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The WOPR Protein Ros1 Is a Master Regulator of Sporogenesis and Late Effector Gene Expression in the Maize Pathogen Ustilago maydis.

Tollot M, Assmann D, Becker C, Altmüller J, Dutheil JY, Wegner CE, Kahmann R.

PLoS Pathog. 2016 Jun 22;12(6):e1005697. doi: 10.1371/journal.ppat.1005697.


Comparison of alcoholic chlorhexidine and povidone-iodine cutaneous antiseptics for the prevention of central venous catheter-related infection: a cohort and quasi-experimental multicenter study.

Pages J, Hazera P, Mégarbane B, du Cheyron D, Thuong M, Dutheil JJ, Valette X, Fournel F, Mermel LA, Mira JP, Daubin C, Parienti JJ; 3SITES Study Group..

Intensive Care Med. 2016 Sep;42(9):1418-26. doi: 10.1007/s00134-016-4406-4.


hotspot: software to support sperm-typing for investigating recombination hotspots.

Odenthal-Hesse L, Dutheil JY, Klötzl F, Haubold B.

Bioinformatics. 2016 Aug 15;32(16):2554-5. doi: 10.1093/bioinformatics/btw195.


A Tale of Genome Compartmentalization: The Evolution of Virulence Clusters in Smut Fungi.

Dutheil JY, Mannhaupt G, Schweizer G, M K Sieber C, Münsterkötter M, Güldener U, Schirawski J, Kahmann R.

Genome Biol Evol. 2016 Feb 12;8(3):681-704. doi: 10.1093/gbe/evw026.


Transfusion strategy in hematological intensive care unit: study protocol for a randomized controlled trial.

Chantepie SP, Mear JB, Guittet L, Dervaux B, Marolleau JP, Jardin F, Dutheil JJ, Parienti JJ, Vilque JP, Reman O.

Trials. 2015 Nov 23;16:533. doi: 10.1186/s13063-015-1057-7.


Strong Selective Sweeps on the X Chromosome in the Human-Chimpanzee Ancestor Explain Its Low Divergence.

Dutheil JY, Munch K, Nam K, Mailund T, Schierup MH.

PLoS Genet. 2015 Aug 14;11(8):e1005451. doi: 10.1371/journal.pgen.1005451.


Optimization of sequence alignments according to the number of sequences vs. number of sites trade-off.

Dutheil JY, Figuet E.

BMC Bioinformatics. 2015 Jun 9;16:190. doi: 10.1186/s12859-015-0619-8.


Extreme selective sweeps independently targeted the X chromosomes of the great apes.

Nam K, Munch K, Hobolth A, Dutheil JY, Veeramah KR, Woerner AE, Hammer MF; Great Ape Genome Diversity Project., Mailund T, Schierup MH.

Proc Natl Acad Sci U S A. 2015 May 19;112(20):6413-8. doi: 10.1073/pnas.1419306112.


Ultrasound-assisted surgical release of carpal tunnel syndrome: Results of a pilot open-label uncontrolled trial conducted outside the operating theatre.

Lecoq B, Hanouz N, Morello R, Jean-Jacques PY, Dutheil JJ, Hulet C, Marcelli C.

Joint Bone Spine. 2015 Dec;82(6):442-5. doi: 10.1016/j.jbspin.2015.01.024.


Mitochondrial DNA as a tool for reconstructing past life-history traits in mammals.

Figuet E, Romiguier J, Dutheil JY, Galtier N.

J Evol Biol. 2014 May;27(5):899-910. doi: 10.1111/jeb.12361.


MafFilter: a highly flexible and extensible multiple genome alignment files processor.

Dutheil JY, Gaillard S, Stukenbrock EH.

BMC Genomics. 2014 Jan 22;15:53. doi: 10.1186/1471-2164-15-53.


Bio++: efficient extensible libraries and tools for computational molecular evolution.

Guéguen L, Gaillard S, Boussau B, Gouy M, Groussin M, Rochette NC, Bigot T, Fournier D, Pouyet F, Cahais V, Bernard A, Scornavacca C, Nabholz B, Haudry A, Dachary L, Galtier N, Belkhir K, Dutheil JY.

Mol Biol Evol. 2013 Aug;30(8):1745-50. doi: 10.1093/molbev/mst097.


Asymmetric morphogenetic cues along the transverse plane: shift from disymmetry to zygomorphy in the flower of Fumarioideae.

Damerval C, Citerne H, Le Guilloux M, Domenichini S, Dutheil J, Ronse de Craene L, Nadot S.

Am J Bot. 2013 Feb;100(2):391-402. doi: 10.3732/ajb.1200376.


A new isolation with migration model along complete genomes infers very different divergence processes among closely related great ape species.

Mailund T, Halager AE, Westergaard M, Dutheil JY, Munch K, Andersen LN, Lunter G, Prüfer K, Scally A, Hobolth A, Schierup MH.

PLoS Genet. 2012;8(12):e1003125. doi: 10.1371/journal.pgen.1003125.


The AbrB2 autorepressor, expressed from an atypical promoter, represses the hydrogenase operon to regulate hydrogen production in Synechocystis strain PCC6803.

Dutheil J, Saenkham P, Sakr S, Leplat C, Ortega-Ramos M, Bottin H, Cournac L, Cassier-Chauvat C, Chauvat F.

J Bacteriol. 2012 Oct;194(19):5423-33. doi: 10.1128/JB.00543-12.


The bonobo genome compared with the chimpanzee and human genomes.

Prüfer K, Munch K, Hellmann I, Akagi K, Miller JR, Walenz B, Koren S, Sutton G, Kodira C, Winer R, Knight JR, Mullikin JC, Meader SJ, Ponting CP, Lunter G, Higashino S, Hobolth A, Dutheil J, Karakoç E, Alkan C, Sajjadian S, Catacchio CR, Ventura M, Marques-Bonet T, Eichler EE, André C, Atencia R, Mugisha L, Junhold J, Patterson N, Siebauer M, Good JM, Fischer A, Ptak SE, Lachmann M, Symer DE, Mailund T, Schierup MH, Andrés AM, Kelso J, Pääbo S.

Nature. 2012 Jun 28;486(7404):527-31. doi: 10.1038/nature11128.


Fusion of two divergent fungal individuals led to the recent emergence of a unique widespread pathogen species.

Stukenbrock EH, Christiansen FB, Hansen TT, Dutheil JY, Schierup MH.

Proc Natl Acad Sci U S A. 2012 Jul 3;109(27):10954-9. doi: 10.1073/pnas.1201403109.


Fast and robust characterization of time-heterogeneous sequence evolutionary processes using substitution mapping.

Romiguier J, Figuet E, Galtier N, Douzery EJ, Boussau B, Dutheil JY, Ranwez V.

PLoS One. 2012;7(3):e33852. doi: 10.1371/journal.pone.0033852.


Ancestral population genomics.

Dutheil JY, Hobolth A.

Methods Mol Biol. 2012;856:293-313. doi: 10.1007/978-1-61779-585-5_12. Review.

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