández-Fueyo E, Garcia PS, Shomar H, Pelosse M, Manuel RR, Büke F, Liu S, van den Broek N, Duraffourg N, de Ram C, Pabst M, Bouveret E, Gribaldo S, Py B, Ollagnier de Choudens S, Barras F, Bokinsky G, Cellular assays identify barriers impeding iron-sulfur enzyme activity in a non-native prokaryotic host., Elife 2022 Mar; 11(): .
• 2022
  Witwinowski J, Sartori-Rupp A, Taib N, Pende N, Tham TN, Poppleton D, Ghigo JM, Beloin C, Gribaldo S, An ancient divide in outer membrane tethering systems in bacteria suggests a mechanism for the diderm-to-monoderm transition., Nat Microbiol 2022 Mar; 7(3): 411-422.
• 2022
  Chibani CM, Mahnert A, Borrel G, Almeida A, Werner A, Brugère JF, Gribaldo S, Finn RD, Schmitz RA, Moissl-Eichinger C, Publisher Correction: A catalogue of 1,167 genomes from the human gut archaeome., Nat Microbiol 2022 Feb; 7(2): 339.
• 2022
  Aouad M, Flandrois JP, Jauffrit F, Gouy M, Gribaldo S, Brochier-Armanet C, A divide-and-conquer phylogenomic approach based on character supermatrices resolves early steps in the evolution of the Archaea., BMC Ecol Evol 2022 Jan; 22(1): 1.
• 2022
  Chibani CM, Mahnert A, Borrel G, Almeida A, Werner A, Brugère JF, Gribaldo S, Finn RD, Schmitz RA, Moissl-Eichinger C, A catalogue of 1,167 genomes from the human gut archaeome., Nat Microbiol 2022 Jan; 7(1): 48-61.
• 2021
  Spier A, Connor MG, Steiner T, Carvalho F, Cossart P, Eisenreich W, Wai T, Stavru F, Mitochondrial respiration restricts Listeria monocytogenes infection by slowing down host cell receptor recycling., Cell Rep 2021 Nov; 37(6): 109989.
• 2021
  Courtney M. Thomas, Najwa Taib, Simonetta Gribaldo & Guillaume Borrel, Comparative genomic analysis of Methanimicrococcus blatticola provides insights into host adaptation in archaea and the evolution of methanogenesis, Thomas, C.M., Taib, N., Gribaldo, S. et al. Comparative genomic analysis of Methanimicrococcus blatticola provides insights into host adaptation in archaea and the evolution of methanogenesis. ISME COMMUN. 1, 47 (2021)..
• 2021
  Courtney Thomas, Najwa Taib, Simonetta Gribaldo, Guillaume Borrel, Comparative genomic analysis of Methanimicrococcus blatticola provides insights into host adaptation in archaea and the evolution of methanogenesis, ISME Communications, 2021, 1 (1), pp.47. ⟨10.1038/s43705-021-00050-y⟩.
• 2021
  Courtney Thomas, Najwa Taib, Simonetta Gribaldo, Guillaume Borrel, Comparative genomic analysis of Methanimicrococcus blatticola provides insights into host adaptation in archaea and the evolution of methanogenesis, ISME Communications, 2021, 1 (1), pp.47. ⟨10.1038/s43705-021-00050-y⟩.
• 2021
  Pende N, Sogues A, Megrian D, Sartori-Rupp A, England P, Palabikyan H, Rittmann SKR, Graña M, Wehenkel AM, Alzari PM, Gribaldo S, SepF is the FtsZ anchor in archaea, with features of an ancestral cell division system., Nat Commun 2021 Jun; 12(1): 3214.
• 2021
  Garcia PS, Duchemin W, Flandrois JP, Gribaldo S, Grangeasse C, Brochier-Armanet C, A Comprehensive Evolutionary Scenario of Cell Division and Associated Processes in the Firmicutes., Mol Biol Evol 2021 May; 38(6): 2396-2412.
• 2021
  Sleiman D, Garcia PS, Lagune M, Loc'h J, Haouz A, Taib N, Röthlisberger P, Gribaldo S, Marlière P, Kaminski PA, A third purine biosynthetic pathway encoded by aminoadenine-based viral DNA genomes., Science 2021 Apr; 372(6541): 516-520.
• 2021
  Taib N, Gribaldo S, MacNeill SA, Single-Stranded DNA-Binding Proteins in the Archaea., Methods Mol Biol 2021 ; 2281(): 23-47.
• 2021
  Murray AE, Freudenstein J, Gribaldo S, Hatzenpichler R, Hugenholtz P, Kämpfer P, Konstantinidis KT, Lane CE, Papke RT, Parks DH, Rossello-Mora R, Stott MB, Sutcliffe IC, Thrash JC, Venter SN, Whitman WB, Acinas SG, Amann RI, Anantharaman K, Armengaud J, Baker BJ, Barco RA, Bode HB, Boyd ES, Brady CL, Carini P, Chain PSG, Colman DR, DeAngelis KM, de Los Rios MA, Estrada-de Los Santos P, Dunlap CA, Eisen JA, Emerson D, Ettema TJG, Eveillard D, Girguis PR, Hentschel U, Hollibaugh JT, Hug LA, Inskeep WP, Ivanova EP, Klenk HP, Li WJ, Lloyd KG, Löffler FE, Makhalanyane TP, Moser DP, Nunoura T, Palmer M, Parro V, Pedrós-Alió C, Probst AJ, Smits THM, Steen AD, Steenkamp ET, Spang A, Stewart FJ, Tiedje JM, Vandamme P, Wagner M, Wang FP, Yarza P, Hedlund BP, Reysenbach AL, , Author Correction: Roadmap for naming uncultivated Archaea and Bacteria., Nat Microbiol 2021 Jan; 6(1): 136.
• 2021
  Héléna Shomar, Pierre Simon Garcia, Elena Fernández-Fueyo, Francesca D’angelo, Martin Pelosse, Rita Rebelo Manuel, Ferhat Büke, Siyi Liu, Niels van den Broek, Nicolas Duraffourg, Carol de Ram, Martin Pabst, Simonetta Gribaldo, Béatrice Py, Sandrine Ollagnier de Choudens, Grégory Bokinsky, Frédéric Barras, Resolving phylogenetic and biochemical barriers to functional expression of heterologous iron-sulphur cluster enzymes, In press.
• 2021
  Héléna Shomar, Pierre Simon Garcia, Elena Fernández-Fueyo, Francesca D’angelo, Martin Pelosse, Rita Rebelo Manuel, Ferhat Büke, Siyi Liu, Niels van den Broek, Nicolas Duraffourg, Carol de Ram, Martin Pabst, Simonetta Gribaldo, Béatrice Py, Sandrine Ollagnier de Choudens, Grégory Bokinsky, Frédéric Barras, Resolving phylogenetic and biochemical barriers to functional expression of heterologous iron-sulphur cluster enzymes, In press.
• 2020
  Stevens KM, Swadling JB, Hocher A, Bang C, Gribaldo S, Schmitz RA, Warnecke T, , Histone variants in archaea and the evolution of combinatorial chromatin complexity., Proc Natl Acad Sci U S A 2020 Dec; 117(52): 33384-33395.
• 2020
  Najwa Taib, Daniela Megrian, Jerzy Witwinowski, Panagiotis Adam, Daniel Poppleton, Guillaume Borrel, Christophe Beloin, Simonetta Gribaldo, Genome-wide analysis of the Firmicutes illuminates the diderm/monoderm transition, Nature Ecology & Evolution, 2020, 4 (12), pp.1661-1672. ⟨10.1038/s41559-020-01299-7⟩.
• 2020
  N Béchon, A Jiménez-Fernández, J Witwinowski, E Bierque, N Taib, T Cokelaer, L Ma, JM Ghigo, S Gribaldo, C Beloin , Autotransporters drive biofilm formation and auto-aggregation in the diderm Firmicute Veillonella parvula, J Bacteriol . 2020 Aug 17;JB.00461-20. doi: 10.1128/JB.00461-20. Online ahead of print. .
• 2020
  Nathalie Bechon, Alicia Jiménez-Fernández, Jerzy Witwinowski, Emilie Bierque, Najwa Taïb, Thomas Cokelaer, Laurence Ma, Jean-Marc Ghigo, Simonetta Gribaldo, Christophe Beloin, Autotransporters drive biofilm formation and auto-aggregation in the diderm Firmicute Veillonella parvula, Journal of Bacteriology, 2020, ⟨10.1128/JB.00461-20⟩.
• 2020
  Alison Murray, John Freudenstein, Simonetta Gribaldo, Roland Hatzenpichler, Philip Hugenholtz, Peter Kämpfer, Konstantinos Konstantinidis, Christopher Lane, R. Thane Papke, Donovan Parks, Ramon Rossello-Mora, Matthew Stott, Iain Sutcliffe, J. Cameron Thrash, Stephanus Venter, William Whitman, Silvia G. Acinas, Rudolf Amann, Karthik Anantharaman, J. Armengaud, Brett Baker, Roman Barco, Helge Bode, Eric Boyd, Carrie Brady, Paul Carini, Patrick Chain, Daniel Colman, Kristen Deangelis, Maria Asuncion de Los Rios, Paulina Estrada-de Los Santos, Christopher Dunlap, Jonathan Eisen, David A Emerson, Thijs Ettema, Damien Eveillard, Peter Girguis, Ute Hentschel, James Hollibaugh, Laura Hug, William P Inskeep, Elena A. Ivanova, Hans-Peter Klenk, Wen-Jun Li, Karen Lloyd, Frank Löffler, Thulani Makhalanyane, Duane Moser, Takuro Nunoura, Marike Palmer, Victor Parro, Carlos Pedrós-Alió, Alexander J Probst, Theo Smits, Andrew Steen, Emma Steenkamp, Anja Spang, Frank Stewart, James Tiedje, Peter Vandamme, Michael Wagner, Feng-Ping Wang, Brian Hedlund, Anna-Louise Reysenbach, Roadmap for naming uncultivated Archaea and Bacteria, Nature Microbiology, 2020, 5 (8), pp.987-994. ⟨10.1038/s41564-020-0733-x⟩.
• 2020
  Guillaume Borrel, Jean-François Brugere, Simonetta Gribaldo, Ruth Schmitz, Christine Moissl-Eichinger, The host-associated archaeome, Nature Reviews Microbiology, 2020, ⟨10.1038/s41579-020-0407-y⟩.
• 2020
  Alexander L. Jaffe, Cindy Castelle, Paula Matheus Carnevali, Simonetta Gribaldo, Jillian Banfield, The rise of diversity in metabolic platforms across the Candidate Phyla Radiation, BMC Biology, 2020, 18 (1), pp.69. ⟨10.1186/s12915-020-00804-5⟩.
• 2020
  Carrias JF, Gerphagnon M, Rodríguez-Pérez H, Borrel G, Loiseau C, Corbara B, Céréghino R, Mary I, Leroy C, , Resource availability drives bacterial succession during leaf-litter decomposition in a bromeliad ecosystem., FEMS Microbiol Ecol 2020 04; 96(4): .
• 2020
  Daniela Megrian, Najwa Taib, Jerzy Witwinowski, Christophe Beloin, Simonetta Gribaldo, One or two membranes? Diderm Firmicutes challenge the Gram-positive/Gram-negative divide, Molecular Microbiology, 2020, ⟨10.1111/MMI.14469⟩.
• 2020
  Simonetta Gribaldo, Celine Brochier-Armanet, Evolutionary relationships between Archaea and eukaryotes, Nature Ecology & Evolution, 2020, 4, pp.20-21. ⟨10.1038/s41559-019-1073-1⟩.
• 2020
  Johana Luhur, Helena Chan, Benson Kachappilly, Ahmed Mohamed, Cécile Morlot, Milena Awad, Dena Lyras, Najwa Taib, Simonetta Gribaldo, David Rudner, Christopher Rodrigues, A dynamic, ring-forming MucB / RseB-like protein influences spore shape in Bacillus subtilis, PLoS Genetics, 2020, 16 (12), pp.e1009246. ⟨10.1371/journal.pgen.1009246⟩.
• 2019
  Panagiotis S Adam, Simonetta Gribaldo, Guillaume Borrel, An archaeal origin of the Wood-Ljungdahl H4MPT branch and the emergence of bacterial methylotrophy, Nature Microbiology, 2019, 4 (12), pp.2155-2163. ⟨10.1038/s41564-019-0534-2⟩.
• 2019
  Pierre Simon Garcia, Simonetta Gribaldo, Beatrice Py, Frédéric Barras, The SUF system: an ABC ATPase-dependent protein complex with a role in Fe–S cluster biogenesis, Research in Microbiology, 2019, pp.S0923-2508(19)30085-3. ⟨10.1016/j.resmic.2019.08.001⟩.
• 2019
  Guillaume Borrel, Panagiotis S Adam, Luke J Mckay, Lin-Xing Chen, Isabel Natalia Sierra-García, Christian M K Sieber, Quentin Letourneur, Amine Ghozlane, Gary Andersen, Wen-Jun Li, Steven J Hallam, Gerard Muyzer, Valéria Maia de Oliveira, William P Inskeep, Jillian F Banfield, Simonetta Gribaldo, Wide diversity of methane and short-chain alkane metabolisms in uncultured archaea, Nature Microbiology, 2019, ⟨10.1038/s41564-019-0363-3⟩.
• 2019
  Monique Aouad, Guillaume Borrel, Céline Brochier-Armanet, Simonetta Gribaldo, Evolutionary placement of Methanonatronarchaeia, Nature Microbiology, 2019, ⟨10.1038/s41564-019-0359-z⟩.
• 2018
  Brugere J-F, Atkins J, O'Toole PW, Borrel G, Pyrrolysine in Archaea, a 22nd amino-acid encoded through a genetic code expansion., Emerging Topics in Life Sciences Nov 22, 2018, 2 (4) 607-618; .
• 2018
  Rodríguez Pérez H, Borrel G, Leroy C, Carrias JF, Corbara B, Srivastava DS, Céréghino R, , Simulated drought regimes reveal community resilience and hydrological thresholds for altered decomposition., Oecologia 2018 05; 187(1): 267-279.
• 2018
  Panagiotis S Adam, Guillaume Borrel, Simonetta Gribaldo, Evolutionary history of carbon monoxide dehydrogenase/acetyl-CoA synthase, one of the oldest enzymatic complexes, Proceedings of the National Academy of Sciences of the United States of America, 2018, 115 (6), pp.E1166-E1173. ⟨10.1073/pnas.1716667115⟩.
• 2017
  Poppleton DI, Duchateau M, Hourdel V, Matondo M, Flechsler J, Klingl A, Beloin C, Gribaldo S, Outer Membrane Proteome of Veillonella parvula: A Diderm Firmicute of the Human Microbiome., Front Microbiol 2017 ; 8(): 1215.
• 2017
  Panagiotis S Adam, Guillaume Borrel, Céline Brochier-Armanet, Simonetta Gribaldo, The growing tree of Archaea: new perspectives on their diversity, evolution and ecology, ISME Journal, 2017, 11 (11), pp.2407-2425. ⟨10.1038/ismej.2017.122⟩.
• 2016
  Isabelle R. Gonçalves, Sophie Brouillet, Marie-Christine Soulié, Simonetta Gribaldo, Catherine Sirven, Noémie Charron, Martine Boccara, Mathias Choquer, Genome-wide analyses of chitin synthases identify horizontal gene transfers towards bacteria and allow a robust and unifying classification into fungi, BMC Evolutionary Biology, 2016, 16, pp.252. ⟨10.1186/s12862-016-0815-9⟩.
• 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, J. Cell. Sci. 2016 Sep;.
• 2016
  Luisa Cs Antunes, Daniel Poppleton, Andreas Klingl, Alexis Criscuolo, Bruno Dupuy, Céline Brochier-Armanet, Christophe Beloin, Simonetta Gribaldo, Phylogenomic analysis supports the ancestral presence of LPS-outer membranes in the Firmicutes., eLife, 2016, 5, pp.e14589. ⟨10.7554/eLife.14589.020⟩.
• 2016
  Olivier Poupel, Mati Moyat, Julie Groizeleau, Luísa C S Antunes, Simonetta Gribaldo, Tarek Msadek, Sarah Dubrac, Transcriptional Analysis and Subcellular Protein Localization Reveal Specific Features of the Essential WalKR System in Staphylococcus aureus, PLoS ONE, 2016, 11 (3), pp.e0151449. ⟨10.1371/journal.pone.0151449⟩.
• 2016
  Guillaume Borrel, Panagiotis S Adam, Simonetta Gribaldo, Methanogenesis and the Wood-Ljungdahl Pathway: An Ancient, Versatile, and Fragile Association, Genome Biology and Evolution, 2016, 8 (6), pp.1706-1711. ⟨10.1093/gbe/evw114⟩.
• 2015
  Dominique Clermont, Maite Gomard, Sylviane Hamon, Isabelle Bonne, José-Carlos Fernandez, Richard Wheeler, Christian Malosse, Julia Chamot-Rooke, Simonetta Gribaldo, Ivo Gomperts Boneca, Chantal Bizet, Paenibacillus faecis sp. nov., isolated from human faeces, International Journal of Systematic and Evolutionary Microbiology, 2015, 65 (12), pp.4621-4626. ⟨10.1099/ijsem.0.000622⟩.
• 2015
  Prangishvili D, Gribaldo S, Franzetti B, Forterre P, Special section on Molecular biology of Archaea, Biochimie 2015 Nov;118:253.
• 2015
  Ooi CP, Rotureau B, Gribaldo S, Georgikou C, Julkowska D, Blisnick T, Perrot S, Subota I, Bastin P, The Flagellar Arginine Kinase in Trypanosoma brucei Is Important for Infection in Tsetse Flies, PLoS ONE 2015;10(7):e0133676.
• 2015
  Raymann K, Brochier-Armanet C, Gribaldo S, The two-domain tree of life is linked to a new root for the Archaea, Proc. Natl. Acad. Sci. U.S.A. 2015 May;112(21):6670-5.
• 2015
  Borrel G, Gaci N, Peyret P, O'Toole PW, Gribaldo S, Brugère JF, Corrigendum to “unique characteristics of the pyrrolysine system in the 7th order of methanogens: implications for the evolution of a genetic code expansion cassette”, Archaea 2015;2015:941836.
• 2015
  Alexandra K Perras, Bertram Daum, Christine Ziegler, Lynelle K Takahashi, Musahid Ahmed, Gerhard Wanner, Andreas Klingl, Gerd Leitinger, Dagmar Kolb-Lenz, Simonetta Gribaldo, Anna Auerbach, Maximilian Mora, Alexander J Probst, Annett Bellack, Christine Moissl-Eichinger, S-layers at second glance? Altiarchaeal grappling hooks (hami) resemble archaeal S-layer proteins in structure and sequence, Frontiers in Microbiology, 2015, 9 (6), pp.543. ⟨10.3389/fmicb.2015.00543⟩.
• 2015
  M. Groussin, J. K. Hobbs, G. J. Szollosi, S. Gribaldo, V. L. Arcus, Manolo Gouy, Toward more accurate ancestral protein genotype-phenotype reconstructions with the use of species tree-aware gene trees, Molecular Biology and Evolution, 2015, 32, pp.13-22. ⟨10.1093/molbev/msu305⟩.
• 2014
  Forterre P, Krupovic M, Raymann K, Soler N, Plasmids from Euryarchaeota, Microbiol Spectr 2014 Dec;2(6).
• 2014
  Probst AJ, Weinmaier T, Raymann K, Perras A, Emerson JB, Rattei T, Wanner G, Klingl A, Berg IA, Yoshinaga M, Viehweger B, Hinrichs KU, Thomas BC, Meck S, Auerbach AK, Heise M, Schintlmeister A, Schmid M, Wagner M, Gribaldo S, Banfield JF, Moissl-Eichinger C, , Biology of a widespread uncultivated archaeon that contributes to carbon fixation in the subsurface., Nat Commun 2014 Nov; 5(): 5497.
• 2014
  Laura Gomez-Valero, Christophe Rusniok, Monica Rolando, Mario Neou, Delphine Dervins-Ravault, Jasmin Demirtas, Zoe Rouy, Robert J. Moore, Honglei Chen, Nicola K. Petty, Sophie Jarraud, Jerome Etienne, Michael Steinert, Klaus Heuner, Simonetta Gribaldo, Claudine Médigue, Gernot Glöckner, Elizabeth L. Hartland, Carmen Buchrieser, Comparative analyses of Legionella species identifies genetic features of strains causing Legionnaires’ disease, Genome Biology, 2014, 15 (11), pp.505. ⟨10.1186/s13059-014-0505-0⟩.
• 2014
  Appolaire A, Durá MA, Ferruit M, Andrieu JP, Godfroy A, Gribaldo S, Franzetti B, The TET2 and TET3 aminopeptidases from Pyrococcus horikoshii form a hetero-subunit peptidasome with enhanced peptide destruction properties, Mol. Microbiol. 2014 Nov;94(4):803-14.
• 2014
  Muszkieta L, Aimanianda V, Mellado E, Gribaldo S, Alcàzar-Fuoli L, Szewczyk E, Prevost MC, Latgé JP, Deciphering the role of the chitin synthase families 1 and 2 in the in vivo and in vitro growth of Aspergillus fumigatus by multiple gene targeting deletion, Cell. Microbiol. 2014 Dec;16(12):1784-805.
• 2014
  Borrel G, Parisot N, Harris HM, Peyretaillade E, Gaci N, Tottey W, Bardot O, Raymann K, Gribaldo S, Peyret P, O'Toole PW, Brugère JF, Comparative genomics highlights the unique biology of Methanomassiliicoccales, a Thermoplasmatales-related seventh order of methanogenic archaea that encodes pyrrolysine, BMC Genomics 2014;15:679.
• 2014
  Poole AM, Gribaldo S, Eukaryotic origins: How and when was the mitochondrion acquired?, Cold Spring Harb Perspect Biol 2014 Dec;6(12):a015990.
• 2014
  Gadelle D, Krupovic M, Raymann K, Mayer C, Forterre P, DNA topoisomerase VIII: a novel subfamily of type IIB topoisomerases encoded by free or integrated plasmids in Archaea and Bacteria, Nucleic Acids Res. 2014 Jul;42(13):8578-91.
• 2014
  Borrel G, Gaci N, Peyret P, O'Toole PW, Gribaldo S, Brugère JF, Unique characteristics of the pyrrolysine system in the 7th order of methanogens: implications for the evolution of a genetic code expansion cassette, Archaea 2014;2014:374146.
• 2014
  Raymann K, Forterre P, Brochier-Armanet C, Gribaldo S, Global phylogenomic analysis disentangles the complex evolutionary history of DNA replication in archaea, Genome Biol Evol 2014 Jan;6(1):192-212.
• 2013
  Guillaume Borrel, Paul W O 'Toole, Hugh Harris, Pierre Peyret, Jean-François Brugere, Simonetta Gribaldo, Phylogenomic Data Support a Seventh Order of Methylotrophic Methanogens and Provide Insights into the Evolution of Methanogenesis, Genome Biology and Evolution, 2013, 5 (10), pp.1769 - 1780. ⟨10.1093/gbe/evt128⟩.
• 2013
  Borrel G, Harris HM, Parisot N, Gaci N, Tottey W, Mihajlovski A, Deane J, Gribaldo S, Bardot O, Peyretaillade E, Peyret P, O'Toole PW, Brugère JF, Genome Sequence of “Candidatus Methanomassiliicoccus intestinalis” Issoire-Mx1, a Third Thermoplasmatales-Related Methanogenic Archaeon from Human Feces, Genome Announc 2013;1(4).
• 2013
  Raymann K, Bobay LM, Doak TG, Lynch M, Gribaldo S, A genomic survey of Reb homologs suggests widespread occurrence of R-bodies in proteobacteria, G3 (Bethesda) 2013 Mar;3(3):505-16.
• 2012
  Borrel G, Harris HM, Tottey W, Mihajlovski A, Parisot N, Peyretaillade E, Peyret P, Gribaldo S, O'Toole PW, Brugère JF, Genome sequence of “Candidatus Methanomethylophilus alvus” Mx1201, a methanogenic archaeon from the human gut belonging to a seventh order of methanogens, J. Bacteriol. 2012 Dec;194(24):6944-5.
• 2012
  Gribaldo S, Brochier-Armanet C, Time for order in microbial systematics, Trends Microbiol. 2012 May;20(5):209-10.
• 2011
  Brochier-Armanet C, Gribaldo S, Forterre P, Spotlight on the Thaumarchaeota, ISME J 2012 Feb;6(2):227-30.
• 2011
  David Halter, Audrey Cordi, Simonetta Gribaldo, Sébastien Gallien, Florence Goulhen-Chollet, Audrey Heinrich-Salmeron, Christine Carapito, Christophe Pagnout, Didier Montaut, Fabienne Seby, Alain van Dorsselaer, Christine Schaeffer, Philippe Bertin, Pascale Bauda, Florence Arsène-Ploetze, Taxonomic and functional prokaryote diversity in mildly arsenic-contaminated sediments, Research in Microbiology, 2011, 162 (9), pp.877-887. ⟨10.1016/j.resmic.2011.06.001⟩.
• 2011
  Moriscot C, Gribaldo S, Jault JM, Krupovic M, Arnaud J, Jamin M, Schoehn G, Forterre P, Weissenhorn W, Renesto P, Crenarchaeal CdvA forms double-helical filaments containing DNA and interacts with ESCRT-III-like CdvB, PLoS ONE 2011;6(7):e21921.
• 2011
  Criscuolo A, Gribaldo S, Large-scale phylogenomic analyses indicate a deep origin of primary plastids within cyanobacteria, Mol. Biol. Evol. 2011 Nov;28(11):3019-32.
• 2011
  Brochier-Armanet C, Forterre P, Gribaldo S, Phylogeny and evolution of the Archaea: one hundred genomes later, Curr. Opin. Microbiol. 2011 Jun;14(3):274-81.
• 2011
  Gastebois A, Blanc Potard AB, Gribaldo S, Beau R, Latgé JP, Mouyna I, Phylogenetic and functional analysis of Aspergillus fumigatus MGTC, a fungal protein homologous to a bacterial virulence factor, Appl. Environ. Microbiol. 2011 Jul;77(13):4700-3.
• 2011
  Krupovic M, Spang A, Gribaldo S, Forterre P, Schleper C, A thaumarchaeal provirus testifies for an ancient association of tailed viruses with archaea, Biochem. Soc. Trans. 2011 Jan;39(1):82-8.
• 2011
  Virginie Gaget, Simonetta Gribaldo, Nicole Tandeau de Marsac, An rpoB signature sequence provides unique resolution for the molecular typing of cyanobacteria, International Journal of Systematic and Evolutionary Microbiology, 2011, 61 (1), pp.170-183. ⟨10.1099/ijs.0.019018-0⟩.
• 2010
  Lundin D, Gribaldo S, Torrents E, Sjöberg BM, Poole AM, Ribonucleotide reduction – horizontal transfer of a required function spans all three domains, BMC Evol. Biol. 2010;10:383.
• 2010
  Gribaldo S, Forterre P, Brochier-Armanet C, Archaea and the tree of life, Res. Microbiol. 2011 Jan;162(1):1-4.
• 2010
  Desmond E, Brochier-Armanet C, Forterre P, Gribaldo S, On the last common ancestor and early evolution of eukaryotes: reconstructing the history of mitochondrial ribosomes, Res. Microbiol. 2011 Jan;162(1):53-70.
• 2010
  Cortez D, Quevillon-Cheruel S, Gribaldo S, Desnoues N, Sezonov G, Forterre P, Serre MC, Evidence for a Xer/dif system for chromosome resolution in archaea, PLoS Genet. 2010 Oct;6(10):e1001166.
• 2010
  Gribaldo S, Poole AM, Daubin V, Forterre P, Brochier-Armanet C, The origin of eukaryotes and their relationship with the Archaea: are we at a phylogenomic impasse?, Nat. Rev. Microbiol. 2010 Oct;8(10):743-52.
• 2010
  Télesphore Sime-Ngando, Soizick Lucas, Agnès Robin, Kimberly Pause Tucker, Jonathan Colombet, Yvan Bettarel, Elie Desmond, Simonetta Gribaldo, Patrick Forterre, Mya Breitbart, David Prangishvili, Diversity of virus-host systems in hypersaline Lake Retba, Senegal., Environmental Microbiology, 2010, 13 (8), epub ahead of print. ⟨10.1111/j.1462-2920.2010.02323.x⟩.
• 2010
  Criscuolo A, Gribaldo S, BMGE (Block Mapping and Gathering with Entropy): a new software for selection of phylogenetic informative regions from multiple sequence alignments, BMC Evol. Biol. 2010;10:210.
• 2010
  Forterre P, Gribaldo S, Bacteria with a eukaryotic touch: a glimpse of ancient evolution?, Proc. Natl. Acad. Sci. U.S.A. 2010 Jul;107(29):12739-40.
• 2010
  Krupovic M, Gribaldo S, Bamford DH, Forterre P, The evolutionary history of archaeal MCM helicases: a case study of vertical evolution combined with hitchhiking of mobile genetic elements, Mol. Biol. Evol. 2010 Dec;27(12):2716-32.
• 2010
  Ronan Jambou, Axel Martinelli, João Pinto, Simonetta Gribaldo, Eric Legrand, Makhtar Niang, Nimol Kim, Lim Pharath, Béatrice Volnay, Marie Therese Ekala, Christiane Bouchier, Thierry Fandeur, Pedro Berzosa, Agustin Benito, Isabel Dinis Ferreira, Cynthia Ferreira, Pedro Paulo Vieira, Maria das Graças Alecrim, Odile Mercereau-Puijalon, Pedro Cravo, Geographic structuring of the Plasmodium falciparum sarco(endo)plasmic reticulum Ca2+ ATPase (PfSERCA) gene diversity., PLoS ONE, 2010, 5 (2), pp.e9424. ⟨10.1371/journal.pone.0009424⟩.
• 2009
  Fondi M, Emiliani G, Liò P, Gribaldo S, Fani R, The evolution of histidine biosynthesis in archaea: insights into the his genes structure and organization in LUCA, J. Mol. Evol. 2009 Nov;69(5):512-26.
• 2009
  Desmond E, Gribaldo S, Phylogenomics of sterol synthesis: insights into the origin, evolution, and diversity of a key eukaryotic feature, Genome Biol Evol 2009;1:364-81.
• 2009
  Gribaldo S, Talla E, Brochier-Armanet C, Evolution of the haem copper oxidases superfamily: a rooting tale, Trends Biochem. Sci. 2009 Aug;34(8):375-81.
• 2009
  Gribaldo S, Brochier C, Phylogeny of prokaryotes: does it exist and why should we care?, Res. Microbiol. 2009 Sep;160(7):513-21.
• 2009
  Cortez D, Forterre P, Gribaldo S, A hidden reservoir of integrative elements is the major source of recently acquired foreign genes and ORFans in archaeal and bacterial genomes, Genome Biol. 2009;10(6):R65.
• 2009
  Emiliani G, Fondi M, Fani R, Gribaldo S, A horizontal gene transfer at the origin of phenylpropanoid metabolism: a key adaptation of plants to land, Biol. Direct 2009;4:7.
• 2009
  Forterre P, Gribaldo S, Brochier-Armanet C, Happy together: genomic insights into the unique Nanoarchaeum/Ignicoccus association, J. Biol. 2009;8(1):7.
• 2009
  Elie Le Quemener, S. Gribaldo, Phylogenomics of Sterol Synthesis: Insights into the Origin, Evolution, and Diversity of a Key Eukaryotic Feature, Genome Biology and Evolution, 2009, 1, pp.364-381. ⟨10.1093/gbe/evp036⟩.
• 2009
  Elie Le Quemener, S. Gribaldo, Phylogenomics of Sterol Synthesis: Insights into the Origin, Evolution, and Diversity of a Key Eukaryotic Feature, Genome Biology and Evolution, 2009, 1, pp.364-381. ⟨10.1093/gbe/evp036⟩.
• 2008
  Brochier-Armanet C, Gribaldo S, Forterre P, A DNA topoisomerase IB in Thaumarchaeota testifies for the presence of this enzyme in the last common ancestor of Archaea and Eucarya, Biol. Direct 2008;3:54.
• 2008
  Brochier-Armanet C, Talla E, Gribaldo S, The multiple evolutionary histories of dioxygen reductases: Implications for the origin and evolution of aerobic respiration, Mol. Biol. Evol. 2009 Feb;26(2):285-97.
• 2008
  Frangeul L, Quillardet P, Castets AM, Humbert JF, Matthijs HC, Cortez D, Tolonen A, Zhang CC, Gribaldo S, Kehr JC, Zilliges Y, Ziemert N, Becker S, Talla E, Latifi A, Billault A, Lepelletier A, Dittmann E, Bouchier C, de Marsac NT, Highly plastic genome of Microcystis aeruginosa PCC 7806, a ubiquitous toxic freshwater cyanobacterium, BMC Genomics 2008;9:274.
• 2008
  Forterre P, Gribaldo S, Erratum, HFSP J 2008 Apr;2(2):121.
• 2008
  Brochier-Armanet C, Boussau B, Gribaldo S, Forterre P, Mesophilic Crenarchaeota: proposal for a third archaeal phylum, the Thaumarchaeota, Nat. Rev. Microbiol. 2008 Mar;6(3):245-52.
• 2007
  Forterre P, Gribaldo S, The origin of modern terrestrial life, HFSP J 2007 Sep;1(3):156-68.
• 2007
  Desmond E, Brochier-Armanet C, Gribaldo S, Phylogenomics of the archaeal flagellum: rare horizontal gene transfer in a unique motility structure, BMC Evol. Biol. 2007;7:106.
• 2007
  Yandoko EN, Gribaldo S, Finance C, Le Faou A, Rihn BH, Molecular characterization of African orthobunyaviruses, J. Gen. Virol. 2007 Jun;88(Pt 6):1761-6.
• 2007
  Forterre P, Gribaldo S, Gadelle D, Serre MC, Origin and evolution of DNA topoisomerases, Biochimie 2007 Apr;89(4):427-46.
• 2006
  Gribaldo S, Chay C, Tournier E, Llopis O, Experimental study of phase noise in FBAR resonators, IEEE Trans Ultrason Ferroelectr Freq Control 2006 Nov;53(11):1982-7.
• 2006
  Gribaldo S, Brochier-Armanet C, The origin and evolution of Archaea: a state of the art, Philos. Trans. R. Soc. Lond., B, Biol. Sci. 2006 Jun;361(1470):1007-22.
• 2005
  Forterre P, Gribaldo S, Brochier C, [Luca: the last universal common ancestor], Med Sci (Paris) 2005 Oct;21(10):860-5.
• 2005
  Brochier C, Forterre P, Gribaldo S, An emerging phylogenetic core of Archaea: phylogenies of transcription and translation machineries converge following addition of new genome sequences, BMC Evol. Biol. 2005;5:36.
• 2005
  Brochier C, Gribaldo S, Zivanovic Y, Confalonieri F, Forterre P, Nanoarchaea: representatives of a novel archaeal phylum or a fast-evolving euryarchaeal lineage related to Thermococcales?, Genome Biol. 2005;6(5):R42.
• 2004
  Brochier C, Forterre P, Gribaldo S, Archaeal phylogeny based on proteins of the transcription and translation machineries: tackling the Methanopyrus kandleri paradox, Genome Biol. 2004;5(3):R17.
• 2003
  Bapteste E, Gribaldo S, The genome reduction hypothesis and the phylogeny of eukaryotes, Trends Genet. 2003 Dec;19(12):696-700.
• 2003
  Gribaldo S, Casane D, Lopez P, Philippe H, Functional divergence prediction from evolutionary analysis: a case study of vertebrate hemoglobin, Mol. Biol. Evol. 2003 Nov;20(11):1754-9.
• 2003
  Armengaud J, Fernandez B, Chaumont V, Rollin-Genetet F, Finet S, Marchetti C, Myllykallio H, Vidaud C, Pellequer JL, Gribaldo S, Forterre P, Gans P, Identification, purification, and characterization of an eukaryotic-like phosphopantetheine adenylyltransferase (coenzyme A biosynthetic pathway) in the hyperthermophilic archaeon Pyrococcus abyssi, J. Biol. Chem. 2003 Aug;278(33):31078-87.
• 2003
  Philippe H, Casane D, Gribaldo S, Lopez P, Meunier J, , Heterotachy and functional shift in protein evolution., IUBMB Life 2003 ; 55(4-5): 257-65.
• 2002
  Cammarano P, Gribaldo S, Johann A, Updating carbamoylphosphate synthase (CPS) phylogenies: occurrence and phylogenetic identity of archaeal CPS genes, J. Mol. Evol. 2002 Aug;55(2):153-60.
• 2002
  Gribaldo S, Philippe H, Ancient phylogenetic relationships, Theor Popul Biol 2002 Jun;61(4):391-408.
• 2000
  Bocchetta M, Gribaldo S, Sanangelantoni A, Cammarano P, Phylogenetic depth of the bacterial genera Aquifex and Thermotoga inferred from analysis of ribosomal protein, elongation factor, and RNA polymerase subunit sequences, J. Mol. Evol. 2000 Apr;50(4):366-80.
• 1999
  Gribaldo S, Lumia V, Creti R, Conway de Macario E, Sanangelantoni A, Cammarano P, Discontinuous occurrence of the hsp70 (dnaK) gene among Archaea and sequence features of HSP70 suggest a novel outlook on phylogenies inferred from this protein, J. Bacteriol. 1999 Jan;181(2):434-43.
• 1998
  Gribaldo S, Cammarano P, The root of the universal tree of life inferred from anciently duplicated genes encoding components of the protein-targeting machinery, J. Mol. Evol. 1998 Nov;47(5):508-16.
• 1997
  Gribaldo S, Cookson B, Saunders N, Marples R, Stanley J, Rapid identification by specific PCR of coagulase-negative staphylococcal species important in hospital infection, J. Med. Microbiol. 1997 Jan;46(1):45-53.
• 1996
  Agodi A, Stefani S, Corsaro C, Campanile F, Gribaldo S, Sichel G, Study of a melanic pigment of Proteus mirabilis, Res. Microbiol. 1996 Mar-Apr;147(3):167-74.