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Publications - Papers

Research papers


  • Lecocq M, Groussin M, Gouy M, Brochier-Armanet C.
    The Molecular Determinants of Thermoadaptation: Methanococcales as a Case Study.
    Mol Biol Evol. (2021); in press [Abstract]
  • Felix J, Siebert C, Ducassou JN, Nigou J, Garcia PS, Fraudeau A, Huard K, Mas C, Brochier-Armanet C, Couté Y, Gutsche I, Renesto P.
    Structural and functional analysis of the Francisella lysine decarboxylase as a key actor in oxidative stress resistance.
    Sci Rep. (2021); 13;11(1):972. [Abstract]


  • Gribaldo S, Brochier-Armanet C.
    Evolutionary relationships between archaea and eukaryotes.
    Nat Ecol Evol. (2020); 4(1):20-21 [Abstract]
  • da Cruz I, Brochier-Armanet C, Benavente R.
    The TERB1-TERB2-MAJIN complex of mouse meiotic telomeres dates back to the common ancestor of metazoans
    BMC Evol Biol. (2020); 20(1):55 [Abstract]
  • Cohen D, Ghosh S, Shimakawa Y, Ramou N, Garcia PS, Dubois A, Guillot C, Kakwata-Nkor Deluce N, Tilloy V, Durand G, Voegele C, Ndow G, d'Alessandro U, Brochier-Armanet C, Alain S, Le Calvez-Kelm F, Hall J, Zoulim F, Mendy M, Thursz M, Lemoine M, Chemin I.
    Hepatitis B virus preS2Δ38-55 variants: A newly identified risk factor for hepatocellular carcinoma.
    JHEP Rep. (2020); 2(5):100144 [Abstract]
  • Hugouvieux-Cotte-Pattat N, Brochier-Armanet C, Flandrois JP, Reverchon S.
    Dickeya poaceiphila sp. nov., a plant-pathogenic bacterium isolated from sugar cane (Saccharum officinarum).
    Int J Syst Evol Microbiol. (2020); 70(8):4508-4514 [Abstract]


  • Kandiah E, Carriel D, Garcia PS, Felix J, Banzhaf M, Kritikos G, Bacia-Verloop M, Brochier-Armanet C, Elsen S, Gutsche I.
    Structure, Function, and Evolution of the Pseudomonas aeruginosa Lysine Decarboxylase LdcA.
    Structure (2019); 27(12):1842-1854.e4 [Abstract]
  • Béthencourt L, Vautrin F, Taib N, Dubost A, Castro-Garcia L, Imbaud O, Abrouk D, Fournier P, Briolay J, Nguyen A, Normand P, Fernandez MP, Brochier-Armanet C, Herrera-Belaroussi A.
    Draft genome sequences for three unisolated Alnus-infective Frankia Sp+ strains, AgTrS, AiOr and AvVan, the first sequenced Frankia strains able to sporulate in-planta.
    J Genomics. (2019); 7:50-55. [Abstract]
  • Duprey A, Taib N, Leonard S, Garin T, Flandrois JP, Nasser W, Brochier-Armanet C, Reverchon S.
    The phytopathogenic nature of Dickeya aquatica 174/2 and the dynamic early evolution of Dickeya pathogenicity.
    Environ Microbiol. (2019); 21(8):2809-2835. [Abstract]
  • Flandrois JP, Brochier-Armanet C, Briolay J, Abrouk D, Schwob G, Normand P, Fernandez MP.
    Taxonomic assignment of uncultured prokaryotes with long range PCR targeting the spectinomycin operon.
    Res Microbiol. (2019); (in press). [Abstract]
  • Béthencourt L, Boubakri H, Taib N, Normand P, Armengaud J, Fournier P, Brochier-Armanet C, Herrera-Belaroussi A.
    Comparative genomics and proteogenomics highlight key molecular players involved in Frankia sporulation.
    Res Microbiol. (2019); 170(4-5):202-213. [Abstract]
  • Siebert C, Lindgren H, Ferré S, Villers C, Boisset S, Perard J, Sjöstedt A, Maurin M, Brochier-Armanet C, Couté Y, Renesto P.
    Francisella tularensis: FupA mutation contributes to fluoroquinolone resistance by increasing vesicle secretion and biofilm formation.
    Emerg Microbes Infect. (2019); 8(1):808-822. [Abstract]
  • Aouad M, Borrel G, Brochier-Armanet C, Gribaldo S.
    Evolutionary placement of Methanonatronarchaeia.
    Nat Microbiol. (2019); 4(4):558-559. [Abstract]
  • Garcia PS, Jauffrit F, Grangeasse C, Brochier-Armanet C.
    GeneSpy, a user-friendly and flexible genomic context visualizer.
    Bioinformatics (2019); 35(2):329-331. [Abstract]
  • Pardoux R, Fiévet A, Carreira C, Brochier-Armanet C, Valette O, Dermoun Z, Py B, Dolla A, Pauleta SR, Aubert C.
    The bacterial Mrp(ORP) is a novel Mrp/NBP35 protein involved in iron-sulfur biogenesis.
    Sci Rep. (2019); 9(1):712. [Abstract]


  • Aouad M, Taib N, Oudart A, Lecocq M, Gouy M, Brochier-Armanet C.
    Extreme halophilic archaea derive from two distinct methanogen Class II lineages.
    Mol Phylogenet Evol. (2018); 127:46-54. [Abstract]
  • Carriel D, Garcia PS, Castelli F, Lamourette P, Fenaille F, Brochier-Armanet C, Elsen S, Gutsche I.
    A novel subfamily of bacterial AAT-fold basic amino acid decarboxylases and functional characterization of its first representative: Pseudomonas aeruginosa LdcA.
    Genome Biol Evol. (2018); in press. [Abstract]
  • Esteve C, Francescatto L, Tan PL, Bourchany A, De Leusse C, Marinier E, Blanchard A, Bourgeois P, Brochier-Armanet C, Bruel AL, Delarue A, Duffourd Y, Ecochard-Dugelay E, Hery G, Huet F, Gauchez P, Gonzales E, Guettier-Bouttier C, Komuta M, Lacoste C, Maudinas R, Mazodier K, Rimet Y, Rivière JB, Roquelaure B, Sigaudy S, Stephenne X, Thauvin-Robinet C, Thevenon J, Sarles J, Levy N, Badens C, Goulet O, Hugot JP, Katsanis N, Faivre L, Fabre A.
    Loss-of-Function Mutations in UNC45A Cause a Syndrome Associating Cholestasis, Diarrhea, Impaired Hearing, and Bone Fragility.
    Am J Hum Genet. (2018); 102(3):364-374. [Abstract]
  • Zucchini L, Mercy C, Garcia PS, Cluzel C, Gueguen-Chaignon V, Galisson F, Freton C, Guiral S, Brochier-Armanet C, Gouet P, Grangeasse C.
    PASTA repeats of the protein kinase StkP interconnect cell constriction and separation of Streptococcus pneumoniae.
    Nat Microbiol. (2018); 3(2):197-209. [Abstract]
  • Fadhlaoui K, Ben Hania W, Armougom F, Bartoli M, Fardeau ML, Erauso G, Brasseur G, Aubert C, Hamdi M, Brochier-Armanet C, Dolla A, Ollivier B.
    Obligate sugar oxidation in Mesotoga spp., phylum Thermotogae, in the presence of either elemental sulfur or hydrogenotrophic sulfate-reducers as electron acceptor.
    Environ Microbiol. (2018); 20(1):281-292. [Abstract]


  • Adam PS, Borrel G, Brochier-Armanet C, Gribaldo S.
    The growing tree of Archaea: new perspectives on their diversity, evolution and ecology.
    ISME J. (2017); 11(11):2407-2425. [Abstract]
  • Repizo GD, Viale AM, Borges V, Cameranesi MM, Taib N, Espariz M, Brochier-Armanet C, Gomes JP, Salcedo SP.
    The Environmental Acinetobacter baumannii Isolate DSM30011 Reveals Clues into the Preantibiotic Era Genome Diversity, Virulence Potential, and Niche Range of a Predominant Nosocomial Pathogen.
    Genome Biol Evol. (2017); 9(9):2292-2307 [Abstract]
  • Timm J, Brochier-Armanet C, Perard J, Zambelli B, Ollagnier-de-Choudens S, Ciurli S, Cavazza C.
    The CO dehydrogenase accessory protein CooT is a novel nickel-binding protein.
    Metallomics. (2017); 9(5):575-583. [Abstract]
  • Philippon H, Souvane A, Brochier-Armanet C, Perrière G.
    IsoSel: Protein Isoform Selector for phylogenetic reconstructions.
    PLoS One. (2017); 12(3):e0174250. [Abstract]


  • Duprey A, Nasser W, Léonard S, Brochier-Armanet C, Reverchon S.
    Transcriptional start site turnover in the evolution of bacterial paralogous genes - the pelE-pelD virulence genes in Dickeya.
    FEBS J. (2016); 283(22):4192-4207. [Abstract]
  • 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);129(20):3695-3703. [Abstract]
  • Jauffrit F, Penel S, Delmotte S, Rey C, de Vienne DM, Gouy M, Charrier JP, Flandrois JP, Brochier-Armanet C.
    RiboDB Database: A Comprehensive Resource for Prokaryotic Systematics.
    Mol. Biol. Evol. (2016); 33(8):2170-2172. [Abstract]
  • Antunes LC, Poppleton D, Klingl A, Criscuolo A, Dupuy B, Brochier-Armanet C, Beloin C, Gribaldo S.
    Phylogenomic analysis supports the ancestral presence of LPS-outer membranes in the Firmicutes.
    Elife (2016); e14589. [Abstract]
  • Garcia PS, Simorre JP, Brochier-Armanet C, Grangeasse C.
    Cell division of Streptococcus pneumoniae: think positive!
    Curr Opin Microbiol. (2016); 34:18-23. [Abstract]
  • Attaiech L, Boughammoura A, Brochier-Armanet C, Allatif O, Peillard-Fiorente F, Edwards RA, Omar AR, MacMillan AM, Glover M, Charpentier X.
    Silencing of natural transformation by an RNA chaperone and a multitarget small RNA.
    Proc Natl Acad Sci U S A. (2016); 113(31):8813-8. [Abstract]
  • Groussin M, Boussau B, Szollosi G, Eme L, Gouy M, Brochier-Armanet C, Daubin V.
    Gene acquisitions from bacteria at the origins of major archaeal clades are vastly overestimated.
    Mol Biol Evol. (2016); 33(2):305-10 [Abstract]
  • Fraune J, Brochier-Armanet C, Alsheimer M, Volff JN, Schucker K, Benavente R.
    Evolutionary history of the mammalian synaptonemal complex.
    Chromosoma (2016); in press [Abstract]
  • Karaki L, Da Silva P, Rizk F, Chouabe C, Chantret N, Eyraud V, Gressent F, Sivignon C, Rahioui I, Kahn D, Brochier-Armanet C, Rahbé Y, Royer C.
    Genome-wide analysis identifies gain and loss/change of function within the small multigenic insecticidal Albumin 1 family of Medicago truncatula.
    BMC Plant Biol. (2016);16(1):63 [Abstract]
  • Thiaville JJ, Kellner SM, Yuan Y, Hutinet G, Thiaville PC, Jumpathong W, Mohapatra S, Brochier-Armanet C, Letarov AV, Hillebrand R, Malik CK, Rizzo CJ, Dedon PC, de Crécy-Lagard V.
    Novel genomic island modifies DNA with 7-deazaguanine derivatives.
    Proc Natl Acad Sci U S A. (2016); in press [Abstract]


  • Vinella D, Fischer F, Vorontsov E, Gallaud J, Malosse C, Michel V, Cavazza C, Robbe-Saule M, Richaud P, Chamot-Rooke J, Brochier-Armanet C, De Reuse H.
    Evolution of Helicobacter: Acquisition by Gastric Species of Two Histidine-Rich Proteins Essential for Colonization.
    PLoS Pathog. (2015); 11(12):e1005312. [Abstract]
  • Guzzo M, Agrebi R, Espinosa L, Baronian G, Molle V, Mauriello EM, Brochier-Armanet C, Mignot T.
    Evolution and Design Governing Signal Precision and Amplification in a Bacterial Chemosensory Pathway.
    PLoS Genet. (2015); 11(8):e1005460 [Abstract]
  • 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); 112(21):6670-5 [Abstract]
  • Philippon H, Brochier-Armanet C, Perriére G.
    Evolutionary history of phosphatidylinositol- 3-kinases: ancestral origin in eukaryotes and complex duplication patterns.
    BMC Evol Biol. (2015); 15(1):226. [Abstract]
  • Borland S, Oudart A, Prigent-Combaret C, Brochier-Armanet C, Wisniewski-Dyé F.
    Genome-wide survey of two-component signal transduction systems in the plant growth-promoting bacterium Azospirillum.
    BMC Genomics (2015); 16(1):833. [Abstract]
  • Agrebi R, Wartel M, Brochier-Armanet C, Mignot T.
    An evolutionary link between capsular biogenesis and surface motility in bacteria.
    Nat Rev Microbiol. (2015); 13(5):318-26 [Abstract]
  • Petitjean C, Deschamps P, López-García P, Moreira D, Brochier-Armanet C.
    Extending the Conserved Phylogenetic Core of Archaea Disentangles the Evolution of the Third Domain of Life.
    Mol Biol Evol. (2015); 32(5):1242-1254 [Abstract]
  • Ben Hania W, Fadhlaoui K, Brochier-Armanet C, Persillon C, Postec A, Hamdi M, Dolla A, Ollivier B, Fardeau ML, Le Mer J, Erauso G.
    Draft genome sequence of Mesotoga strain PhosAC3, a mesophilic member of the bacterial order Thermotogales, isolated from a digestor treating phosphogypsum in Tunisia.
    Stand Genomic Sci. (2015); 10:12. [Abstract]
  • Koechler S, Arsène-Ploetze F, Brochier-Armanet C, Goulhen-Chollet F, Heinrich-Salmeron A, Jost B, Lièvremont D, Philipps M, Plewniak F, Bertin PN, Lett MC.
    Constitutive arsenite oxidase expression detected in arsenic-hypertolerant Pseudomonas xanthomarina S11.
    Res Microbiol. (2015); 166(3):205-14 [Abstract]
  • Freel KC, Krueger MC, Farasin J, Brochier-Armanet C, Barbe V, Andrès J, Cholley PE, Dillies MA, Jagla B, Koechler S, Leva Y, Magdelenat G, Plewniak F, Proux C, Coppée JY, Bertin PN, Heipieper HJ, Arsène-Ploetze F.
    Adaptation in Toxic Environments: Arsenic Genomic Islands in the Bacterial Genus Thiomonas.
    PLoS One (2015); 10(9):e0139011. [Abstract]
  • LeGoff J, Roques P, Jenabian MA, Charpentier C, Brochier C, Bouhlal H, Gresenguet G, Frost E, Pepin J, Mayaud P, Belec L; ANRS12-12 Study Group.
    Variability of human immunodeficiency virus-1 in the female genital reservoir during genital reactivation of herpes simplex virus type 2.
    Clin Microbiol Infect. 2015 Sep;21(9):873.e1-9 [Abstract]


  • Fraune J, Alsheimer M, Redolfi J, Brochier-Armanet C, Benavente R.
    Protein SYCP2 Is an Ancient Component of the Metazoan Synaptonemal Complex.
    Cytogenet Genome Res. (2014); 144(4):299-305 [Abstract]
  • Lebrette H, Brochier-Armanet C, Zambelli B, de Reuse H, Borezée-Durant E, Ciurli S, Cavazza C.
    Promiscuous Nickel Import in Human Pathogens: Structure, Thermodynamics, and Evolution of Extracytoplasmic Nickel-Binding Proteins.
    Structure (2014); 22(10):1421-32 [Abstract]
  • Zallot R, Brochier-Armanet C, Gaston KW, Forouhar F, Limbach PA, Hunt JF, de Crécy-Lagard V.
    Plant, Animal, and Fungal Micronutrient Queuosine Is Salvaged by Members of the DUF2419 Protein Family.
    ACS Chem Biol. (2014); 9(8):1812-25 [Abstract]
  • Khelifi N, Amin Ali O, Roche P, Grossi V, Brochier-Armanet C, Valette O, Ollivier B, Dolla A, Hirschler-Réa A.
    Anaerobic oxidation of long-chain n-alkanes by the hyperthermophilic sulfate-reducing archaeon, Archaeoglobus fulgidus.
    ISME J. (2014); 8(11):2153-66 [Abstract]
  • Ramulu HG, Groussin M, Talla E, Planel R, Daubin V, Brochier-Armanet C.
    Ribosomal proteins: Toward a next generation standard for prokaryotic systematics?
    Mol Phylogenet Evol. (2014); 75:103-117 [Abstract]
  • Rochette NC, Brochier-Armanet C, Gouy M.
    Phylogenomic test of the hypotheses for the evolutionary origin of eukaryotes.
    Mol Biol Evol. (2014); 31(4):832-45 [Abstract]
  • 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); 6(1):192-212 [Abstract]
  • Amouric A, Liebgott PP, Joseph M, Brochier-Armanet C, Lorquin J.
    Halomonas olivaria sp. nov., a moderately halophilic bacterium isolated from olive-processing effluents.
    Int J Syst Evol Microbiol. (2014); 64(1):46-54 [Abstract]


  • Fraune J, Brochier-Armanet C, Alsheimer M, Benavente R.
    Phylogenies of Central Element Proteins Reveal the Dynamic Evolutionary History of the Mammalian Synaptonemal Complex: Ancient and Recent Components.
    Genetics (2013); 195(3):781-93 [Abstract]
  • Andres J, Arsène-Ploetze F, Barbe V, Brochier-Armanet C, Cleiss-Arnold J, Coppée JY, Dillies MA, Geist L, Joublin A, Koechler S, Lassalle F, Marchal M, Médigue C, Muller D, Nesme X, Plewniak F, Proux C, Ramirez-Bahena MH, Schenowitz C, Sismeiro O, Vallenet D, Santini JM, Bertin PN.
    Life in an arsenic-containing gold mine: genome and physiology of the autotrophic arsenite-oxidizing bacterium Rhizobium sp. NT-26.
    Genome Biol Evol. (2013); 5(5):934-53 [Abstract]
  • 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.
    Res Microbiol. (2013); 164(5):425-38 [Abstract]
  • Ben Hania W, Postec A, Aüllo T, Ranchou-Peyruse A, Erauso G, Brochier-Armanet C, Hamdi M, Ollivier B, Saint-Laurent S, Magot M, Fardeau ML.
    Mesotoga infera sp. nov., a novel mesophilic member of the order Thermotogales, isolated from an underground gas storage in France.
    Int J Syst Evol Microbiol. (2013); 164(5):425-38 [Abstract]


  • Petitjean C, Moreira D, López-García P, Brochier-Armanet C.
    Horizontal gene transfer of a chloroplast DnaJ-Fer protein to Thaumarchaeota and the evolutionary history of the DnaK chaperone system in Archaea.
    BMC Evol Biol. (2012); 12(1):22686(1):155-71 [Abstract] [PDF]
  • Py B, Gerez C, Angelini S, Planel R, Vinella D, Loiseau L, Talla E, Brochier-Armanet C, Garcia Serres R, Latour JM, Ollagnier-de Choudens S, Fontecave M, Barras F.
    Molecular organization, biochemical function, cellular role and evolution of NfuA, an atypical Fe-S carrier.
    Mol Microbiol. (2012); 86(1):155-71 [Abstract]
  • de Crecy-Lagard V, Forouhar F, Brochier-Armanet C, Tong L, Hunt JF.
    Comparative genomic analysis of the DUF71/COG2102 family predicts roles in diphthamide biosynthesis and B12 salvage.
    Biol Direct. (2012); 7(1):32 [Abstract] [PDF]
  • Gribaldo S and Brochier-Armanet C.
    Time for order in microbial systematics.
    Trends Microbiol. (2012); 20(5):209-10 [Abstract]
  • Brochier-Armanet C, Gribaldo S, Forterre P.
    Spotlight on the Thaumarchaeota.
    ISME J (2012); 6(2):227-30 [Abstract]
  • Narasingarao P, Podell S, Ugalde JA, Brochier-Armanet C, Emerson JB, Brocks JJ, Heidelberg KB, Banfield JF, Allen EE.
    De novo metagenomic assembly reveals abundant novel major lineage of Archaea in hypersaline microbial communities.
    ISME J (2012); 6(1):81-93 [Abstract]


  • Brochier-Armanet C, Forterre P, Gribaldo S.
    Phylogeny and evolution of the Archaea: one hundred genomes later.
    Curr Opin Microbiol. (2011); 14(3):274-81 [Abstract]
  • Ben Hania W, Ghodbane R, Postec A, Brochier-Armanet C, Hamdi M, Fardeau ML, Ollivier B.
    Cultivation of the first mesophilic representative ("mesotoga") within the order Thermotogales.
    Syst Appl Microbiol (2011); 34(8):581-5 [Abstract]
  • Trigui H, Masmoudi S, Brochier-Armanet C, Maalej S, Dukan S.
    Survival of extremely and moderately halophilic isolates of Tunisian solar salterns after UV-B or oxidative stress.
    Can J Microbiol. (2011); 57(11):923-33 [Abstract]
  • 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 Evol Biol (2011); 11:265 [Abstract] [PDF]
  • 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.
    New Phytol (2011); 191(4):1108-18 [Abstract]
  • Luciano J, Agrebi R, Le Gall AV, Wartel M, Fiegna F, Ducret A, Brochier-Armanet C, Mignot T.
    Emergence and modular evolution of a novel motility machinery in bacteria.
    PLoS Genet (2011); 7(9):e1002268. [Abstract]
  • Le Fourn C, Brasseur G, Brochier-Armanet C, Pieulle L, Brioukhanov A, Ollivier B, Dolla A.
    An oxygen reduction chain in the hyperthermophilic anaerobe Thermotoga maritima highlights horizontal gene transfer between Thermococcales and Thermotogales.
    Environ Microbiol (2011); 13(8):2132-45. [Abstract]
  • Brochier-Armanet C, Deschamps P, López-García P, Zivanovic Y, Rodríguez-Valera F, Moreira D.
    Complete-fosmid and fosmid-end sequences reveal frequent horizontal gene transfers in marine uncultured planktonic archaea.
    ISME J (2011); 5(8):1291-302. [Abstract]
  • Durand E, Alphonse S, Brochier-Armanet C, Ball G, Douzi B, Filloux A, Bernard C, Voulhoux R.
    The assembly mode of the pseudopilus: a hallmark to distinguish a novel secretion system subtype.
    J Biol Chem (2011); 286(27):24407-16. [Abstract]
  • Heinrich-Salmeron A, Cordi A, Brochier-Armanet C, Halter D, Pagnout C, Abbaszadeh-fard E, Montaut D, Seby F, Bertin PN, Bauda P, Arsène-Ploetze F.
    Unsuspected diversity of arsenite-oxidizing bacteria as revealed by widespread distribution of the aoxB gene in prokaryotes.
    Appl Environ Microbiol (2011); 77(13):4685-92. [Abstract] [PDF]
  • Slyemi D, Moinier D, Brochier-Armanet C, Bonnefoy V, Johnson DB.
    Characteristics of a phylogenetically ambiguous, arsenic-oxidizing Thiomonas sp., Thiomonas arsenitoxydans strain 3As(T) sp. nov.
    Arch Microbiol (2011); 193(6):439-49. [Abstract]
  • Trigui H, Masmoudi S, Brochier-Armanet C, Barani A, Grégori G, Denis M, Dukan S, Maalej S.
    Characterization of heterotrophic prokaryote subgroups in the Sfax coastal solar salterns by combining flow cytometry cell sorting and phylogenetic analysis.
    Extremophiles (2011); 15(3):347-58. [Abstract] [PDF]
  • Coumes-Florens S, Brochier-Armanet C, Guiseppi A, Denizot F, Foglino M.
    A new highly conserved antibiotic sensing/resistance pathway in firmicutes involves an ABC transporter interplaying with a signal transduction system.
    PLoS One (2011); 6(1):e15951. [Abstract] [PDF]
  • Denoeud F, Roussel M, Noel B, Wawrzyniak I, Da Silva C, Diogon M, Viscogliosi E, Brochier-Armanet C, Couloux A, Poulain J, Segurens B, Anthouard V, Texier C, Blot N, Poirier P, Ng GC, Tan KS, Artiguenave F, Jaillon O, Aury JM, Delbac F, Wincker P, Vivarès CP, El Alaoui H.
    Genome sequence of the stramenopile Blastocystis, a human anaerobic parasite.
    Genome Biol (2011); 12(3):R29 [Abstract] [PDF]
  • Trigui H, Masmoudi S, Brochier-Armanet C, Maalej S, Dukan S.
    Characterization of Halorubrum sfaxense sp. nov., a New Halophilic Archaeon Isolated from the Solar Saltern of Sfax in Tunisia.
    Int J Microbiol (2011); 2011:240191.[Abstract]
  • Pompeo F, Luciano J, Brochier-Armanet C, Galinier A.
    The GTPase function of YvcJ and its subcellular relocalization are dependent on growth conditions in Bacillus subtilis.
    J Mol Microbiol Biotechnol (2011); 20(3):156-67 [Abstract]
  • Amouric A, Brochier-Armanet C, Johnson DB, Bonnefoy V, Hallberg KB.
    Phylogenetic and genetic variation among Fe(II)-oxidizing acidithiobacilli supports the view that these comprise multiple species with different ferrous iron oxidation pathways.
    Microbiology (2011); 157(Pt 1):111-22 [Abstract]
  • Gribaldo S, Forterre P, Brochier-Armanet C.
    Archaea and the tree of life.
    Res Microbiol (2011); 162(1):1-4. [Abstract]
  • 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); 162(1):53-70. [Abstract]
  • Auxilien S, Rasmussen A, Rose S, Brochier-Armanet C, Husson C, Fourmy D, Grosjean H, Douthwaite S.
    Specificity shifts in the rRNA and tRNA nucleotide targets of archaeal and bacterial m5U methyltransferases.
    RNA (2011); 17(1):45-53 [Abstract]


  • 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); 8(10):743-52. [Abstract]
  • Spang A, Hatzenpichler R, Brochier-Armanet C, Rattei T, Tischler P, Spieck E, Streit W, Stahl DA, Wagner M, Schleper C
    Distinct gene set in two different lineages of ammonia-oxidizing archaea supports the phylum Thaumarchaeota.
    Trends Microbiol. (2010); 18(8):331-40 [Abstract]
  • Walker CB, la Torre JR, Klotz MG, Urakawa H, Pinel N, Arp DJ, Brochier-Armanet C, Chain PS, Chan PP, Gollabgir A, Hemp J, Hügler M, Karr EA, Könneke M, Shin M, Lawton TJ, Lowe T, Martens-Habbena W, Sayavedra-Soto LA, Lang D, Sievert SM, Rosenzweig AC, Manning G, Stahl DA
    Nitrosopumilus maritimus genome reveals unique mechanisms for nitrification and autotrophy in globally distributed marine crenarchaea.
    Proc Natl Acad Sci U S A. (2010); 107(19):8818-23
    [Abstract] [PDF]
  • de Crécy-Lagard V, Brochier-Armanet C, Urbonavicius J, Fernandez B, Phillips G, Lyons B, Noma A, Alvarez S, Droogmans L, Armengaud J, Grosjean H
    Biosynthesis of wyosine derivatives in tRNA: an ancient and highly diverse pathway in Archaea.
    Mol Biol Evol. (2010); 27(9):2062-77 [Abstract]
  • Arsène-Ploetze F, Koechler S, Marchal M, Coppée JY, Chandler M, Bonnefoy V, Brochier-Armanet C, Barakat M, Barbe V, Battaglia-Brunet F, Bruneel O, Bryan CG, Cleiss-Arnold J, Cruveiller S, Erhardt M, Heinrich-Salmeron A, Hommais F, Joulian C, Krin E, Lieutaud A, Lièvremont D, Michel C, Muller D, Ortet P, Proux C, Siguier P, Roche D, Rouy Z, Salvignol G, Slyemi D, Talla E, Weiss S, Weissenbach J, Médigue C, Bertin PN
    Structure, function, and evolution of the Thiomonas spp. genome.
    PLoS Genet. (2010); 6(2):e1000859.1 [Abstract] [PDF]
  • Salacha R, Kovacic F, Brochier-Armanet C, Wilhelm S, Tommassen J, Filloux A, Voulhoux R, Bleves S
    The Pseudomonas aeruginosa patatin-like protein PlpD is the archetype of a novel Type V secretion system.
    Environ Microbiol. (2010); 12(6):1498-512


  • Gribaldo S, Brochier C
    Phylogeny of prokaryotes: does it exist and why should we care?
    Res Microbiol. (2009); 160(7):513-21. [Abstract]
  • Gribaldo S, Talla E, Brochier-Armanet C
    Evolution of the haem copper oxidases superfamily: a rooting tale.
    Trends Biochem Sci. (2009); 34(8):375-81 [Abstract]
  • Guyon F, Brochier-Armanet C, Guenoche A
    Comparison of alignment free string distances for complete genome phylogeny.
    Advances in Data Analysis and Classification (2009); 3(2):95-108 [Abstract]
  • 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. (2009); 4(4):e5021 [Abstract] [PDF]
  • Oberto J, Breuil N, Hecker A, Farina F, Brochier-Armanet C, Culetto E, Forterre P
    Qri7/OSGEPL, the mitochondrial version of the universal Kae1/YgjD protein, is essential for mitochondrial genome maintenance.
    Nucleic Acids Res. (2009); 37(16):5343-52 [Abstract] [PDF]
  • Vinella D, Brochier-Armanet C, Loiseau L, Talla E, Barras F
    Iron-sulfur (Fe/S) protein biogenesis: phylogenomic and genetic studies of A-type carriers.
    PLoS Genet. (2009); 5:e1000497 [Abstract] [PDF]
  • 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); 26(2):285-97 [Abstract] [PDF]


  • Brochier-Armanet C, Gribaldo S, Forterre P
    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 [Abstract] [PDF]
  • Hingamp P, Brochier C, Talla E, Gautheret D, Thieffry D, Herrmann C
    Metagenome Annotation Using a Distributed Grid of Undergraduate Students.
    PLOS Biology. (2008); 6(11):e296 [Abstract] [PDF]
  • Brochier-Armanet C, Boussau B, Gribaldo S, Forterre P
    Mesophilic crenarchaeota: proposal for a third archaeal phylum, the Thaumarchaeota.
    Nature Reviews Microbiology. (2008); 6:245-252 [Abstract]
  • Elkins JG, Podar M, Graham DE, Makarova KS, Wolf Y, Randau L, Hedlund BP, Brochier-Armanet C, Kunin V, Anderson I, Lapidus A, Goltsman E, Barry K, Koonin EV, Hugenholtz P, Kyrpides N, Wanner G, Richardson P, Keller M, Stetter KO
    A korarchaeal genome reveals insights into the evolution of the Archaea.
    Proc Natl Acad Sci U S A. (2008); 105(23):8102-7 [Abstract] [PDF]
  • Moreira D and Brochier-Armanet C
    Giant viruses, giant chimeras: The multiple evolutionary histories of Mimivirus genes.
    BMC Evol Biol. (2008); 8(1):12 [Abstract] [PDF]
  • Urbonavicius J, Auxilien S, Walbott H, Trachana K, Golinelli-Pimpaneau B, Brochier-Armanet C, Grosjean H
    Acquisition of a bacterial RumA-type tRNA(uracil-54,C5)-methyltransferase by Archaea through an ancient horizontal gene transfer.
    Mol Microbiol. (2008); 67(2):323-35 [Abstract] [PDF]
    Supplementary material S1 to S4


  • de Crécy-Lagard V, Marck C, Brochier-Armanet C, Grosjean H
    Comparative RNomics and modomics in mollicutes: prediction of gene function and evolutionary implications.
    IUBMB Life. (2007); 59(10):634-58 [Abstract] [PDF]
    Supplementary material
    Maximum Likelihood phylogenies of enzymes involved in RNA modification in Mollicutes [PDF]
    Bayesian phylogenies of enzymes involved in RNA modification in Mollicutes [PDF] (all trees were drawn by [TREEDYN] Chevenet et al. BMC Bioinformatics 2006. 7:439)
  • Hecker A, Leulliot N, Gadelle D, Graille M, Justome A, Dorlet P, Brochier C, Quevillon-Cheruel S, Le Cam E, van Tilbeurgh H, Forterre P
    An archaeal orthologue of the universal protein Kae1 is an iron metalloprotein which exhibits atypical DNA-binding properties and apurinic-endonuclease activity in vitro.
    Nucleic Acids Res. (2007); 35(18):6042-51 [Abstract] [PDF]
  • 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 [Abstract] [PDF]
  • Urbonavicius J, Brochier-Armanet C, Skouloubris S, Myllykallio H, Grosjean H
    In vitro detection of the enzymatic activity of folate-dependent tRNA(U54,C5)-methyltransferase.
    Methods Enzymol. (2007); 25:103-19 [Abstract
    Supplementary material
    S1 Table presence/absence of Gid(TrmFO)/TrmA in complete genomes [PDF] [XLS]
    S2 Phylogeny of the GidA/Gid/GidA-related family [PDF]
    S3 Phylogeny of the Gid family [PDF]
  • Brochier-Armanet C and Forterre F
    Widespread distribution of archaeal reverse gyrase in thermophilic bacteria suggests a complex history of vertical inheritance and lateral gene transfers.
    Archaea. (2007); 2(2):83-93 [Abstract] [PDF]
  • Chomont N, Hocini H, Gresenguet G, Brochier C, Bouhlal H, Andreoletti L, Becquart P, Charpentier C, de Dieu Longo J, Si-Mohamed A, Kazatchkine MD, Belec L.
    Early archives of genetically-restricted proviral DNA in the female genital tract after heterosexual transmission of HIV-1.
    AIDS. (2007); 21(2):153-162 [Abstract] [PDF]


  • 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 29;361(1470):1007-22. [Abstract] [PDF]


  • Bapteste E*, Charlebois RL, Macleod D, Brochier C*
    The two tempos of nuclear pore complex evolution: highly adapting proteins in an ancient frozen structure.
    Genome Biology. (2005); 6(10):R85 [Abstract] [PDF]
    *These authors have contributed equally to the work
  • 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(1):36 [Abstract] [PDF]
  • Brochier C, Gribaldo S, Forterre P
    Nanoarchaea: representatives of a novel archaeal phylum or fast-evolving euryarchaeal lineage related to Thermococcales?
    Genome Biology. (2005); 6(5):R42 [Abstract] [PDF]
  • Bapteste E, Brochier C, Boucher Y
    Higher-level classification of the Archaea: on methanogenesis and methanogens.
    Archaea. (2005); 1(5):353-63 [Abstract] [PDF]


  • Brochier C, López-García P, Moreira D
    Horizontal gene transfer and archaeal origin of deoxyhypusine synthase homologous genes in bacteria.
    Gene. (2004); 330:169-76 [Abstract]
  • Brochier C, Forterre P, Gribaldo S
    Archaeal phylogeny based on proteins of the transcription and translation machineries: tackling the Methanopyrus kandleri paradox.
    Genome Biology (2004); 5(3):R17 [Abstract] [PDF]
    Supplementary material [Data sets] [Aditionnal trees]
  • Bapteste E and Brochier C
    On the conceptual difficulties in rooting the tree of life.
    Trends Microbiol. (2004); 12(1):9-13 [Abstract]
  • López-García P*, Brochier C*, Moreira D, Rodriguez-Valera F
    Comparative analysis of a genome fragment of an uncultivated mesopelagic crenarchaeote reveals multiple horizontal gene transfers.
    Environ Microbiol. (2004); 6(1):19-34 [Abstract]
    *These authors have contributed equally to the work


  • Brochier C and Philippe H
    A non-hyperthermophilic ancestor for Bacteria.
    Nature. (2002); 417(6886):244 [Abstract]
  • Matte-Tailliez O*, Brochier C*, Forterre P, Philippe H
    Archaeal phylogeny based on ribosomal proteins.
    Mol. Biol. Evol. (2002); 19(5):631-639 [Abstract] [PDF]
    *These authors have contributed equally to the work
  • Brochier C, Bapteste E, Moreira D, Philippe H
    Eubacterial phylogeny based on translational apparatus proteins.
    Trends Genet. (2002); 18(1):1-5 [Abstract]
  • Forterre, P, Brochier C, Philippe H
    Evolution of the archaea.
    Theor Popul Biol. 2002 Jun;61(4):409-22 [Abstract]


  • Brochier C, Philippe H, Moreira D
    The evolutionary history of ribosomal protein RpS14: horizontal gene transfer at the heart of the ribosome.
    Trends Genet. (2000); 16(12):529-33 [Abstract]