UMR CNRS 5558 Laboratoire de Biométrie et Biologie Évolutive

article :
Brochier-Armanet C, Gribaldo S, Forterre P (2012)
Spotlight on the Thaumarchaeota, ISME, vol. 6(2) pp.227-30

Gribaldo S, Brochier-Armanet C (2012)
Time for order in microbial systematics, Trends in Microbiology, vol. 20 pp.209-210

Narasingarao P, Podell S, Ugalde J A, Brochier-Armanet C, B Emerson J, Brocks J J, Heidelberg K B, Banfield J F, Allen E E (2012)
De novo metagenomic assembly reveals abundant novel major lineage of Archaea in hypersaline microbial communities, ISME, vol. 6 pp.81-93

Amouric A, Brochier-Armanet C, Johnson D B, Bonnefoy V, Hallberg K B (2011)
Phylogenetic and genetic variation among Fe(II)-oxidizing acidithiobacilli supports the view that these comprise multiple species with different ferrous iron oxidation pathways, Microbiology, vol. 155 pp.111-122

Auxilien S, Rasmussen A, Rose S, Brochier-Armanet C, Husson C, Fourmy D, Grosjean H, Douthwaite S (2011)
Specificity shifts in the rRNA and tRNA nucleotide targets of archaeal and bacterial m5U methyltransferases, RNA, vol. 17(1) pp.45-53

Ben Hania W, Ghodbane R, Postec A, Brochier-Armanet C, Hamdi M, Fardeau M-L, Ollivier B (2011)
Cultivation of the first mesophilic representative ("mesotoga") within the order Thermotogales, Systematic and Applied Microbiology, vol. 34 pp.581-5

Boileau C, Eme L, Brochier-Armanet C, Janicki A, Zhang C-C, Latifi A (2011)
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., vol. 191(4) pp.1108-18

Brochier-Armanet C, Deschamps P, Lopez-Garcia P, Zivanovic Y, Rodriguez-Valera F, Moreira D (2011)
Complete-fosmid and fosmid-end sequences reveal frequent horizontal gene transfers in marine uncultured planktonic Thaumarchaeota and Euryarchaeota, ISME, vol. 5(8) pp.1291-302

Brochier-Armanet C, Forterre P, Gribaldo S (2011)
Phylogeny and Evolution of the Archaea: one Hundred Genomes Later, Current opinion in microbiology, vol. 14 pp.274-81

Cotte L, Voirin N, Richard C, Brochier C, Schlienger I, Lack P, Lina B, Vanhems P, Zoulim F (2011)
Factors associated with pandemic influenza A/H1N1 vaccine coverage in a French cohort of HIV-infected patients, Vaccine, vol. pp.1-7

Coumes-Florens S, Brochier-Armanet C, Guiseppi A, Denizot F, Foglino M (2011)
A New Highly Conserved Antibiotic Sensing/Resistance Pathway in Firmicutes Involves an ABC Transporter Interplaying with a Signal Transduction System, PLOS one, vol. 6 pp.789-801

Denoeud F, Roussel, 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, Choo Ng G, Tan K S W, Artiguenave F, Jaillon O, Aury J-M, Delbac F, Wincker P, Vivarès C P, El Alaoui H (2011)
Genome sequence of the stramenopile Blastocystis a human anaerobic parasite, Genome Biology, vol. 12 pp.94-101

Desmond E, Brochier-Armanet C, Forterre P, Gribaldo S (2011)
On the last common ancestor and early evolution of eukaryotes: Reconstructing the history of mitochondrial ribosomes, Res Microbiol, vol. 162 pp.53-70

Durand E, Alphonse S, Brochier-Armanet C, Ball G, Douzi B, Filloux A, Bernard C, Voulhoux R (2011)
The Assembly Mode of the Pseudopilus: a hallmark to distinguish a novel secretion system subtype, J Biol Chem, vol. 286 pp.24407-16

Eme L, Trilles A, Moreira D, Brochier-Armanet C (2011)
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, vol. 57(11) pp.923-33

Heinrich-Salmeron A, Cordi A, Brochier-Armanet C, Halter D, Pagnout C, Abbaszadeh-Fard E, Montaut D, Seby F, Bertin P N, Bauda P, Arsène-Ploetze F (2011)
Unsuspected Diversity of Arsenite-Oxidizing Bacteria Revealed by a Widespread Distribution of the aoxB Gene in Prokaryotes, Appl Environ Microbiol, vol. 77 pp.4685-92

Le Fourn C, Brasseur G, Brochier-Armanet C, Pieulle L, Brioukhanov A, Ollivier B, Dolla A (2011)
An oxygen reduction chain in the hyperthermophilic anaerobe Thermotoga maritima highlights horizontal gene transfer between Thermococcales and Thermotogales, Environ Microbiol, vol. 13 pp.2132-45

Luciano J, Agrebi R, Le Gall AV, Wartel M, Fiegna F, Ducret A, Brochier-Armanet C, Mignot T (2011)
Emergence and Modular Evolution of a Novel Motility Machinery in Bacteria, PLoS GENETICS, vol. 7(9) pp.1409-1418

Pompeo F, Luciano J, Brochier-Armanet C, Galinier A (2011)
The GTPase Function of YvcJ and Its Subcellular Relocalization Are Dependent on Growth Conditions in Bacillus subtilis, J Mol Microbiol Biotechnol, vol. 20 pp.156-67

Slyemi D, Moinier D, Brochier-Armanet C, Bonnefoy V, Johnson D B (2011)
Characteristics of a phylogenetically ambiguous arsenic-oxidizing Thiomonas sp. Thiomonas arsenitoxydans strain 3As(T) sp. nov., Arch Microbiol, vol. 193(6) pp.439-49

Trigui H, Masmoudi S, Brochier-Armanet C, Barani A, Grégori G, Denis M, Dukan S, Maalej S (2011)
Characterization of heterotrophic prokaryote subgroups in the Sfax coastal solar salterns by combining flow cytometry cell sorting and phylogenetic analysis., Extremophiles, vol. 15(3) pp.347-58

Trigui H, Masmoudi S, Brochier-Armanet C, Maalej S, Dukan S (2011)
Characterization of Halorubrum sfaxense sp. nov. a New Halophilic Archaeon Isolated from the Solar Saltern of Sfax in Tunisia, Int J Microbiol, vol. pp.347-58

Trigui H, Masmoudi S, Brochier-Armanet C, Maalej S, Dukan S (2011)
Survival of extremely and moderately halophilic isolates of Tunisian solar salterns after UV-B or oxidative stress, Can J Microbiol, vol. 57(11) pp.923-33

Arsène-Ploetze F, Koechler S, Marchal M, Coppée J-Y, Chandler M, Bonnefoy V, Brochier-Armanet C, Barakat M, Barbe V, Battaglia-Brunet F, Bruneel O, Bryan C G, 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 P N (2010)
Structure function and evolution of the Thiomonas spp. genome, PLoS GENETICS, vol. 6 pp.107-114

Cotte L, Bénet T, BIllioud C, Miailhes P, Scoazec J-Y, Ferry T, Brochier C, Boibieux A, Vanhems P, Chevallier M, Zoulim F (2010)
The role of nucleoside and nucleotide analogues in nodular regenerative hyperplasia in HIV-infected patients: A case control study, Journal of Hepatology, vol. 54 pp.1-8

de Crécy-Lagard V, Brochier-Armanet C, Urbonavicius J, Fernandez B, Philipps G, Lyons B, Noma A, Alvarez S, Droogmans L, Armengaud J, Grosjean H (2010)
Biosynthesis of wyosine derivatives in tRNA: an ancient and highly diverse pathway in Archaea, Mol Biol Evol, vol. 27 pp.2062-77

Gribaldo S, Poole A, Daubin V, Forterre P, Brochier-Armanet C (2010)
The origin of eukaryotes and their relationship with the Archaea: are we at a phylogenomic impasse?, Nature Reviews Microbiology, vol. 8 pp.743-752

Salacha R, Kovacic F, Brochier-Armanet C, Wilhelm S, Tommassen J, Filloux A, Voulhoux R, Bleves S (2010)
The Pseudomonas aeruginosa patatin-like protein PlpD is the archetype of a novel Type V secretion system, Environ Microbiol, vol. 12 pp.1498-512

Spang A, Hatzenpichler R, Brochier-Armanet C, Rattei T, Tischler P, Spieck E, Streit W, Stahl D A, Wagner M, Schleper C (2010)
Distinct gene set in two different lineages of ammoniaoxidizing archaea supports the phylum Thaumarchaeota, Trends Microbiol, vol. 18(8) pp.331-40

Walker C B, la Torre J R, Klotz M G, Urakawa H, Pinel N, Arp D J, Brochier-Armanet C, Chain P S, Chan P P, Gollabgir A, Hemp J, Hügler M, Karr E A, Könneke M, Shin M (2010)
Nitrosopumilus maritimus genome reveals unique mechanisms for nitrification and autotrophy in globally distributed marine crenarchaea, Proc Natl acad, vol. 107 pp.8818-23

Brochier-Armanet C, Talla E, Gribaldo S (2009)
The multiple evolutionary histories of dioxygen reductases: implications for the origin and evolution of aerobic respiration, Mol Biol Evol, vol. 26 pp.285-97

Eme L, Moreira D, Talla E, Brochier-Armanet C (2009)
A complex cell division machinery was present in the last common ancestor of eukaryotes, PloS ONE, vol. 4 pp.235-239

Gribaldo S, Brochier-Armanet C (2009)
Phylogeny of prokaryotes: does it exist and why should we care?, Res Microbiol, vol. 160 pp.513-21

Gribaldo S, Talla E, Brochier-Armanet C (2009)
Evolution of the haem copper oxidases superfamily: a rooting tale, Trends Biochem Sci, vol. 34 pp.375-81

Guyon F, Brochier-Armanet C, Guénoche A (2009)
Comparison of alignment free string distances for complete genome phylogeny, Advances in Data Analysis and Classification, vol. 3 pp.95-108

Oberto J, Breuil N, Hecker A, Farina F, Brochier-Armanet C, Culetto E, Forterre P (2009)
Qri7/OSGEPL the mitochondrial version of the universal Kae1/YgjD protein is essential for mitochondrial genome maintenance, Nucleic Acids Research, vol. 37 pp.5343-52

Vinella D, Brochier-Armanet C, Loiseau L, Talla E, Barras F (2009)
Iron-sulfur (Fe/S) protein biogenesis: phylogenomic and genetic studies of A-type carriers, PLoS GENETICS, vol. 5 pp.261-268

Brochier-Armanet C, Boussau B, Gribaldo S, Forterre P (2008)
Mesophilic crenarchaeota: proposal for a third archaeal phylum the Thaumarchaeota, Nature Reviews Microbiology, vol. 6 pp.245-252

Brochier-Armanet C, Gribaldo S, Forterre P (2008)
DNA Topoisomerase IB in Thaumarchaeota testifies for the presence of this enzyme in the last common ancestor of Archaea and Eucarya, Biol Direct, vol. 3 pp.49-52

Elkins J G, Podar M, Graham D E, Makarova K S, Wolf Y, Randau L, Hedlund B P, Brochier-Armanet C, Kunin V, Anderson I, Lapidus A, Goltsman E, Barry K, Koonin E V, Hugenholtz P, Kyrpides N, Wanner G, Richardson P, Keller M, Stetter K O (2008)
A korarchaeal genome reveals insights into the evolution of the Archaea, Proc Natl Acad Sci USA, vol. 105 pp.8102-7

Hingamp P, Brochier-Armanet C, Talla E, Gautheret D, Thieffry D, Herrmann C (2008)
Metagenome Annotation Using a Distributed Grid of Undergraduate Students, PLOS Biology, vol. 6 pp.239-241

Moreira D, Brochier-Armanet C (2008)
Giant viruses giant chimeras: The multiple evolutionary histories of Mimivirus genes, BMC Evol Biol, vol. 8 pp.1-7

Urbonavicius J, Auxilien S, Walbott H, Trachana K, Golinelli-Pimpaneau B, Brochier-Armanet C, Grosjean H (2008)
Acquisition of a bacterial RumA-type tRNA(uracil-54 C5)methyltransferase by Archaea through an ancient horizontal gene transfer, Mol Microbiol, vol. 67 pp.323-335

Brochier-Armanet C, Forterre P (2007)
Widespread distribution of archaeal reverse gyrase in thermophilic bacteria suggests a complex history of vertical inheritance and lateral gene transfers, Archaea, vol. 2 pp.83-93

Chomont N, Hocini H, Gresenguet G, Brochier-Armanet C, Bouhlal H, Andreoletti L, Becquart P, Charpentier C, de Dieu Longo J, Si-Mohamed A, Kazatchkine M D, Belec L (2007)
Early archives of genetically-restricted proviral DNA in the female genital tract after heterosexual transmission of HIV-1, AIDS, vol. 21 pp.153-162

De Crécy-Lagard V, Marck C, Brochier-Armanet C, Grosjean H (2007)
Comparative RNomics and modomics in mollicutes: prediction of gene function and evolutionary implications, IUBMB Life, vol. 59 pp.634-58

Desmond E, Brochier-Armanet C, Gribaldo S (2007)
Phylogenomics of the archaeal flagellum: rare horizontal gene transfer in a unique motility structure, BMC Evol Biol, vol. 7 pp.53-70

Hecker A, Leulliot N, Gadelle D, Graille M, Justome A, Dorlet P, Brochier-Armanet C, Quevillon-Cheruel S, Le Cam E, van Tilbeurgh H, Forterre P (2007)
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 Research, vol. 35 pp.6042-51

Urbonavicius J, Brochier-Armanet C, Skouloubris S, Myllykallio H, Grosjean H (2007)
In vitro detection of the enzymatic activity of folate-dependent tRNA(U54 C5)methyltransferase, Methods Enzymol, vol. 25 pp.103-19

Gribaldo S, Brochier-Armanet C (2006)
The origin and evolution of Archaea: a state of the art, Philos Trans R Soc Lond B Biol Sci, vol. 361 pp.1007-22

Bapteste E, Brochier-Armanet C, Boucher Y (2005)
Higher-level classification of the Archaea: on methanogenesis and methanogens, Archaea, vol. 1 pp.353-63

Bapteste E, Charlebois R L, Macleod D, Brochier-Armanet C (2005)
The two tempos of nuclear pore complex evolution: highly adapting proteins in an ancient frozen structure, Genome Biology, vol. 6 pp.353-63

Brochier-Armanet C, Forterre P, Gribaldo S (2005)
An emerging phylogenetic core of Archaea: phylogenies of transcription and translation machineries converge following addition of new genome sequences, BMC Evol Biol, vol. 5 pp.83-93

Brochier-Armanet C, Gribaldo S, Forterre P (2005)
Nanoarchaea: representatives of a novel archaeal phylum or fast-evolving euryarchaeal lineage related to Thermococcales?, Genome Biology, vol. 6 pp.49-52

Bapteste E, Brochier-Armanet C (2004)
On the conceptual difficulties in rooting the tree of life, Trends Microbiol, vol. 12 pp.9-13

Brochier-Armanet C, Forterre P, Gribaldo S (2004)
Archaeal phylogeny based on proteins of the transcription and translation machineries: tackling the Methanopyrus kandleri paradox, Genome Biology, vol. 5 pp.83-93

Brochier-Armanet C, Lopez-Garcia P, Moreira D (2004)
Horizontal gene transfer and archaeal origin of deoxyhypusine synthase homologous genes in bacteria, Gene, vol. 330 pp.169-76

Lopez-Garcia P, Brochier-Armanet C, Moreira D, Rodriguez-Valera F (2004)
Comparative analysis of a genome fragment of an uncultivated mesopelagic crenarchaeote reveals multiple horizontal gene transfers, Environ Microbiol, vol. 6 pp.19-34

Brochier-Armanet C, Bapteste E, Moreira D, Philippe H (2002)
Eubacterial phylogeny based on translational apparatus proteins, Trends Genet, vol. 18 pp.1-5

Brochier-Armanet C, Philippe H (2002)
A non-hyperthermophilic ancestor for Bacteria, Nature, vol. 417 pp.50-53

Forterre P, Brochier-Armanet C, Philippe H (2002)
Evolution of the Archaea, Theor Popul Biol, vol. 61 pp.409-422

Matte-Tailliez O, Brochier-Armanet C, Forterre P, Philippe H (2002)
Archaeal phylogeny based on ribosomal proteins, Mol Biol Evol, vol. 19 pp.631-639

Brochier-Armanet C, Philippe H, Moreira D (2000)
The evolutionary history of ribosomal protein RpS14: horizontal gene transfer at the heart of the ribosome, Trends Genet, vol. 16 pp.529-33

book :

Perrière G, Brochier-Armanet C (2010) Concepts et méthodes en phylogénie moléculaire, Springer, 2010