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Bargues N, Lerat E (2017)
Evolutionary history of LTR-retrotransposons among 20 Drosophila species, Mobile DNA, vol. 8 pp.7-7.

Fablet M, Salces Ortiz J, Menezes B, Roy M, Vieira C (2017)
Self and Nonself from a Genomic Perspective: Transposable Elements
in: Evolutionary Biology: Self/Nonself Evolution Species and Complex Traits Evolution Methods and Concepts, , pp.111-128.

Goubert C, Henri H, Minard G, Valiente Moro C, Mavingui P, Vieira C, Boulesteix M (2017)
High-throughput sequencing of transposable element insertions suggests adaptive evolution of the invasive Asian tiger mosquito towards temperate environments, Molecular ecology, vol. 26 pp.3968-3981.

Jacquet A, Horard B, Loppin B (2017)
Does pupal communication influence Wolbachia-mediated cytoplasmic incompatibility?, Current biology, vol. 27 pp.R53-R55.

Lefebure T, Morvan C, Malard F, Francois C, Konecny-Dupre L, Gueguen L, Weiss-Gayet M, Seguin-Orlando A, Ermini L, Sarkissian C, Charrier N P, Eme D, Mermillod-Blondin F, Duret L, Vieira C, Orlando L, Douady CJ (2017)
Less effective selection leads to larger genomes, Genome research, vol. 27 pp.1016-1028.

Lima L, Sinaimeri B, Sacomoto G, Lopez-Maestre H, Marchet C, Miele V, Sagot MF, Lacroix V (2017)
Playing hide and seek with repeats in local and global de novo transcriptome assembly of short RNA-seq reads, Algorithms for Molecular Biology, vol. 12 pp.2-2.

Lopez-Maestre H (2017)
Analyses et méthodes pour les données transcriptomiques issues d’espèces non modèles variation de l’expression des éléments transposables (et des gènes) et variants nucléotidiques .

Lopez-Maestre H, Carnelossi EA, Lacroix V, Burlet N, Mugat B, Chambeyron S, Carareto CM, Vieira C (2017)
Identification of misexpressed genetic elements in hybrids between Drosophila-related species, Scientific reports, vol. 7 pp.40618-40618.

Mohamed AM, Balsat M, Koering C, Maucort-Boulch D, Boissel N, Payen-Gay L, Cheok M, Mortada H, Auboeuf D, Pinatel C, El-Hamri M, Tigaud I, Hayette S, Dumontet C, Cros E, Flandrin-Gresta P, Nibourel O, Preudhomme C, Thomas X, Nicolini F E, Solly F, Guyotat D, Campos L, Michallet M, Ceraulo A, Mortreux F, Wattel E (2017)
TET2 exon 2 skipping is an independent favorable prognostic factor for cytogenetically normal acute myelogenous leukemia (AML): TET2 exon 2 skipping in AML, Leukemia research, vol. 56 pp.21-28.

Moulin S, Seux N, Chretien S, Guyeux C, Lerat E (2017)
Simulation-based estimation of branching models for LTR retrotransposons, Bioinformatics, vol. 33 pp.320-326.

Romero-Soriano V, Modolo L, Lopez-Maestre H, Mugat B, Pessia E, Chambeyron S, Vieira C, Garcia Guerreiro MP (2017)
Transposable Element Misregulation Is Linked to the Divergence between Parental piRNA Pathways in Drosophila Hybrids, Genome biology and evolution, vol. 9 pp.1450-1470.

Venner S, Miele V, Terzian C, Biemont C, Daubin V, Feschotte C, Pontier D (2017)
Ecological networks to unravel the routes to horizontal transposon transfers, PLoS Biology, vol. 15 pp.e2001536-e2001536.

Calatayud P A, Petit C, Burlet N, Dupas S, Glaser N, Capdevielle-Dulac C, Le Ru B, Jacquin-Joly E, Kaiser-Arnauld L, Harry M, Vieira C (2016)
Is genome size of Lepidoptera linked to host plant range?, Entomologia Experimentalis et Applicata, vol. 159 pp.354-361.

Fablet M (2016)
HDR - Variabilité naturelle des éléments transposables et régulation épigénétique .

Goubert C, Minard G, Vieira C, Boulesteix M (2016)
Population genetics of the Asian tiger mosquito Aedes albopictus an invasive vector of human diseases, Heredity, vol. 117 pp.125-34.

Grégoire L, Haudry A, Lerat E (2016)
The transposable element environment of human genes is associated with histone and expression changes in cancer, BMC Genomics, vol. 17 pp.588-588.

Lerat E, Fablet M, Modolo L, Lopez-Maestre H, Vieira C (2016)
TEtools facilitates big data expression analysis of transposable elements and reveals an antagonism between their activity and that of piRNA genes, Nucleic Acids Research, vol. 45 pp.e17-e17.

Lopez-Maestre H, Brinza L, Marchet C, Kielbassa J, Bastien S, Boutigny M, Monnin D, El Filali A, Carareto CM, Vieira C, Picard F, Kremer N, Vavre F, Sagot MF, Lacroix V (2016)
SNP calling from RNA-seq data without a reference genome: identification quantification differential analysis and impact on the protein sequence, Nucleic Acids Research, vol. 44 pp.1-13.

Romero-Soriano V, Burlet N, Vela D, Fontdevila A, Vieira C, Garcia Guerreiro MP (2016)
Drosophila Females Undergo Genome Expansion after Interspecific Hybridization, Genome Biology and Evolution, vol. 8 pp.556-61.

Sessegolo C, Burlet N, Haudry A (2016)
Strong phylogenetic inertia on genome size and transposable element content among 26 species of flies, Biology Letters, vol. 12 pp.20160407-20160407.

Belkorchia A, Gasc C, Polonais V, Parisot N, Gallois N, Ribiere C, Lerat E, Gaspin C, Pombert J F, Peyret P, Peyretaillade E (2015)
The Prediction and Validation of Small CDSs Expand the Gene Repertoire of the Smallest Known Eukaryotic Genomes, PLoS One, vol. 10 pp.e0139075-e0139075.

Goubert C (2015)
Bases génétiques de l`adaptation du moustique tigre Aedes albopictus à de nouveaux environnements : une approche sans a priori reposant sur les éléments transposables .

Goubert C, Modolo L, Vieira C, ValienteMoro C, Mavingui P, Boulesteix M (2015)
De novo assembly and annotation of the Asian tiger mosquito (Aedes albopictus) repeatome with dnaPipeTE from raw genomic reads and comparative analysis with the yellow fever mosquito (Aedes aegypti), Genome Biology and Evolution, vol. 7 pp.1192-205.

Hoen D R, Hickey G, Bourque G, Casacuberta J, Cordaux R, Feschotte C, Fiston-Lavier A S, Hua-Van A, Hubley R, Kapusta A, Lerat E, Maumus F, Pollock D D, Quesneville H, Smit A, Wheeler T J, Bureau T E, Blanchette M (2015)
A call for benchmarking transposable element annotation methods, Mobile DNA, vol. 6 pp.13-13.

Minard G, Tran FH, Van VT, Goubert C, Bellet C, Lambert G, Kim KL, Thuy TH, Mavingui P, Valiente Moro C (2015)
French invasive Asian tiger mosquito populations harbor reduced bacterial microbiota and genetic diversity compared to Vietnamese autochthonous relatives, Frontiers in microbiology, vol. 6 pp.970-970.

Modolo L, Lerat E (2015)
UrQt: an efficient software for the Unsupervised Quality trimming of NGS data, BMC Bioinformatics, vol. 16 pp.137-137.

Bailly-Bechet M, Haudry A, Lerat E (2014)
“One code to find them all”: a perl tool to conveniently parse RepeatMasker output files, Mobile DNA, vol. 5 pp.13-13.

Basquin D, Spierer A, Begeot F, Koryakov D E, Todeschini A L, Ronsseray S, Vieira C, Spierer P, Delattre M (2014)
The textitDrosophila Su(var)3-7 Gene Is Required for Oogenesis and Female Fertility Genetically Interacts with piwi and aubergine but Impacts Only Weakly Transposon Silencing, PLoS one, vol. 9 pp.e96802-e96802.

Biemont C, Vieira C (2014)
Could interallelic interactions be a key to the epigenetic aspects of fitness-trait inbreeding depression?, Heredity, vol. 112 pp.219-20.

Blanc S, Ruggiero F, Birot A M, Acloque H, Decimo D, Lerat E, Ohlmann T, Samarut J, Mey A (2014)
Subcellular Localization of ENS-1/ERNI in Chick Embryonic Stem Cells, PLoS one, vol. 9 pp.e92039-e92039.

Carareto CM, Hernandez EH, Vieira C (2014)
Genomic regions harboring insecticide resistance-associated Cyp genes are enriched by transposable element fragments carrying putative transcription factor binding sites in two sibling Drosophila species, Gene, vol. 537 pp.93-9.

Carnelossi E A, Lerat E, Henri H, Martinez S, Carareto C M, Vieira C (2014)
Specific activation of an I-like element in Drosophila interspecific hybrids, Genome Biology and Evolution, vol. 6 pp.1806-17.

Fablet M (2014)
Host Control of Insect Endogenous Retroviruses: Small RNA Silencing and Immune Response, Viruses-Basel, vol. 6 pp.4447-4464.

Fablet M, Akkouche A, Braman V, Vieira C (2014)
Variable expression levels detected in the Drosophila effectors of piRNA biogenesis, Gene, vol. 537 pp.149-53.

Mallinjoud P, Villemin J P, Mortada H, Polay Espinoza M, Desmet F O, Samaan S, Chautard E, Tranchevent L C, Auboeuf D (2014)
Endothelial epithelial and fibroblast cells exhibit specific splicing programs independently of their tissue of origin, Genome research, vol. 24 pp.511-21.

Modolo L (2014)
Analyse bioinformatique des événements de transferts horizontaux entre espèces de drosophiles et lien avec la régulation des éléments transposables .

Modolo L, Picard F, Lerat E (2014)
A new genome-wide method to track horizontally transferred sequences: application to Drosophila, Genome Biology and Evolution, vol. 6 pp.416-32.

Panek J, El Alaoui H, Mone A, Urbach S, Demettre E, Texier C, Brun C, Zanzoni A, Peyretaillade E, Parisot N, Lerat E, Peyret P, Delbac F, Biron D G (2014)
Hijacking of Host Cellular Functions by an Intracellular Parasite the Microsporidian Anncaliia algerae, PLoS one, vol. 9 pp.e100791-e100791.

Parisot N, Pelin A, Gasc C, Polonais V, Belkorchia A, Panek J, El Alaoui H, Biron D G, Brasset E, Vaury C, Peyret P, Corradi N, Peyretaillade E, Lerat E (2014)
Microsporidian Genomes Harbor a Diverse Array of Transposable Elements that Demonstrate an Ancestry of Horizontal Exchange with Metazoans, Genome Biology and Evolution, vol. 6 pp.2289-300.

Peyretaillade E, Boucher D, Parisot N, Gasc C, Butler R, Pombert J F, Lerat E, Peyret P (2014)
Exploiting the architecture and the features of the microsporidian genomes to investigate diversity and impact of these parasites on ecosystems, Heredity, vol. 114 pp.441-449.

Roquis D, Lepesant J, Villafan E, Boissier J, Vieira C, Cosseau C, Grunau C (2014)
Exposure to hycanthone alters chromatin structure around specific gene functions and specific repeats in Schistosoma mansoni, Frontiers in Genetics, vol. 5 pp.207-207.

Vela D, Fontdevila A, Vieira C, García Guerreiro MP (2014)
A Genome-Wide Survey of Genetic Instability by Transposition in Drosophila Hybrids, PLoS one, vol. 9 pp.e88992-e88992.

Williamson R J, Josephs E B, Platts A E, Hazzouri K M, Haudry A, Blanchette M, Wright S I (2014)
Evidence for Widespread Positive and Negative Selection in Coding and Conserved Noncoding Regions of Capsella grandiflora, PLoS genetics, vol. 10 pp.e1004622-e1004622.

Akkouche A, Grentzinger T, Fablet M, Armenise C, Burlet N, Braman V, Chambeyron S, Vieira C (2013)
Maternally deposited germline piRNAs silence the tirant retrotransposon in somatic cells, EMBO Reports, vol. 14 pp.458-64.

Goubert C, Josso C, Louapre P, Cortesero AM, Poinsot D (2013)
Short- and long-range cues used by ground-dwelling parasitoids to find their host, Naturwissenschaften, vol. 100 pp.177-84.

Gueguen L, Gaillard S, Boussau B, Gouy M, Groussin M, Rochette N, Bigot T, Fournier D, Pouyet F, Cahais V, Bernard A, Scornavacca C, Nabholz B, Haudry A, Dachary L, Galtier N, Belkhir K, Dutheil J Y (2013)
Bio++: Efficient Extensible Libraries and Tools for Computational Molecular Evolution, Molecular Biology and Evolution, vol. 30 pp.1745-1750.

Haudry A, Platts AE, Vello E, Hoen DR, Leclercq M, Williamson RJ, Forczek E, Joly-Lopez Z, Steffen JG, Hazzouri KM, Dewar K, Stinchcombe JR, Schoen DJ, Wang X, Schmutz J, Town CD, Edger PP, Pires JC, Schumaker KS, Jarvis DE, Mandakova T, Lysak MA, van den Bergh E, Schranz ME, Harrison PM, Moses AM, Bureau TE, Wright SI, Blanchette M (2013)
An atlas of over 90 000 conserved noncoding sequences provides insight into crucifer regulatory regions, Nature Genetics, vol. 45 pp.891-U228.

Modolo L, Lerat E (2013)
Identification and Analysis of Transposable Elements in Genomic Sequences
in: Genome analysis current procedures and applications, Caister Academic Press, pp.813-819.

Ainouche A, Bétermier M, Chandler M, Cordaux R, Cristofari G, Deragon JM, Lesage P, Panaud O, Quesneville H, Vaury C, Vieira C, Vitte C (2012)
International Congreee on Transposable Elements (ICTE) 2012 in Saint Malo and the sea of TE stories, Mobile DNA, vol. 3 pp.17-17.

Akkouche A (2012)
Régulation épigénétique d’un rétrovirus endogène tirant dans la lignée germinale de la drosophile .

Akkouche A, Rebollo R, Burlet N, Esnault C, Martinez S, Vignier B, Terzian C, Vieira C, Fablet M (2012)
tirant a Newly Discovered Active Endogenous Retrovirus in Drosophila simulans, Journal of Virology, vol. 86 pp.3675-3681.

Haudry A, Zha H G, Stift M, Mable B K (2012)
Disentangling the effects of breakdown of self-incompatibility and transition to selfing in North-American Arabidopsis lyrata, Molecular Ecology, vol. 21 pp.1130-1142.

Kraaijeveld K, Zwanenburg B, Hubert B, Vieira C, De Pater S, Van Alphen JJM, Den Dunnen JT, De Knijff P (2012)
Transposon proliferation in an asexual parasitoid, Molecular Ecology, vol. 21 pp.3898-3906.

Metri A-A, Sidi-Yakhlef A, Biémont C, Saïdi M, Chaïf O, Ouraghi S-A (2012)
A genetic study of nine populations from the region of Tlemcen in Western Algeria: a comparative analysis on the Mediterranean scale, Anthropological Science, vol. 120 pp.209-216.

Mey A, Acloque H, Lerat E, Gounel S, Tribollet V, Blanc S, Curton D, Birot A-M, Nieto A, Samarut J (2012)
The endogenous retrovirus ENS-1 provides active binding sites for transcription factors in embryonic stem cells that specify extra embryonic tissue, Retrovirology, vol. 9 pp.21-21.

Perot P, Mugnier N, Montgiraud C, Gimenez J, Jaillard M, Bonnaud B, Mallet F (2012)
Microarray-based sketches of the HERV transcriptome landscape, PLoS one, vol. 7 pp.e40194-e40194.

Rebollo R, Horard B, Begeot F, Delattre M, Gilson E, Vieira C (2012)
A snapshot of histone modifications within transposable elements in Drosophila wild type strains, PLoS One, vol. 7 pp.e44253-e44253.

Vieira C, Fablet M, Lerat E, Boulesteix M, Rebollo R, Burlet N, Akkouche A, Hubert B, Mortada H, Biemont C (2012)
A comparative analysis of the amounts and dynamics of transposable elements in natural populations of Drosophila melanogaster and Drosophila simulans, Journal of Environmental Radioactivity, vol. 113 pp.83-86.

Duvaux L, Belkhir K, Boulesteix M, Boursot P (2011)
Isolation and gene flow: inferring the speciation history of European house mice, Molecular Ecology, vol. 20 pp.5248-5264.

Fablet M, Vieira C (2011)
Evolvability epigenetics and transposable elements, Biomolecular Concepts, vol. 2 pp.333-341.

Granzotto A (2011)
Helena chez la Drosophila .

Granzotto A, Lopes FR, Vieira C, Carareto CMA (2011)
Vertical inheritance and bursts of transposition have shaped the evolution of the BS non-LTR retrotransposon in Drosophila, Molecular Genetics and Genomics, vol. 286 pp.57-66.

Lerat E, Burlet N, Biemont C, Vieira C (2011)
Comparative analysis of transposable elements in the melanogaster subgroup sequenced genomes, Gene, vol. 473 pp.100-109.

Mortada H (2011)
Etude de l`influence des éléments transposables sur la régulation des gènes chez les mammifères .

Zampicinini G, Cervella P, Biémont C, Sella G (2011)
Insertional variability of four transposable elements and population structure of the midge Chironomus riparius (Diptera), Molecular Genetics and Genomics, vol. 286 pp.293-305.

Biémont C (2010)
A Brief History of the Status of Transposable Elements: From Junk DNA to Major Players in Evolution, Genetics, vol. 186(4) pp.1085-1093.

Biémont C (2010)
From genotype to phenotype. What do epigenetics and epigenomics tell us?, Heredity, vol. 105 pp.1-3.

Biémont C (2010)
Inbreeding effects in the epigenetic era, Nature Reviews Genetics, vol. 11 pp.234-234.

Escobar J S, Cenci A, Bolognini J, Haudry A, Laurent S, David J, Glémin S (2010)
An integrative test of the dead-end hypothesis of selfing evolution in Triticeae (Poaceae), Evolution, vol. 64 pp.2855-2872.

Foxe J P, Stift M, Tedder A, Haudry A, Wright S, Mable B K (2010)
Reconstructing origins of loss of self-incompatibility and selfing in North American Arabidopsis lyrata: a population genetic context, Evolution, vol. 64 pp.3495-3510.

Hubert B (2010)
La régulation épigénétique des éléments transposables dans les populations naturelles de Drosophila simulans .

Lerat E (2010)
HDR - Evolution of eukaryotic genomes and the impact of transposable elements .

Mortada H, Vieira C, Lerat E (2010)
Genes Devoid of Full-Length Transposable Element Insertions are Involved in Development and in the Regulation of Transcription in Human and Closely Related Species, Journal of Molecular Evolution, vol. 71 pp.180-191.

Rebollo R, Horard B, Hubert B, Vieira C (2010)
Jumping genes and epigenetics: Towards new species, Gene, vol. 454 pp.1-7.

Babik W, Butlin RK, Baker W, Papadopulos AST, Boulesteix M, Anstett MC, Lexer C, Hutton I, Savolainen V (2009)
How sympatric is speciation in the Howea palms of Lord Howe Island ?, Molecular Ecology, vol. 18 pp.3629-3638.

Bérard A, Le Paslier M C, Dardevet M, Exbrayat-Vinson F, Bonnin I, Cenci A, Haudry A, Brunel D, Ravel C (2009)
High-throughput single nucleotide polymorphism genotyping in wheat (Triticum spp.), Plant Biotechnology journal, vol. 7 pp.364-374.

Biémont C (2009)
Are transposable elements simply silenced or are they under house arrest?, Trends in Genetics, vol. 25(8) pp.333-334.

Deloger M (2009)
Etude de l`expression des éléments transposables chez Drosophila melanogaster par approche bioinformatique .

Deloger M, Cavalli FMG, Lerat E, Biémont C, Sagot M-F, Vieira C (2009)
Identification of expressed transposable element insertions in the sequenced genome of Drosophila melanogaster, Gene, vol. 439 pp.55-62.

Fablet M, Bueno M, Potrzebowski L, Kaessmann H (2009)
Evolutionary Origin and Functions of Retrogene Introns, Molecular Biology and Evolution, vol. 26(9) pp.2147-2156.

Fablet M, Lerat E, Rebollo R, Horard B, Burlet N, Martinez S, Brasset E, Gilson E, Vaury C, Vieira C (2009)
Genomic environment influences the dynamics of the tirant LTR retrotransposon in Drosophila, FASEB Journal, vol. 23 pp.54-62.

Granzotto A, Lopes FR, Lerat E, Vieira C, Carareto CMA (2009)
The evolutionary dynamics of the Helena retrotransposon revealed by sequenced Drosophila genomes, BMC Evolutionary Biology, vol. 9(174) pp.95-148.

Lerat E (2009)
Identifying repeats and transposable elements in sequenced genomes: how to find your way through the dense forest of programs, Heredity, vol. 104 pp.520-533.

Rebollo R (2009)
TE variation in natural populations of Drosophila : copy number transcription and chromatin state .

Venner S, Feschotte C, Biémont C (2009)
Dynamics of transposable elements:towards a community ecology of the genome, Trends in Genetics, vol. 25(7) pp.317-323.

Vieira C, Fablet M, Lerat E (2009)
Infra- and Transspecific Clues to Understanding the Dynamics of Transposable Elements, Genome Dynamics and Stability, vol. pp.115-123.

Biémont C (2008)
Dossier Évolution et créationnisme. Les éléments transposables : une force évolutive majeure, Natures Sciences Sociétés, vol. 16 pp.41-43.

Biémont C (2008)
Within-species variation in genome size, Heredity, vol. 101 pp.297-298.

Deloger M, El Karoui M, Petit M-A (2008)
A Genomic Distance Based on MUMIndicates Discontinuity Between Most Bacterial Species and Genera, Journal of Bacteriology, vol. 191(1) pp.91-99.

Esnault C, Boulesteix M, Duchemin JB, Koffi AA, Chandre F, Dabiré R, Robert V, Simard F, Tripet F, Donnelly MJ, Fontenille D, Biémont C (2008)
High Genetic Differentiation between the M and S Molecular Forms of Anopheles gambiae in Africa, PLoS One, vol. 3 pp.1-7.

Haudry A, Cenci A, Guilhaumon C, Paux E, Poirier S, Santoni S, David J, Glémin S (2008)
Mating system and recombination affect molecular evolution in four Triticeae species, Genetics research, vol. 90 pp.97-109.

Mugnier N, Gueguen L, Vieira C, Biémont C (2008)
The heterochromatic copies of the LTR retrotransposons as a record of the genomic events that have shaped the Drosophila melanogaster genome, Gene, vol. 411 pp.87-93.

Rebollo R, Lerat E, Lopez Kleine L, Biémont C, Vieira C (2008)
Losing helena: The extinction of a drosophila line-like element, BMC Genomics, vol. 9 pp.149-149.

Biémont C, Vieira C (2007)
Mitspieler der Evolution, Spektrum der Wissenschaft, vol. S44 pp.44-49.

Boulesteix M, Simard F, Antonio-Nkondjio C, Awono-Ambene P, Fontenille D, Biémont C (2007)
Insertion polymorphism of transposable elements and population structure of Anopheles gambiae M and S molecular forms in Cameroon, Molecular Ecology, vol. 16 pp.441-452.

Fablet M, Rebollo R, Biémont C, Vieira C (2007)
The evolution of retrotransposon regulatory regions and its consequences on the Drosophila melanogaster and Homo sapiens host genomes, Gene, vol. 390 pp.84-91.

Fablet M, Souames S, Biémont C, Vieira C (2007)
Evolutionary Pathways of the tirant LTR Retrotransposon in the Drosophila melanogaster Subgroup of Species, Journal of Molecular Evolution, vol. 64 pp.438-447.

Haudry A, Cenci A, Ravel C, Bataillon T, Brunel D, Poncet C, Hochu I, Poirier S, Santoni S, Glémin S, David J (2007)
Grinding up wheat: a massive loss of nucleotide diversity since domestication, Molecular Biology Evolution, vol. 24 pp.1506-1517.

Lerat E, Birot AM, Samarut J, Mey A (2007)
Maintenance in the Chicken Genome of the Retroviral-like cENS Gene Family Specifically Expressed in Early Embryos, Journal of Molecular Evolution, vol. 65 pp.215-227.

Lerat E, Sémon M (2007)
Influence of the transposable element neighborhood on human gene expression in normal and tumor tissues, Gene, vol. 396 pp.303-311.

Zaoui S, Biémont C, Meguenni K (2007)
Approche épidémiologique du diabète dans les milieux rural et urbain de la région de Tlemcen Ouest, Cahier Santé, vol. 17 pp.15-21.

Biémont C, Vieira C (2006)
Junk DNA as an evolutionary force, Nature, vol. 443 pp.521-524.

Boulesteix M, Weiss M, Biémont C (2006)
Differences in Genome Size Between Closely Related Species : The Drosophila melanogaster Species Subgroup, Molecular Biology and Evolution, vol. 23 pp.162-167.

Deceliere G, Letrillard Y, Charles S, Biémont C (2006)
TESD : a transposable element dynamics simulation environment, Bioinformatics, vol. 22 pp.2702-2703.

Fablet M, Donald JF, Biémont C, Vieira C (2006)
Ongoing loss of the tirant transposable element in natural populations of Drosophila simulans, Gene, vol. 375 pp.54-62.

Biémont C, Vieira C (2005)
What transposable elements tell us about genome organization and evolution: the case of Drosophila, Cytogenetics and Genome Research, vol. 110 pp.25-34.

Boulesteix M, Biémont C (2005)
Transposable elements in mosquitoes, Cytogenetics and Genome Research, vol. 110 pp.500-509.

Décelière G, Charles S, Biémont C (2005)
The Dynamics of Transposable Elements in Structured Populations, Genetics, vol. 169 pp.467-474.

Lerat E, Daubin V, Ochman H, Moran NA (2005)
Evolutionary origins of genomic repertoires in bacteria, PLoS Biology, vol. 3 pp.0807-0814.

Lerat E, Ochman H (2005)
Recognizing the pseudogenes in bacterial genomes, Nucleic Acids Research, vol. 33 pp.3125-3132.

Mugnier N, Biémont C, Vieira C (2005)
New regulatory regions of Drosophila 412 retrotransposable element generated by recombination, Molecular Biology and Evolution, vol. 22 pp.747-757.

Nardon C, Deceliere G, Loevenbruck C, Weiss M, Vieira C, Biémont C (2005)
Is genome size influenced by colonization of new environments in dipteran species ?, Molecular Ecology, vol. 14 pp.869-878.

Ochman H, Daubin V, Lerat E (2005)
A bunch of fun-guys: the whole-genome view of yeast evolution, Trends in Genetics, vol. 21 pp.1-3.

Ochman H, Lerat E, Daubin V (2005)
Examining bacterial species under the specter of gene transfer and exchange, Proceedings of The National Academy of Sciences of The United States of America, vol. 102 pp.6595-6599.

Biémont C, Monti-Dedieu L, Lemeunier F (2004)
Detection of transposable elements in Drosophila salivary gland polytene chromosomes by in situ hybridization, Methods in Molecular Biology, vol. 260 pp.21-28.

Biémont C, Vieira C (2004)
L`influence des éléments transposables sur la taille des génomes, Journal de la Société de biologie, vol. 198 pp.413-417.

Earnest-DeYoung JV, Lerat E, Moret BME (2004)
Reversing gene erosion: Reconstructing ancestral bacterial genomes from gene-content and order data
in: Proc. 4th Int`l Workshop on Algorithms in Bioinformatics WABI`04 in Lecture Notes in Computer Science, Springer Verlag, pp.1-13.

Edvardsen R, Lerat E, Maeland AD, Flat M, Tewari R, Jensen MF, Lehrach H, Reinhardt R, Seo H-C, Chourrout D (2004)
Hypervariable and highly divergent intron/exon organizations in the chordate Oikopleura dioica, Journal of Molecular Biology, vol. 59 pp.448-457.

Jaillon O, Aury J-M, Brunet F, Petit J L, Stange-Thomann N, Mauceli E, Bouneau L, Fischer C, Ozouf-Costaz C, Bernot A, Nicaud S, Jaffe D, Fisher S, Lutfalla G, Dossat C, Segurens B, Dasilva C, Salanoubat M, Levy M, Boudet N, Castellano S, Anthouard V, Jubin C, Castelli V, Katinka M, Vacherie B, Biémont C, Skalli Z, Cattolico L, Poulain J, De Berardinis V, Cruaud C, Duprat S, Brottier P, Coutanceau JP, Gouzy J, Parra G, Lardier G, Chapple C, McKernan KJ, McEwan P, Bosak S, Kellis M, Volff JN, Guigo R, Zody MC, Mesirov J, Lindblad-Toh K, Birren B, Nusbaum C, Kahn D, Robinson-Rechavi M, Laudet V, Schachter V, Quetier F, Saurin W, Scarpelli C, Wincker P, Lander E S, Weissenbach J, Roest Crollius H (2004)
Genome duplication in the teleost fish Tetraodon nigroviridis reveals the early vertebrate proto-karyotype, Nature, vol. 431 pp.946-957.

Lerat E, Moran NA (2004)
The evolutionary history of quorum-sensing in bacteria, Molecular Biology and Evolution, vol. 21 pp.903-913.

Lerat E, Ochman H (2004)
$Psi$-$Phi$: Exploring the outer limits of bacterial pseudogenes, Genome Research, vol. 14 pp.2273-2278.

Vieira C, Biémont C (2004)
Transposable element dynamics in two sibling species: Drosophila melanogaster and Drosophila simulans, Genetica, vol. 120 pp.115-123.

Biémont C, Nardon C, Deceliere G, Lepetit D, Loevenbruck C, Vieira C (2003)
Worldwide distribution of transposable element copy number in natural populations of Drosophila simulans, Evolution, vol. 57 pp.159-167.

Daubin V, Lerat E, Perrière G (2003)
The source of laterally transferred genes in bacterial genomes, Genome Biology, vol. 4 pp.R57.1-R57.12.

Lerat E, Daubin V, Moran NA (2003)
From gene trees to organismal phylogeny in prokaryotes: the case of the gamma-Proteobacteria, PLoS Biology, vol. 1 pp.101-109.

Lerat E, Rizzon C, Biémont C (2003)
Sequence divergence within transposable element families in the Drosophila melanogaster genome, Genome Research, vol. 13 pp.1889-1896.

Nardon C, Weiss M, Vieira C, Biémont C (2003)
Variation of the genome size estimate with environmental conditions in Drosophila melanogaster, Cytometry - Part A, vol. 55A pp.43-49.

Rizzon C, Martin E, Marais GAB, Duret L, Segalat L, Biémont C (2003)
Patterns of selection against transposons inferred from the distribution of Tc1 Tc3 and Tc5 insertions in the mut-7 line of the nematode Caenorhabditis elegans, Genetics, vol. 165 pp.1127-1135.

Borie N, Maisonhaute C, Sarrazin S, Loevenbruck C, Biémont C (2002)
Tissue-specificity of 412 retrotransposon expression in Drosophila simulans and D. melanogaster, Heredity, vol. 89 pp.247-252.

Lepetit D, Brehm A, Fouillet P, Biémont C (2002)
Insertion polymorphism of retrotransposable elements in populations of the insular endemic species Drosophila madeirensis, Molecular Ecology, vol. 11 pp.347-354.

Lerat E, Capy P, Biémont C (2002)
Codon usage by transposable elements and their host genes in five species, Journal of Molecular Evolution, vol. 54 pp.625-637.

Lerat E, Capy P, Biémont C (2002)
The relative abundance of dinucleotides in transposable elements in five species, Molecular Biology and Evolution, vol. 19 pp.964-967.

Rizzon C, Marais GAB, Gouy M, Biémont C (2002)
Recombination rate and the distribution of transposable elements in the Drosophila melanogaster genome, Genome Research, vol. 12 pp.400-407.

Vieira C, Nardon C, Arpin C, Lepetit D, Biémont C (2002)
Evolution of genome size in Drosophila. is the invader`s genome being invaded by transposable elements?, Molecular Biology and Evolution, vol. 19 pp.1154-1161.

Zaoui S, Biémont C (2002)
[Frequency of consanguineous unions in the Tlemcen area (West Algeria)], Santé, vol. 12 pp.289-295.

Biémont C, Vieira C, Borie N (2001)
Transposable elements and genome evolution of invasive species: the case of Drosophila, Genetics Selection Evolution, vol. 33 pp.S107-S120.

Lerat E (2001)
Comparaison de séquences d`éléments transposables et de gènes d`hôtes chez cinq espèces : A. Thaliana C. Elegans D. Melanogaster H. Sapiens S. Cerevisiae .

Duret L, Marais GAB, Biémont C (2000)
Transposons but not retrotransposons are located preferentially in regions of high recombination rate in Caenorhabditis elegans, Genetics, vol. 156 pp.1661-1669.

Lerat E, Biémont C, Capy P (2000)
Codon usage and the origin of P elements, Molecular Biology and Evolution, vol. 17 pp.467-468.

Pasyukova EG, Vieira C, Mackay TFC (2000)
Deficiency mapping of quantitative trait loci affecting longevity in Drosophila melanogaster, Genetics, vol. 156 pp.1129-1146.

Vieira C, Pasyukova EG, Zeng ZB, Hackett JB, Lyman RF, Mackay TFC (2000)
Genotype-environment interaction for quantitative trait loci affecting life span in Drosophila melanogaster, Genetics, vol. 154 pp.213-227.

Vieira C, Piganeau G, Biemont C (2000)
High copy numbers of multiple transposable element families in an Australian population of Drosophila simulans, Genetical Research, vol. 76 pp.117-119.

Biémont C, Vieira C, Borie N, Lepetit D (1999)
Transposable elements and genome evolution: the case of Drosophila simulans, Genetica, vol. 107 pp.113-120.

Lerat E, Brunet F, Bazin C, Capy P (1999)
Is the evolution of transposable elements modular?, Genetica, vol. 107 pp.15-25.

Lerat E, Capy P (1999)
Retrotransposons and retroviruses: analysis of the envelope gene, Molecular Biology and Evolution, vol. 16 pp.1198-1207.

Tsitrone A, Charles S, Biémont C (1999)
Dynamics Of Transposable Elements Under The Selection Model, Genetical Research, vol. 74 pp.159-164.

Vieira C, Lepetit D, Dumont S, Biémont C (1999)
Wake up of transposable elements following Drosophila simulans worldwide colonization, Molecular Biology and Evolution, vol. 16 pp.1251-1255.

Junakovic N, Terrinoni A, Di Franco C, Vieira C, Loevenbruck C (1998)
Accumulation of transposable elements in the heterochromatin and on the Y chromosome of Drosophila simulans and Drosophila melanogaster, Journal of Molecular Evolution, vol. 46 pp.661-668.

Vieira C, Aubry P, Lepetit D, Biémont C (1998)
A temperature cline in copy number for 412 but not roo/B104 retrotransposons in populations of Drosophila simulans, Proceedings of The Royal Society B-Biological Sciences, vol. 265 pp.1161-1165.

Biémont C, Tsitrone A, Vieira C, Hoogland C (1997)
Transposable element distribution in Drosophila, Genetics, vol. 147 pp.1997-1999.

Biémont C, Vieira C, Hoogland C , Cizeron G, Loevenbruck C, Arnault C, Carante JP (1997)
Maintenance of transposable element copy number in natural populations of Drosophila melanogaster and D-simulans, Genetica, vol. 100 pp.161-166.

Hoogland C, Vieira C, Biemont C (1997)
Chromosomal distribution of the 412 retrotransposon in natural populations of Drosophila simulans, Heredity, vol. 79 pp.128-134.

Vieira C, Biemont C (1997)
Transposition rate of the 412 retrotransposable element is independent of copy number in natural populations of Drosophila simulans, Molecular Biology and Evolution, vol. 14 pp.185-188.

Vieira C (1996)
Comportement de rétrotransposons (copia mdg1 gypsy et 412) dans les populations de Drosophila melanogaster et D. simulans .

Vieira C, Biémont C (1996)
Geographical variation in insertion site number of retrotransposon 412 in Drosophila simulans, Journal of Molecular Evolution, vol. 42 pp.443-451.

Vieira C, Biémont C (1996)
Selection against transposable elements in D-simulans and D-melanogaster, Genetical Research, vol. 68 pp.9-15.

Biémont C, Lemeunier F, Gautier C, Guerreiro MG, Aulard S, Pasyukova EG (1994)
High rate of movement of one (mdg3) out of four transposable elements in a natural population of Drosophila melanogaster, Comptes Rendus de l`Académie des Sciences - Séries III - Sciences de la Vie, vol. 317 pp.213-216.

Biémont C, Lemeunier F, Guerreiro MPG, Brookfield JF, Gautier C, Aulard S, Pasyukova EG (1994)
Population dynamics of the copia mdg1 mdg3 gypsy and P transposable elements in a natural population of Drosophila melanogaster, Genetical Research, vol. 63 pp.197-212.

Biémont C, Ronsseray S, Anxolabéhère D, Izaabel H, Gautier C (1990)
Localization of P elements copy number regulation and cytotype determination in Drosophila melanogaster, Genetical Research, vol. 56 pp.3-14.

Biémont C, Aouar A, Gautier C (1989)
Hybrid viability is correlated with the i-mobile and P-mobile element copy numbers of the maternal inbred line in Drosophila melanogaster, Heredity, vol. 62 pp.301-305.

Biémont C, Gautier C (1988)
Localization polymorphism of mdg-1 copia I-mobile-element and P-mobile-element in genome of Drosophila-melanogaster, Heredity, vol. 60 pp.335-346.

Biémont C, Gautier C, Heizmann A (1988)
Independent regulation of mobile element copy nimber in Drosophila-melanogaster inbred lines, Chromosoma, vol. 96 pp.291-294.

Biémont C, Gautier C, Heizmann A (1987)
Independent regulation of mobile element copy nimber in Drosophila-melanogaster, Heredity, vol. 58 pp.167-172.

Biémont C, Gautier C (1983)
An inbreeding-incompatibility genetic system in Drosophila melanogaster and its frequency in natural populations, Genetica, vol. 61 pp.191-195.