Research Topics
| David MoreiraSummaryCountry: France Publications
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Publications
Global dispersal and ancient cryptic species in the smallest marine eukaryotesJan Slapeta
, , UMR CNRS 8079, , Orsay Cedex, France
Mol Biol Evol 23:23-9. 2006..On the contrary, we show that the morphospecies concept is untenable because it overlooks a large genetic and species diversity and may lead to incorrect biological assumptions...
Ten reasons to exclude viruses from the tree of lifeDavid Moreira
Unité d Ecologie, Systematique et Evolution, UMR CNRS 8, 079, Universite Paris Sud, Batiment 360, 91405 Orsay Cedex, France
Nat Rev Microbiol 7:306-11. 2009..Here, we contend that there is strong evidence against the notion that viruses are alive and represent ancient lineages of the tree of life...
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 eukaryotesLaura Eme
Aix Marseille Universite, Laboratoire de Chimie Bacterienne, UPR CNRS, Marseille, France
BMC Evol Biol 11:265. 2011..APC/C is made of a dozen subunits that assemble into a large complex of ~1.5 MDa, which interacts with various cofactors and targets...- Giant viruses, giant chimeras: the multiple evolutionary histories of Mimivirus genesDavid Moreira
Ecologie, Systematique et Evolution, UMR CNRS 8079, Universite Paris Sud, 91405 Orsay Cedex, France
BMC Evol Biol 8:12. 2008.... - Prokaryotic and eukaryotic community structure in field and cultured microbialites from the alkaline Lake Alchichica (Mexico)Estelle Couradeau
Unité d Ecologie, Systematique et Evolution, CNRS UMR 8079, Universite Paris Sud, Orsay, France
PLoS ONE 6:e28767. 2011..The maintenance of highly diverse natural microbialites in laboratory aquaria holds promise to study the role of different metabolisms in the formation of these structures under controlled conditions... - Archaeal and bacterial community composition of sediment and plankton from a suboxic freshwater pondCéline Briée
Unité d Ecologie, Systematique et Evolution, UMR CNRS 8079, Universite Paris Sud, Batiment 360, 91405 Orsay Cedex, France
Res Microbiol 158:213-27. 2007..The pond is a microbial-based complex ecosystem mainly fueled by the degradation of allochthonous organic matter that maintains tightly coupled carbon and sulfur cycles... - Comparative analysis of genome fragments of Acidobacteria from deep Mediterranean planktonAchim Quaiser
Unité d Ecologie, Systematique et Evolution, CNRS UMR8079, Universite Paris Sud 11, 91405 Orsay, France
Environ Microbiol 10:2704-17. 2008..Thus, our results suggest that Acidobacteria are abundant and represent a significant proportion of the microbial community in the deep-sea ecosystem... - Pan-oceanic distribution of new highly diverse clades of deep-sea diplonemidsEnrique Lara
Unité d Ecologie, Systematique et Evolution, UMR CNRS 8079, Universite Paris Sud, Batiment 360, 91405 Orsay Cedex, France
Environ Microbiol 11:47-55. 2009.... - Comparative metagenomics of bathypelagic plankton and bottom sediment from the Sea of MarmaraAchim Quaiser
Unité d Ecologie, Systematique et Evolution, CNRS UMR8079, Universite Paris Sud 11, Orsay, France
ISME J 5:285-304. 2011..The Marmara sediment clustered with the soil metagenome, highlighting the common ecological role of both types of microbial communities in the degradation of organic matter and the completion of biogeochemical cycles... - The extent of protist diversity: insights from molecular ecology of freshwater eukaryotesJan Slapeta
, , UMR CNRS 8079, , 91405 Orsay Cedex, France
Proc Biol Sci 272:2073-81. 2005..This suggests that, contrary to current ideas, the diversity of freshwater protists is far from being completely described... - Eukaryotic diversity associated with carbonates and fluid-seawater interface in Lost City hydrothermal fieldPurificación López García
Unité d Ecologie, Systematique et Evolution, UMR CNRS 8079, Universite Paris Sud, Batiment 360, 91405 Orsay Cedex, France
Environ Microbiol 9:546-54. 2007..Protist lineages identified in this ecosystem likely correspond to grazers, decomposers and parasites, playing key roles in the food web of the Lost City ecosystem... - Tracking microbial biodiversity through molecular and genomic ecologyPurificación López-García
Unité d Ecologie, Systematique et Evolution, UMR CNRS 8079, Universite Paris Sud, Batiment 360, 91405 Orsay Cedex, France
Res Microbiol 159:67-73. 2008..Interesting questions relating to mechanisms of speciation and evolutionary trends at the smallest and largest phylogenetic scales are emerging... - The environmental clade LKM11 and Rozella form the deepest branching clade of fungiEnrique Lara
Unité d Ecologie, Systematique et Evolution, UMR CNRS 8079, Universite Paris Sud, Batiment 360, 91405 Orsay Cedex, France
Protist 161:116-21. 2010..This novel clade, called here "Rozellida", is the deepest branch of true fungi so far identified, and appears to be extremely diverse in the environment... - Phylogenetic analysis of eukaryotic thiolases suggests multiple proteobacterial originsJuli Peretó
Unité d Ecologie, Systematique et Evolution, UMR CNRS 8079, Universite Paris Sud, Orsay, Cedex, 91405, France
J Mol Evol 61:65-74. 2005..Our analysis suggests that these eukaryotic peroxisomal and mitochondrial thiolases may have been acquired from delta-proteobacteria prior to the ancestor of all known eukaryotes... - Different biogeographic patterns of prokaryotes and microbial eukaryotes in epilithic biofilmsMarie Ragon
Unité d Ecologie, Systematique et Evolution, CNRS UMR 8079, Universite Paris Sud, Orsay, France
Mol Ecol 21:3852-68. 2012..Biological explanations implying a higher dispersal success for bacteria combined with more mobile lifestyles for predatory protists may underlie these different prokaryote versus microbial eukaryote biogeographic patterns... - Comment on "The 1.2-megabase genome sequence of Mimivirus"David Moreira
, , CNRS UMR 8079, , , 91405 Orsay Cedex, France
Science 308:1114; author reply 1114. 2005 - The early evolution of lipid membranes and the three domains of lifeJonathan Lombard
Unité d Ecologie, Systematique et Evolution, Centre National de la Recherche Scientifique Unité Mixte de Recherche 8079, Universite Paris Sud, 91405 Orsay, France
Nat Rev Microbiol 10:507-15. 2012..Here, we discuss the implications of these recent findings for membrane evolution in archaea and bacteria, and for the origin of the eukaryotic cell... - Analysis of a genome fragment of a deep-sea uncultivated Group II euryarchaeote containing 16S rDNA, a spectinomycin-like operon and several energy metabolism genesDavid Moreira
UMR CNRS 8079, Ecologie, , , , 91405 Orsay Cedex, France
Environ Microbiol 6:959-69. 2004..These proteins probably constitute a new succinate dehydrogenase-like oxidoreductase involved in what could be a novel pathway for energy metabolism in Group II euryarchaeota... - Early evolution of the biotin-dependent carboxylase familyJonathan Lombard
Unité d Ecologie, Systematique et Evolution, UMR CNRS 8079, Univ, Paris Sud, 91405 Orsay Cedex, France
BMC Evol Biol 11:232. 2011..This has made difficult the resolution of their evolutionary history up to now... - Signal conflicts in the phylogeny of the primary photosynthetic eukaryotesPhilippe Deschamps
Unité d Ecologie, Systematique et Evolution, UMR CNRS 8079, Universite Paris Sud 11, Orsay Cedex, France
Mol Biol Evol 26:2745-53. 2009..This second possibility would agree with the existence of the subkingdom Biliphyta, joining Glaucophyta and Rhodophyta... - Global eukaryote phylogeny: Combined small- and large-subunit ribosomal DNA trees support monophyly of Rhizaria, Retaria and ExcavataDavid Moreira
Unité d Ecologie, Systematique et Evolution, UMR CNRS 8079, Universite Paris Sud, Orsay Cedex, France
Mol Phylogenet Evol 44:255-66. 2007..Nonetheless, our results suggest that combined SSU+LSU rDNA phylogenies can help to resolve several ambiguous regions of the eukaryotic tree and identify key taxa for subsequent multi-gene analyses... - An updated view of kinetoplastid phylogeny using environmental sequences and a closer outgroup: proposal for a new classification of the class KinetoplasteaDavid Moreira
UMR CNRS 8079, Ecologie, Systematique et Evolution, Universite Paris Sud, Batiment 360, 91405 Orsay Cedex, France
Int J Syst Evol Microbiol 54:1861-75. 2004..The classification of the species formerly included in the genus Bodo is also revised, with the amendment of this genus and the genus Parabodo and the creation of a new genus, Neobodo... - Comparative analysis of a genome fragment of an uncultivated mesopelagic crenarchaeote reveals multiple horizontal gene transfersPurificación López-García
UMR CNRS 8079, Ecologie, Systematique et Evolution, Universite Paris Sud, Batiment 360, 91405 Orsay, France
Environ Microbiol 6:19-34. 2004..We hypothesise that the acquisition of genes from mesophilic bacteria and euryarchaeota has played a major role in the adaptation of Group I crenarchaeota to life at lower temperatures... - Metagenomic analysis of mesopelagic Antarctic plankton reveals a novel deltaproteobacterial groupDavid Moreira
, , CNRS UMR 8079, , 91405 Orsay Cedex, France
Microbiology 152:505-17. 2006..DeepAnt-32C6 carried some predicted genes involved in metabolic pathways that suggested this organism may be anaerobic and able to ferment and to degrade complex compounds extracellularly... - Are hydrothermal vents oases for parasitic protists?David Moreira
Unité d Ecologie, Systematique et Evolution, UMR CNRS 8079, Universite Paris Sud, Batiment 360, 91405 Orsay, France
Trends Parasitol 19:556-8. 2003 - Origins and early evolution of the mevalonate pathway of isoprenoid biosynthesis in the three domains of lifeJonathan Lombard
Unité d Ecologie, Systematique et Evolution, Centre National de la Recherche Scientifique, Universite Paris Sud, Orsay, France
Mol Biol Evol 28:87-99. 2011..These findings open the possibility that the cenancestor had membranes containing isoprenoids... - Highly diverse and seasonally dynamic protist community in a pristine peat bogEnrique Lara
Unité d Ecologie, Systematique et Evolution, UMR CNRS 8079, Universite Paris Sud, Batiment 360, 91405 Orsay Cedex, France
Protist 162:14-32. 2011..A few phylotypes (such as a cryptomonad and a perkinsid) were abundant at given sampling times and then almost disappeared, suggesting bloom-like dynamics... - Eukaryotic diversity and phylogeny using small- and large-subunit ribosomal RNA genes from environmental samplesWilliam Marande
Unité d Ecologie, Systematique et Evolution, UMR CNRS 8079, Univ Paris Sud 11, Batiment 360, 91405 Orsay Cedex, France
Environ Microbiol 11:3179-88. 2009..These results suggest that this method can be useful, in particular for the analysis of eukaryotic microbial communities rich in phylotypes of difficult phylogenetic ascription... - Ancestral lipid biosynthesis and early membrane evolutionJuli Peretó
Unité d Ecologie, Systematique et Evolution, UMR CNRS 8079, Universite Paris Sud, 91405 Orsay Cedex, France
Trends Biochem Sci 29:469-77. 2004..The cenancestor seems likely to have been endowed with membrane lipids whose synthesis was enzymatic but probably non-stereospecific... - Reevaluating the green contribution to diatom genomesPhilippe Deschamps
Unité d Ecologie, Systematique et Evolution, UMR CNRS 8079, Univ Paris Sud, Orsay, France
Genome Biol Evol 4:683-8. 2012..We conclude that, even if some diatom genes still support a putative green algal origin, these are not sufficient to argue for a cryptic green algal secondary endosymbiosis... - Phylogenomic Analysis of Kinetoplastids Supports That Trypanosomatids Arose from within BodonidsPhilippe Deschamps
Unité d Ecologie, Systematique et Evolution, UMR CNRS 8079, Univ Paris Sud, 91405 Orsay, France
Mol Biol Evol 28:53-8. 2011..Mitochondrial mRNA editing appears to be an ancient phenomenon in kinetoplastids... - Sunlight-exposed biofilm microbial communities are naturally resistant to chernobyl ionizing-radiation levelsMarie Ragon
Unité d Ecologie, Systématique et Evolution CNRS UMR8079, Universite Paris Sud, Orsay, France
PLoS ONE 6:e21764. 2011..Environments enduring extreme desiccation and UV radiation, such as sunlight exposed biofilms could in principle select for organisms highly resistant to ionizing radiation as well... - Bacterial diversity and carbonate precipitation in the giant microbialites from the highly alkaline Lake Van, TurkeyPurificación López-García
Unité d Ecologie, Systematique et Evolution, UMR CNRS 8079, Universite Paris Sud, Orsay Cedex, France
Extremophiles 9:263-74. 2005..These heterotrophic bacteria may play a crucial role in the formation of Lake Van microbialites by locally promoting carbonate precipitation... - Phylogenomic investigation of phospholipid synthesis in archaeaJonathan Lombard
Unité d Ecologie Systématique et Evolution, CNRS UMR 8079, Universite Paris Sud, 91405 Orsay Cedex, France
Archaea 2012:630910. 2012..These results support that most of these enzymes can be traced back to the last archaeal common ancestor and, in many cases, even to the last common ancestor of all living organisms... - Bacterial diversity in hydrothermal sediment and epsilonproteobacterial dominance in experimental microcolonizers at the Mid-Atlantic RidgePurificación López-García
UMR CNRS 8079, Ecologie, Systematique et Evolution, Universite Paris Sud, Batiment 360, 91405 Orsay Cedex, France
Environ Microbiol 5:961-76. 2003..This suggests that these cells were metabolizing sulphur in situ... - An ACP-Independent Fatty Acid Synthesis Pathway in Archaea: Implications for the Origin of PhospholipidsJonathan Lombard
Unité d Ecologie, Systematique et Evolution, Universite Paris Sud, Orsay, France
Mol Biol Evol 29:3261-5. 2012..This has not only implications for archaeal physiology but also opens the possibility for the presence of ACP-independent FA synthesis in the cenancestor, which may have been endowed with FA-phospholipid membranes... - Molecular phylogeny of tintinnid ciliates (Tintinnida, Ciliophora)Charles Bachy
Unité d Ecologie, Systematique et Evolution, CNRS UMR 8079, Universite Paris Sud, Batiment 360, 91405 Orsay Cedex, France
Protist 163:873-87. 2012..Notably, the diversity of freshwater forms suggests multiple marine-freshwater invasions... - Diversity and vertical distribution of microbial eukaryotes in the snow, sea ice and seawater near the north pole at the end of the polar nightCharles Bachy
Unité d Ecologie, Systematique et Evolution, UMR CNRS 8079, Université Paris Sud Orsay, France
Front Microbiol 2:106. 2011..Whereas strict phototrophs were scarce, we identified a variety of likely mixotrophic taxa, which supports the idea that mixotrophy may be important for the survival of diverse protists through the long polar night... - Selective forces for the origin of the eukaryotic nucleusPurificación López-García
Unité d Ecologie, Systematique et Evolution, CNRS UMR8079, Universite Paris Sud, 91405 Orsay Cedex, France
Bioessays 28:525-33. 2006.... - Rampant horizontal gene transfer and phospho-donor change in the evolution of the phosphofructokinaseEric Bapteste
Equipe Phylogenie, Bioinformatique et Génome, UMR CNRS 7622, Universite Pierre et Marie Curie, 9 Quai St Bernard, 75005 Paris, France
Gene 318:185-91. 2003..These rampant HGT events and flexibility in phospho-donor use illustrate the importance of tinkering in molecular evolution... - Hindsight in the relative abundance, metabolic potential and genome dynamics of uncultivated marine archaea from comparative metagenomic analyses of bathypelagic plankton of different oceanic regionsAna Belén Martín-Cuadrado
Division of Microbiology, Universidad Miguel Hernandez, Alicante, Spain
ISME J 2:865-86. 2008..These observations, along with variations in GC content, led us to hypothesize that the two groups of organisms have fundamentally different lifestyles... - The molecular ecology of microbial eukaryotes unveils a hidden worldDavid Moreira
Universite Pierre et Marie Curie, UMR 7622, 9, quai St Bernard, 75005 Paris, France
Trends Microbiol 10:31-8. 2002..For both ecology and evolutionary studies, it is predicted that environmental molecular identification of eukaryotes will have a profound impact in the immediate future... - Evolution of eukaryotic translation elongation and termination factors: variations of evolutionary rate and genetic code deviationsDavid Moreira
, , UMR 7622 CNRS, Paris, France
Mol Biol Evol 19:189-200. 2002.... - Wide bacterial diversity associated with tubes of the vent worm Riftia pachyptilaPurificación López-García
UMR 7622 CNRS, Laboratoire de Biologie Marine, Universite Pierre et Marie Curie, 7, quai St Bernard, 75005 Paris, France
Environ Microbiol 4:204-15. 2002..The bacterial diversity found suggests that complex metabolic interactions, particularly based on sulphur chemistry, may be occurring in different microniches of the R. pachyptila tubes... - Autochthonous eukaryotic diversity in hydrothermal sediment and experimental microcolonizers at the Mid-Atlantic RidgePurificación López-García
Biologie Marine, Unite Mixte de Recherche, Centre National de la Recherche Scientifique 7622, Universite Pierre et Marie Curie, 7 quai St Bernard, 75005 Paris, France
Proc Natl Acad Sci U S A 100:697-702. 2003..This finding can boost further studies on deep-sea vent animal biology and biogeography... - Horizontal gene transfer and archaeal origin of deoxyhypusine synthase homologous genes in bacteriaCeline Brochier
Equipe Phylogénomique, Université Aix Marseille I, 3 Place Victor Hugo, 13331 Marseille Cedex 3, France
Gene 330:169-76. 2004..This is exemplified by the fact that, in archaea, the complex evolutionary history of the DHS is not paralleled by that of the IF-5A, indicating that these proteins do not follow a perfect co-evolution... - Macrofilamentous microbial communities in the metal-rich and acidic River Tinto, SpainAna I López-Archilla
Departamento de Ecologia, Universidad Autonoma de Madrid, Cantoblanco, 28049 Madrid, Spain
FEMS Microbiol Lett 235:221-8. 2004..Bacteria of the Tinto macrofilaments might be heterotrophic, and could be feeding on the organic matter entrapped in the filamentous structure... - Eubacterial phylogeny based on translational apparatus proteinsCeline Brochier
Phylogénie, Bioinformatique et Génome, UMR 7622 CNRS, Universite Pierre et Marie Curie, 9, quai St Bernard, 75005 Paris, France
Trends Genet 18:1-5. 2002..Few of the genes studied show evidence for transfer. The phylogeny based on the genes devoid of transfer is very consistent with the ribosomal RNA tree, suggesting that an eubacterial phylogeny does exist... - The nucleolar proteome and the (endosymbiotic) origin of the nucleusDavid Moreira
Bioessays 26:1144-5; author reply 1145-7. 2004 - Evolutionary relationships of Fusobacterium nucleatum based on phylogenetic analysis and comparative genomicsAlex Mira
Evolutionary Genomics Group, Division de Microbiologia, Universidad Miguel Hernandez, Apartado 18, San Juan 03550, Alicante, Spain
BMC Evol Biol 4:50. 2004..Taking advantage of the recent completion of the Fusobacterium nucleatum genome sequence we have examined the evolutionary relationships of Fusobacterium genes by phylogenetic analysis and comparative genomics tools... - Diversity of functional genes of methanogens, methanotrophs and sulfate reducers in deep-sea hydrothermal environmentsOlivier Nercessian
UMR 6539, Laboratoire des Sciences de l'Environnement Marin, Centre National de la Recherche Scientifique, , , Place Nicolas Copernic, 29280 Plouzan, France
Environ Microbiol 7:118-32. 2005..This study provides for the first time an insight into the diversity of several functional genes of deep-sea hydrothermal system microorganisms... - Polyubiquitin insertions and the phylogeny of Cercozoa and RhizariaDavid Bass
Department of Zoology, University of Oxford, South Parks Road, Oxford OX1 3PS, UK
Protist 156:149-61. 2005..e. that the second insertion took place earlier, in the ancestral filosan, and was followed by three independent reversions to a single amino acid in Chlorarachnea, Metopion and Cercobodo... - Metabolic symbiosis and the birth of the plant kingdomPhilippe Deschamps
Universite des Sciences et Technologies de Lille, Unité Mixte de Recherches 8576 du Centre National de la Recherche Scientifique, Cite Scientifique, Villeneuve d Ascq, France
Mol Biol Evol 25:536-48. 2008..We further speculate that the monophyletic origin of plastids may lie in an organism with close relatedness to present-day group V cyanobacteria... - Uncultured Archaea in a hydrothermal microbial assemblage: phylogenetic diversity and characterization of a genome fragment from a euryarchaeoteHélène Moussard
Laboratoire de Microbiologie des Environnements Extrêmes, UMR 6197, Centre National de la Recherche Scientifique, IFREMER, Universite de Bretagne Occidentale, Institut Universitaire Europeen de la Mer, Plouzane, France
FEMS Microbiol Ecol 57:452-69. 2006..This study is the first step in using genomics to reveal the physiology of an as yet uncultured group of archaea from deep-sea hydrothermal vents... - Thermophilic lifestyle for an uncultured archaeon from hydrothermal vents: evidence from environmental genomicsHélène Moussard
Laboratoire de Microbiologie des Environnements Extrêmes, UMR 6197, Centre National de la Recherche Scientifique, Ifremer and Université de Bretagne Occidentale, Orsay, France
Appl Environ Microbiol 72:2268-71. 2006.... - Present status of the molecular ecology of kathablepharidsJan Slapeta
Protist 157:7-11. 2006 - Aurigamonas solis n. gen., n. sp., a soil-dwelling predator with unusual helioflagellate organisation and belonging to a novel clade within the CercozoaKeith Vickerman
Division of Environmental and Evolutionary Biology, University of Glasgow, Glasgow G12 8QQ, UK
Protist 156:335-54. 2005..This conclusion is supported further by the presence of only a single amino acid insertion in the polyubiquitin sequence of Aurigamonas solis... - Toward the monophyly of Haeckel's radiolaria: 18S rRNA environmental data support the sisterhood of polycystinea and acanthareaPurificación López-García
Mol Biol Evol 19:118-21. 2002 - Phytoplankton diversity and cyanobacterial dominance in a hypereutrophic shallow lake with biologically produced alkaline pHAna Isabel López-Archilla
Departamento de Ecologia, Universidad Autonoma de Madrid, Cantoblanco, 28049, Madrid, Spain
Extremophiles 8:109-15. 2004..Santa Olalla's cyanobacteria are alkaliphilic and/or extremely alkalitolerant and appear to be responsible for the generation and maintenance of stable high-pH conditions in their environment... - A metagenomic analysis of soil bacteria extends the diversity of quorum-quenching lactonasesKashif Riaz
Institut des Sciences du Vegetal, Centre National de la Recherche Scientifique, UPR2355, Gif sur Yvette, France
Environ Microbiol 10:560-70. 2008..coli. Phylogenetic analysis showed that 9 orf out of 20 were related to sequences from members of the Acidobacteria, supporting the hypothesis that the analysed insert might be originated from an organism related to this phylum...