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Parental legacy, demography, and admixture influenced the evolution of the two subgenomes of the tetraploid Capsella bursa-pastoris (Brassicaceae).

Kryvokhyzha D, Salcedo A, Eriksson MC, Duan T, Tawari N, Chen J, Guerrina M, Kreiner JM, Kent TV, Lagercrantz U, Stinchcombe JR, Glémin S, Wright SI, Lascoux M.

PLoS Genet. 2019 Feb 15;15(2):e1007949. doi: 10.1371/journal.pgen.1007949. [Epub ahead of print]


Estimating the Fitness Effect of Deleterious Mutations During the Two Phases of the Life Cycle: A New Method Applied to the Root-Rot Fungus Heterobasidion parviporum.

Clergeot PH, Rode NO, Glémin S, Brandström-Durling M, Ihrmark K, Olson Å.

Genetics. 2018 Dec 31. pii: genetics.301855.2018. doi: 10.1534/genetics.118.301855. [Epub ahead of print]


Modeling a trait-dependent diversification process coupled with molecular evolution on a random species tree.

Tahir D, Glémin S, Lascoux M, Kaj I.

J Theor Biol. 2019 Jan 14;461:189-203. doi: 10.1016/j.jtbi.2018.10.032. Epub 2018 Oct 16.


Competitive ability of Capsella species with different mating systems and ploidy levels.

Petrone Mendoza S, Lascoux M, Glémin S.

Ann Bot. 2018 May 11;121(6):1257-1264. doi: 10.1093/aob/mcy014.


Codon Usage Bias in Animals: Disentangling the Effects of Natural Selection, Effective Population Size, and GC-Biased Gene Conversion.

Galtier N, Roux C, Rousselle M, Romiguier J, Figuet E, Glémin S, Bierne N, Duret L.

Mol Biol Evol. 2018 May 1;35(5):1092-1103. doi: 10.1093/molbev/msy015.


Inference of Distribution of Fitness Effects and Proportion of Adaptive Substitutions from Polymorphism Data.

Tataru P, Mollion M, Glémin S, Bataillon T.

Genetics. 2017 Nov;207(3):1103-1119. doi: 10.1534/genetics.117.300323. Epub 2017 Sep 25.


Using the Ornstein-Uhlenbeck process to model the evolution of interacting populations.

Bartoszek K, Glémin S, Kaj I, Lascoux M.

J Theor Biol. 2017 Sep 21;429:35-45. doi: 10.1016/j.jtbi.2017.06.011. Epub 2017 Jun 12.


Evolutionary forces affecting synonymous variations in plant genomes.

Clément Y, Sarah G, Holtz Y, Homa F, Pointet S, Contreras S, Nabholz B, Sabot F, Sauné L, Ardisson M, Bacilieri R, Besnard G, Berger A, Cardi C, De Bellis F, Fouet O, Jourda C, Khadari B, Lanaud C, Leroy T, Pot D, Sauvage C, Scarcelli N, Tregear J, Vigouroux Y, Yahiaoui N, Ruiz M, Santoni S, Labouisse JP, Pham JL, David J, Glémin S.

PLoS Genet. 2017 May 22;13(5):e1006799. doi: 10.1371/journal.pgen.1006799. eCollection 2017 May.


The Evolutionary Interplay between Adaptation and Self-Fertilization.

Hartfield M, Bataillon T, Glémin S.

Trends Genet. 2017 Jun;33(6):420-431. doi: 10.1016/j.tig.2017.04.002. Epub 2017 May 8. Review.


Domestication rewired gene expression and nucleotide diversity patterns in tomato.

Sauvage C, Rau A, Aichholz C, Chadoeuf J, Sarah G, Ruiz M, Santoni S, Causse M, David J, Glémin S.

Plant J. 2017 Aug;91(4):631-645. doi: 10.1111/tpj.13592. Epub 2017 Jun 12.


Genetic Diversity and the Efficacy of Purifying Selection across Plant and Animal Species.

Chen J, Glémin S, Lascoux M.

Mol Biol Evol. 2017 Jun 1;34(6):1417-1428. doi: 10.1093/molbev/msx088.


Experimental Evidence for the Negative Effects of Self-Fertilization on the Adaptive Potential of Populations.

Noël E, Jarne P, Glémin S, MacKenzie A, Segard A, Sarda V, David P.

Curr Biol. 2017 Jan 23;27(2):237-242. doi: 10.1016/j.cub.2016.11.015. Epub 2016 Dec 29.


A large set of 26 new reference transcriptomes dedicated to comparative population genomics in crops and wild relatives.

Sarah G, Homa F, Pointet S, Contreras S, Sabot F, Nabholz B, Santoni S, Sauné L, Ardisson M, Chantret N, Sauvage C, Tregear J, Jourda C, Pot D, Vigouroux Y, Chair H, Scarcelli N, Billot C, Yahiaoui N, Bacilieri R, Khadari B, Boccara M, Barnaud A, Péros JP, Labouisse JP, Pham JL, David J, Glémin S, Ruiz M.

Mol Ecol Resour. 2017 May;17(3):565-580. doi: 10.1111/1755-0998.12587. Epub 2016 Aug 29.


Evolution of sex chromosomes prior to speciation in the dioecious Phoenix species.

Cherif E, Zehdi-Azouzi S, Crabos A, Castillo K, Chabrillange N, Pintaud JC, Salhi-Hannachi A, Glémin S, Aberlenc-Bertossi F.

J Evol Biol. 2016 Aug;29(8):1513-22. doi: 10.1111/jeb.12887. Epub 2016 May 20.


Limits to Adaptation in Partially Selfing Species.

Hartfield M, Glémin S.

Genetics. 2016 Jun;203(2):959-74. doi: 10.1534/genetics.116.188821. Epub 2016 Apr 20.


The influence of population structure on gene expression and flowering time variation in the ubiquitous weed Capsella bursa-pastoris (Brassicaceae).

Kryvokhyzha D, Holm K, Chen J, Cornille A, Glémin S, Wright SI, Lagercrantz U, Lascoux M.

Mol Ecol. 2016 Mar;25(5):1106-21. doi: 10.1111/mec.13537. Epub 2016 Feb 16.


Genomic signature of successful colonization of Eurasia by the allopolyploid shepherd's purse (Capsella bursa-pastoris).

Cornille A, Salcedo A, Kryvokhyzha D, Glémin S, Holm K, Wright SI, Lascoux M.

Mol Ecol. 2016 Jan;25(2):616-29. doi: 10.1111/mec.13491. Epub 2016 Jan 20.


Introns Structure Patterns of Variation in Nucleotide Composition in Arabidopsis thaliana and Rice Protein-Coding Genes.

Ressayre A, Glémin S, Montalent P, Serre-Giardi L, Dillmann C, Joets J.

Genome Biol Evol. 2015 Oct 7;7(10):2913-28. doi: 10.1093/gbe/evv189.


Quantification of GC-biased gene conversion in the human genome.

Glémin S, Arndt PF, Messer PW, Petrov D, Galtier N, Duret L.

Genome Res. 2015 Aug;25(8):1215-28. doi: 10.1101/gr.185488.114. Epub 2015 May 20.


Molecular Evolution of Freshwater Snails with Contrasting Mating Systems.

Burgarella C, Gayral P, Ballenghien M, Bernard A, David P, Jarne P, Correa A, Hurtrez-Boussès S, Escobar J, Galtier N, Glémin S.

Mol Biol Evol. 2015 Sep;32(9):2403-16. doi: 10.1093/molbev/msv121. Epub 2015 May 14.


Extreme recombination frequencies shape genome variation and evolution in the honeybee, Apis mellifera.

Wallberg A, Glémin S, Webster MT.

PLoS Genet. 2015 Apr 22;11(4):e1005189. doi: 10.1371/journal.pgen.1005189. eCollection 2015 Apr.


Inference of purifying and positive selection in three subspecies of chimpanzees (Pan troglodytes) from exome sequencing.

Bataillon T, Duan J, Hvilsom C, Jin X, Li Y, Skov L, Glemin S, Munch K, Jiang T, Qian Y, Hobolth A, Wang J, Mailund T, Siegismund HR, Schierup MH.

Genome Biol Evol. 2015 Mar 30;7(4):1122-32. doi: 10.1093/gbe/evv058.


The bimodal distribution of genic GC content is ancestral to monocot species.

Clément Y, Fustier MA, Nabholz B, Glémin S.

Genome Biol Evol. 2014 Dec 19;7(1):336-48. doi: 10.1093/gbe/evu278.


The red queen model of recombination hotspots evolution in the light of archaic and modern human genomes.

Lesecque Y, Glémin S, Lartillot N, Mouchiroud D, Duret L.

PLoS Genet. 2014 Nov 13;10(11):e1004790. doi: 10.1371/journal.pgen.1004790. eCollection 2014 Nov.


Comparative population genomics in animals uncovers the determinants of genetic diversity.

Romiguier J, Gayral P, Ballenghien M, Bernard A, Cahais V, Chenuil A, Chiari Y, Dernat R, Duret L, Faivre N, Loire E, Lourenco JM, Nabholz B, Roux C, Tsagkogeorga G, Weber AA, Weinert LA, Belkhir K, Bierne N, Glémin S, Galtier N.

Nature. 2014 Nov 13;515(7526):261-3. doi: 10.1038/nature13685. Epub 2014 Aug 20.


GC content evolution in coding regions of angiosperm genomes: a unifying hypothesis.

Glémin S, Clément Y, David J, Ressayre A.

Trends Genet. 2014 Jul;30(7):263-70. doi: 10.1016/j.tig.2014.05.002. Epub 2014 Jun 7. Review.


Impact of recurrent gene duplication on adaptation of plant genomes.

Fischer I, Dainat J, Ranwez V, Glémin S, Dufayard JF, Chantret N.

BMC Plant Biol. 2014 May 31;14:151. doi: 10.1186/1471-2229-14-151.


Transcriptome population genomics reveals severe bottleneck and domestication cost in the African rice (Oryza glaberrima).

Nabholz B, Sarah G, Sabot F, Ruiz M, Adam H, Nidelet S, Ghesquière A, Santoni S, David J, Glémin S.

Mol Ecol. 2014 May;23(9):2210-27. doi: 10.1111/mec.12738. Epub 2014 Apr 18.


Mating systems and selection efficacy: a test using chloroplastic sequence data in Angiosperms.

Glémin S, Muyle A.

J Evol Biol. 2014 Jul;27(7):1386-99. doi: 10.1111/jeb.12356. Epub 2014 Mar 28.


Disentangling homeologous contigs in allo-tetraploid assembly: application to durum wheat.

Ranwez V, Holtz Y, Sarah G, Ardisson M, Santoni S, Glémin S, Tavaud-Pirra M, David J.

BMC Bioinformatics. 2013;14 Suppl 15:S15. doi: 10.1186/1471-2105-14-S15-S15. Epub 2013 Oct 15.


Hitchhiking of deleterious alleles and the cost of adaptation in partially selfing species.

Hartfield M, Glémin S.

Genetics. 2014 Jan;196(1):281-93. doi: 10.1534/genetics.113.158196. Epub 2013 Nov 15.


Mating system, Haldane's sieve, and the domestication process.

Ronfort J, Glemin S.

Evolution. 2013 May;67(5):1518-26. doi: 10.1111/evo.12025. Epub 2012 Dec 24.


Reference-free population genomics from next-generation transcriptome data and the vertebrate-invertebrate gap.

Gayral P, Melo-Ferreira J, Glémin S, Bierne N, Carneiro M, Nabholz B, Lourenco JM, Alves PC, Ballenghien M, Faivre N, Belkhir K, Cahais V, Loire E, Bernard A, Galtier N.

PLoS Genet. 2013 Apr;9(4):e1003457. doi: 10.1371/journal.pgen.1003457. Epub 2013 Apr 11.


The rate of molecular adaptation in a changing environment.

Lourenço JM, Glémin S, Galtier N.

Mol Biol Evol. 2013 Jun;30(6):1292-301. doi: 10.1093/molbev/mst026. Epub 2013 Feb 14.


Adaptation and maladaptation in selfing and outcrossing species: new mutations versus standing variation.

Glémin S, Ronfort J.

Evolution. 2013 Jan;67(1):225-40. doi: 10.1111/j.1558-5646.2012.01778.x. Epub 2012 Sep 7. Erratum in: Evolution. 2013 Nov;67(11):3381.


Male-specific DNA markers provide genetic evidence of an XY chromosome system, a recombination arrest and allow the tracing of paternal lineages in date palm.

Cherif E, Zehdi S, Castillo K, Chabrillange N, Abdoulkader S, Pintaud JC, Santoni S, Salhi-Hannachi A, Glémin S, Aberlenc-Bertossi F.

New Phytol. 2013 Jan;197(2):409-15. doi: 10.1111/nph.12069. Epub 2012 Dec 11.


Patterns of molecular evolution in dioecious and non-dioecious Silene.

Käfer J, Talianová M, Bigot T, Michu E, Guéguen L, Widmer A, Žlůvová J, Glémin S, Marais GA.

J Evol Biol. 2013 Feb;26(2):335-46. doi: 10.1111/jeb.12052. Epub 2012 Dec 3.


The determinants of the molecular substitution process in turtles.

Lourenço JM, Glémin S, Chiari Y, Galtier N.

J Evol Biol. 2013 Jan;26(1):38-50. doi: 10.1111/jeb.12031. Epub 2012 Nov 23.


Patterns and evolution of nucleotide landscapes in seed plants.

Serres-Giardi L, Belkhir K, David J, Glémin S.

Plant Cell. 2012 Apr;24(4):1379-97. doi: 10.1105/tpc.111.093674. Epub 2012 Apr 6.


Extinction and fixation times with dominance and inbreeding.

Glémin S.

Theor Popul Biol. 2012 Jun;81(4):310-6. doi: 10.1016/j.tpb.2012.02.006. Epub 2012 Mar 9.


Genome evolution in outcrossing versus selfing versus asexual species.

Glémin S, Galtier N.

Methods Mol Biol. 2012;855:311-35. doi: 10.1007/978-1-61779-582-4_11. Review.


Multigenic phylogeny and analysis of tree incongruences in Triticeae (Poaceae).

Escobar JS, Scornavacca C, Cenci A, Guilhaumon C, Santoni S, Douzery EJ, Ranwez V, Glémin S, David J.

BMC Evol Biol. 2011 Jun 24;11:181. doi: 10.1186/1471-2148-11-181.


Complexity, pleiotropy, and the fitness effect of mutations.

Lourenço J, Galtier N, Glémin S.

Evolution. 2011 Jun;65(6):1559-71. doi: 10.1111/j.1558-5646.2011.01237.x. Epub 2011 Mar 3.


GC-biased gene conversion and selection affect GC content in the Oryza genus (rice).

Muyle A, Serres-Giardi L, Ressayre A, Escobar J, Glémin S.

Mol Biol Evol. 2011 Sep;28(9):2695-706. doi: 10.1093/molbev/msr104. Epub 2011 Apr 18.


GC-biased gene conversion impacts ribosomal DNA evolution in vertebrates, angiosperms, and other eukaryotes.

Escobar JS, Glémin S, Galtier N.

Mol Biol Evol. 2011 Sep;28(9):2561-75. doi: 10.1093/molbev/msr079. Epub 2011 Mar 28.


Surprising fitness consequences of GC-biased gene conversion. II. Heterosis.

Glémin S.

Genetics. 2011 Jan;187(1):217-27. doi: 10.1534/genetics.110.120808. Epub 2010 Oct 18. Erratum in: Genetics. 2012 Apr;190(4):1585.


Detecting positive selection within genomes: the problem of biased gene conversion.

Ratnakumar A, Mousset S, Glémin S, Berglund J, Galtier N, Duret L, Webster MT.

Philos Trans R Soc Lond B Biol Sci. 2010 Aug 27;365(1552):2571-80. doi: 10.1098/rstb.2010.0007.


An integrative test of the dead-end hypothesis of selfing evolution in Triticeae (Poaceae).

Escobar JS, Cenci A, Bolognini J, Haudry A, Laurent S, David J, Glémin S.

Evolution. 2010 Oct;64(10):2855-72. doi: 10.1111/j.1558-5646.2010.01045.x. Epub 2010 Aug 19.


Surprising fitness consequences of GC-biased gene conversion: I. Mutation load and inbreeding depression.

Glémin S.

Genetics. 2010 Jul;185(3):939-59. doi: 10.1534/genetics.110.116368. Epub 2010 Apr 26. Erratum in: Genetics. 2012 Apr;190(4):1585.


Mitochondrial DNA as a marker of molecular diversity: a reappraisal.

Galtier N, Nabholz B, Glémin S, Hurst GD.

Mol Ecol. 2009 Nov;18(22):4541-50. doi: 10.1111/j.1365-294X.2009.04380.x. Epub 2009 Oct 9. Review.


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