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Items: 1 to 50 of 161

1.

Admixture between old lineages facilitated contemporary ecological speciation in Lake Constance stickleback.

Marques DA, Lucek K, Sousa VC, Excoffier L, Seehausen O.

Nat Commun. 2019 Sep 18;10(1):4240. doi: 10.1038/s41467-019-12182-w.

2.

Mutational and selective processes involved in evolution during bacterial range expansions.

Bosshard L, Peischl S, Ackermann M, Excoffier L.

Mol Biol Evol. 2019 Jun 26. pii: msz148. doi: 10.1093/molbev/msz148. [Epub ahead of print]

PMID:
31241150
3.

The population history of northeastern Siberia since the Pleistocene.

Sikora M, Pitulko VV, Sousa VC, Allentoft ME, Vinner L, Rasmussen S, Margaryan A, de Barros Damgaard P, de la Fuente C, Renaud G, Yang MA, Fu Q, Dupanloup I, Giampoudakis K, Nogués-Bravo D, Rahbek C, Kroonen G, Peyrot M, McColl H, Vasilyev SV, Veselovskaya E, Gerasimova M, Pavlova EY, Chasnyk VG, Nikolskiy PA, Gromov AV, Khartanovich VI, Moiseyev V, Grebenyuk PS, Fedorchenko AY, Lebedintsev AI, Slobodin SB, Malyarchuk BA, Martiniano R, Meldgaard M, Arppe L, Palo JU, Sundell T, Mannermaa K, Putkonen M, Alexandersen V, Primeau C, Baimukhanov N, Malhi RS, Sjögren KG, Kristiansen K, Wessman A, Sajantila A, Lahr MM, Durbin R, Nielsen R, Meltzer DJ, Excoffier L, Willerslev E.

Nature. 2019 Jun;570(7760):182-188. doi: 10.1038/s41586-019-1279-z. Epub 2019 Jun 5.

PMID:
31168093
4.

Killer whale genomes reveal a complex history of recurrent admixture and vicariance.

Foote AD, Martin MD, Louis M, Pacheco G, Robertson KM, Sinding MS, Amaral AR, Baird RW, Baker CS, Ballance L, Barlow J, Brownlow A, Collins T, Constantine R, Dabin W, Dalla Rosa L, Davison NJ, Durban JW, Esteban R, Ferguson SH, Gerrodette T, Guinet C, Hanson MB, Hoggard W, Matthews CJD, Samarra FIP, de Stephanis R, Tavares SB, Tixier P, Totterdell JA, Wade P, Excoffier L, Gilbert MTP, Wolf JBW, Morin PA.

Mol Ecol. 2019 Jul;28(14):3427-3444. doi: 10.1111/mec.15099. Epub 2019 May 27.

PMID:
31131963
5.

Author Correction: Ancient admixture from an extinct ape lineage into bonobos.

Kuhlwilm M, Han S, Sousa VC, Excoffier L, Marques-Bonet T.

Nat Ecol Evol. 2019 Jun;3(6):988. doi: 10.1038/s41559-019-0919-x.

PMID:
31089261
6.

SPLATCHE3: simulation of serial genetic data under spatially explicit evolutionary scenarios including long-distance dispersal.

Currat M, Arenas M, Quilodran CS, Excoffier L, Ray N.

Bioinformatics. 2019 May 11. pii: btz311. doi: 10.1093/bioinformatics/btz311. [Epub ahead of print]

PMID:
31077292
7.

Ancient admixture from an extinct ape lineage into bonobos.

Kuhlwilm M, Han S, Sousa VC, Excoffier L, Marques-Bonet T.

Nat Ecol Evol. 2019 Jun;3(6):957-965. doi: 10.1038/s41559-019-0881-7. Epub 2019 Apr 29. Erratum in: Nat Ecol Evol. 2019 May 14;:.

PMID:
31036897
8.

Mutation load dynamics during environmentally-driven range shifts.

Gilbert KJ, Peischl S, Excoffier L.

PLoS Genet. 2018 Sep 28;14(9):e1007450. doi: 10.1371/journal.pgen.1007450. eCollection 2018 Sep.

9.

Background selection and biased gene conversion affect more than 95% of the human genome and bias demographic inferences.

Pouyet F, Aeschbacher S, Thiéry A, Excoffier L.

Elife. 2018 Aug 23;7. pii: e36317. doi: 10.7554/eLife.36317.

10.

Genomics of Parallel Ecological Speciation in Lake Victoria Cichlids.

Meier JI, Marques DA, Wagner CE, Excoffier L, Seehausen O.

Mol Biol Evol. 2018 Jun 1;35(6):1489-1506. doi: 10.1093/molbev/msy051. Erratum in: Mol Biol Evol. 2018 Oct 1;35(10):2594.

PMID:
29617828
11.

The Evolutionary History of Nebraska Deer Mice: Local Adaptation in the Face of Strong Gene Flow.

Pfeifer SP, Laurent S, Sousa VC, Linnen CR, Foll M, Excoffier L, Hoekstra HE, Jensen JD.

Mol Biol Evol. 2018 Apr 1;35(4):792-806. doi: 10.1093/molbev/msy004. Erratum in: Mol Biol Evol. 2018 Jul 1;35(7):1821.

12.

Slightly deleterious genomic variants and transcriptome perturbations in Down syndrome embryonic selection.

Popadin K, Peischl S, Garieri M, Sailani MR, Letourneau A, Santoni F, Lukowski SW, Bazykin GA, Nikolaev S, Meyer D, Excoffier L, Reymond A, Antonarakis SE.

Genome Res. 2018 Jan;28(1):1-10. doi: 10.1101/gr.228411.117. Epub 2017 Dec 13.

13.

Relaxed Selection During a Recent Human Expansion.

Peischl S, Dupanloup I, Foucal A, Jomphe M, Bruat V, Grenier JC, Gouy A, Gilbert KJ, Gbeha E, Bosshard L, Hip-Ki E, Agbessi M, Hodgkinson A, Vézina H, Awadalla P, Excoffier L.

Genetics. 2018 Feb;208(2):763-777. doi: 10.1534/genetics.117.300551. Epub 2017 Nov 29.

14.

Ancient genomes show social and reproductive behavior of early Upper Paleolithic foragers.

Sikora M, Seguin-Orlando A, Sousa VC, Albrechtsen A, Korneliussen T, Ko A, Rasmussen S, Dupanloup I, Nigst PR, Bosch MD, Renaud G, Allentoft ME, Margaryan A, Vasilyev SV, Veselovskaya EV, Borutskaya SB, Deviese T, Comeskey D, Higham T, Manica A, Foley R, Meltzer DJ, Nielsen R, Excoffier L, Mirazon Lahr M, Orlando L, Willerslev E.

Science. 2017 Nov 3;358(6363):659-662. doi: 10.1126/science.aao1807. Epub 2017 Oct 5.

PMID:
28982795
15.

Detecting gene subnetworks under selection in biological pathways.

Gouy A, Daub JT, Excoffier L.

Nucleic Acids Res. 2017 Sep 19;45(16):e149. doi: 10.1093/nar/gkx626.

16.

Accumulation of Deleterious Mutations During Bacterial Range Expansions.

Bosshard L, Dupanloup I, Tenaillon O, Bruggmann R, Ackermann M, Peischl S, Excoffier L.

Genetics. 2017 Oct;207(2):669-684. doi: 10.1534/genetics.117.300144. Epub 2017 Aug 16.

17.

Detection of Pathways Affected by Positive Selection in Primate Lineages Ancestral to Humans.

Daub JT, Moretti S, Davydov II, Excoffier L, Robinson-Rechavi M.

Mol Biol Evol. 2017 Jun 1;34(6):1391-1402. doi: 10.1093/molbev/msx083. Erratum in: Mol Biol Evol. 2017 Jun 1;34(6):1549.

18.

Ancient hybridization fuels rapid cichlid fish adaptive radiations.

Meier JI, Marques DA, Mwaiko S, Wagner CE, Excoffier L, Seehausen O.

Nat Commun. 2017 Feb 10;8:14363. doi: 10.1038/ncomms14363.

19.

Chimpanzee genomic diversity reveals ancient admixture with bonobos.

de Manuel M, Kuhlwilm M, Frandsen P, Sousa VC, Desai T, Prado-Martinez J, Hernandez-Rodriguez J, Dupanloup I, Lao O, Hallast P, Schmidt JM, Heredia-Genestar JM, Benazzo A, Barbujani G, Peter BM, Kuderna LF, Casals F, Angedakin S, Arandjelovic M, Boesch C, Kühl H, Vigilant L, Langergraber K, Novembre J, Gut M, Gut I, Navarro A, Carlsen F, Andrés AM, Siegismund HR, Scally A, Excoffier L, Tyler-Smith C, Castellano S, Xue Y, Hvilsom C, Marques-Bonet T.

Science. 2016 Oct 28;354(6311):477-481. Epub 2016 Oct 27.

20.

A genomic history of Aboriginal Australia.

Malaspinas AS, Westaway MC, Muller C, Sousa VC, Lao O, Alves I, Bergström A, Athanasiadis G, Cheng JY, Crawford JE, Heupink TH, Macholdt E, Peischl S, Rasmussen S, Schiffels S, Subramanian S, Wright JL, Albrechtsen A, Barbieri C, Dupanloup I, Eriksson A, Margaryan A, Moltke I, Pugach I, Korneliussen TS, Levkivskyi IP, Moreno-Mayar JV, Ni S, Racimo F, Sikora M, Xue Y, Aghakhanian FA, Brucato N, Brunak S, Campos PF, Clark W, Ellingvåg S, Fourmile G, Gerbault P, Injie D, Koki G, Leavesley M, Logan B, Lynch A, Matisoo-Smith EA, McAllister PJ, Mentzer AJ, Metspalu M, Migliano AB, Murgha L, Phipps ME, Pomat W, Reynolds D, Ricaut FX, Siba P, Thomas MG, Wales T, Wall CM, Oppenheimer SJ, Tyler-Smith C, Durbin R, Dortch J, Manica A, Schierup MH, Foley RA, Lahr MM, Bowern C, Wall JD, Mailund T, Stoneking M, Nielsen R, Sandhu MS, Excoffier L, Lambert DM, Willerslev E.

Nature. 2016 Oct 13;538(7624):207-214. doi: 10.1038/nature18299. Epub 2016 Sep 21.

PMID:
27654914
21.

Demographic modelling with whole-genome data reveals parallel origin of similar Pundamilia cichlid species after hybridization.

Meier JI, Sousa VC, Marques DA, Selz OM, Wagner CE, Excoffier L, Seehausen O.

Mol Ecol. 2017 Jan;26(1):123-141. doi: 10.1111/mec.13838. Epub 2016 Oct 7.

22.

Genetic surfing in human populations: from genes to genomes.

Peischl S, Dupanloup I, Bosshard L, Excoffier L.

Curr Opin Genet Dev. 2016 Dec;41:53-61. doi: 10.1016/j.gde.2016.08.003. Epub 2016 Aug 29. Review.

PMID:
27584859
23.

Long-distance dispersal suppresses introgression of local alleles during range expansions.

Amorim CE, Hofer T, Ray N, Foll M, Ruiz-Linares A, Excoffier L.

Heredity (Edinb). 2017 Feb;118(2):135-142. doi: 10.1038/hdy.2016.68. Epub 2016 Aug 31.

24.

Genomic landscape of early ecological speciation initiated by selection on nuptial colour.

Marques DA, Lucek K, Haesler MP, Feller AF, Meier JI, Wagner CE, Excoffier L, Seehausen O.

Mol Ecol. 2017 Jan;26(1):7-24. doi: 10.1111/mec.13774. Epub 2016 Aug 26.

25.

Genome-culture coevolution promotes rapid divergence of killer whale ecotypes.

Foote AD, Vijay N, Ávila-Arcos MC, Baird RW, Durban JW, Fumagalli M, Gibbs RA, Hanson MB, Korneliussen TS, Martin MD, Robertson KM, Sousa VC, Vieira FG, Vinař T, Wade P, Worley KC, Excoffier L, Morin PA, Gilbert MTP, Wolf JBW.

Nat Commun. 2016 May 31;7:11693. doi: 10.1038/ncomms11693.

26.

Genomics of Rapid Incipient Speciation in Sympatric Threespine Stickleback.

Marques DA, Lucek K, Meier JI, Mwaiko S, Wagner CE, Excoffier L, Seehausen O.

PLoS Genet. 2016 Feb 29;12(2):e1005887. doi: 10.1371/journal.pgen.1005887. eCollection 2016 Feb.

27.

Distance from sub-Saharan Africa predicts mutational load in diverse human genomes.

Henn BM, Botigué LR, Peischl S, Dupanloup I, Lipatov M, Maples BK, Martin AR, Musharoff S, Cann H, Snyder MP, Excoffier L, Kidd JM, Bustamante CD.

Proc Natl Acad Sci U S A. 2016 Jan 26;113(4):E440-9. doi: 10.1073/pnas.1510805112. Epub 2015 Dec 28.

28.

Long-Distance Dispersal Shaped Patterns of Human Genetic Diversity in Eurasia.

Alves I, Arenas M, Currat M, Sramkova Hanulova A, Sousa VC, Ray N, Excoffier L.

Mol Biol Evol. 2016 Apr;33(4):946-58. doi: 10.1093/molbev/msv332. Epub 2015 Dec 4.

29.

Inference of Evolutionary Forces Acting on Human Biological Pathways.

Daub JT, Dupanloup I, Robinson-Rechavi M, Excoffier L.

Genome Biol Evol. 2015 May 13;7(6):1546-58. doi: 10.1093/gbe/evv083.

30.

Detection of convergent genome-wide signals of adaptation to tropical forests in humans.

Amorim CE, Daub JT, Salzano FM, Foll M, Excoffier L.

PLoS One. 2015 Apr 7;10(4):e0121557. doi: 10.1371/journal.pone.0121557. eCollection 2015.

31.

Expansion load and the evolutionary dynamics of a species range.

Peischl S, Kirkpatrick M, Excoffier L.

Am Nat. 2015 Apr;185(4):E81-93. doi: 10.1086/680220.

32.

Expansion load: recessive mutations and the role of standing genetic variation.

Peischl S, Excoffier L.

Mol Ecol. 2015 May;24(9):2084-94. doi: 10.1111/mec.13154.

PMID:
25786336
33.

Prehistoric genomes reveal the genetic foundation and cost of horse domestication.

Schubert M, Jónsson H, Chang D, Der Sarkissian C, Ermini L, Ginolhac A, Albrechtsen A, Dupanloup I, Foucal A, Petersen B, Fumagalli M, Raghavan M, Seguin-Orlando A, Korneliussen TS, Velazquez AM, Stenderup J, Hoover CA, Rubin CJ, Alfarhan AH, Alquraishi SA, Al-Rasheid KA, MacHugh DE, Kalbfleisch T, MacLeod JN, Rubin EM, Sicheritz-Ponten T, Andersson L, Hofreiter M, Marques-Bonet T, Gilbert MT, Nielsen R, Excoffier L, Willerslev E, Shapiro B, Orlando L.

Proc Natl Acad Sci U S A. 2014 Dec 30;111(52):E5661-9. doi: 10.1073/pnas.1416991111. Epub 2014 Dec 15.

34.

Continental-scale footprint of balancing and positive selection in a small rodent (Microtus arvalis).

Fischer MC, Foll M, Heckel G, Excoffier L.

PLoS One. 2014 Nov 10;9(11):e112332. doi: 10.1371/journal.pone.0112332. eCollection 2014.

35.

Widespread signals of convergent adaptation to high altitude in Asia and america.

Foll M, Gaggiotti OE, Daub JT, Vatsiou A, Excoffier L.

Am J Hum Genet. 2014 Oct 2;95(4):394-407. doi: 10.1016/j.ajhg.2014.09.002. Epub 2014 Sep 25.

36.

Impact of range expansions on current human genomic diversity.

Sousa V, Peischl S, Excoffier L.

Curr Opin Genet Dev. 2014 Dec;29:22-30. doi: 10.1016/j.gde.2014.07.007. Epub 2014 Aug 23. Review.

PMID:
25156518
37.

Adaptive, convergent origins of the pygmy phenotype in African rainforest hunter-gatherers.

Perry GH, Foll M, Grenier JC, Patin E, Nédélec Y, Pacis A, Barakatt M, Gravel S, Zhou X, Nsobya SL, Excoffier L, Quintana-Murci L, Dominy NJ, Barreiro LB.

Proc Natl Acad Sci U S A. 2014 Sep 2;111(35):E3596-603. doi: 10.1073/pnas.1402875111. Epub 2014 Aug 18.

38.

Ignoring heterozygous sites biases phylogenomic estimates of divergence times: implications for the evolutionary history of microtus voles.

Lischer HE, Excoffier L, Heckel G.

Mol Biol Evol. 2014 Apr;31(4):817-31. doi: 10.1093/molbev/mst271. Epub 2013 Dec 25.

PMID:
24371090
39.

Robust demographic inference from genomic and SNP data.

Excoffier L, Dupanloup I, Huerta-Sánchez E, Sousa VC, Foll M.

PLoS Genet. 2013 Oct;9(10):e1003905. doi: 10.1371/journal.pgen.1003905. Epub 2013 Oct 24.

40.

Genetic consequences of habitat fragmentation during a range expansion.

Mona S, Ray N, Arenas M, Excoffier L.

Heredity (Edinb). 2014 Mar;112(3):291-9. doi: 10.1038/hdy.2013.105. Epub 2013 Oct 23.

41.

On the accumulation of deleterious mutations during range expansions.

Peischl S, Dupanloup I, Kirkpatrick M, Excoffier L.

Mol Ecol. 2013 Dec;22(24):5972-82. doi: 10.1111/mec.12524. Epub 2013 Nov 4.

PMID:
24102784
42.

Divergent evolutionary processes associated with colonization of offshore islands.

Martínková N, Barnett R, Cucchi T, Struchen R, Pascal M, Pascal M, Fischer MC, Higham T, Brace S, Ho SY, Quéré JP, O'Higgins P, Excoffier L, Heckel G, Hoelzel AR, Dobney KM, Searle JB.

Mol Ecol. 2013 Oct;22(20):5205-20. doi: 10.1111/mec.12462. Epub 2013 Sep 3.

43.

Evidence for polygenic adaptation to pathogens in the human genome.

Daub JT, Hofer T, Cutivet E, Dupanloup I, Quintana-Murci L, Robinson-Rechavi M, Excoffier L.

Mol Biol Evol. 2013 Jul;30(7):1544-58. doi: 10.1093/molbev/mst080. Epub 2013 Apr 26.

PMID:
23625889
44.

European phylogeography of the epiphytic lichen fungus Lobaria pulmonaria and its green algal symbiont.

Widmer I, Dal Grande F, Excoffier L, Holderegger R, Keller C, Mikryukov VS, Scheidegger C.

Mol Ecol. 2012 Dec;21(23):5827-44. doi: 10.1111/mec.12051. Epub 2012 Oct 23.

PMID:
23094600
45.

Similarity in recombination rate and linkage disequilibrium at CYP2C and CYP2D cytochrome P450 gene regions among Europeans indicates signs of selection and no advantage of using tagSNPs in population isolates.

Pimenoff VN, Laval G, Comas D, Palo JU, Gut I, Cann H, Excoffier L, Sajantila A.

Pharmacogenet Genomics. 2012 Dec;22(12):846-57. doi: 10.1097/FPC.0b013e32835a3a6d.

PMID:
23089684
46.

Influence of admixture and paleolithic range contractions on current European diversity gradients.

Arenas M, François O, Currat M, Ray N, Excoffier L.

Mol Biol Evol. 2013 Jan;30(1):57-61. doi: 10.1093/molbev/mss203. Epub 2012 Aug 25.

PMID:
22923464
47.

Genomic data reveal a complex making of humans.

Alves I, Srámková Hanulová A, Foll M, Excoffier L.

PLoS Genet. 2012;8(7):e1002837. doi: 10.1371/journal.pgen.1002837. Epub 2012 Jul 19. Review.

48.

Reconstructing Native American population history.

Reich D, Patterson N, Campbell D, Tandon A, Mazieres S, Ray N, Parra MV, Rojas W, Duque C, Mesa N, García LF, Triana O, Blair S, Maestre A, Dib JC, Bravi CM, Bailliet G, Corach D, Hünemeier T, Bortolini MC, Salzano FM, Petzl-Erler ML, Acuña-Alonzo V, Aguilar-Salinas C, Canizales-Quinteros S, Tusié-Luna T, Riba L, Rodríguez-Cruz M, Lopez-Alarcón M, Coral-Vazquez R, Canto-Cetina T, Silva-Zolezzi I, Fernandez-Lopez JC, Contreras AV, Jimenez-Sanchez G, Gómez-Vázquez MJ, Molina J, Carracedo A, Salas A, Gallo C, Poletti G, Witonsky DB, Alkorta-Aranburu G, Sukernik RI, Osipova L, Fedorova SA, Vasquez R, Villena M, Moreau C, Barrantes R, Pauls D, Excoffier L, Bedoya G, Rothhammer F, Dugoujon JM, Larrouy G, Klitz W, Labuda D, Kidd J, Kidd K, Di Rienzo A, Freimer NB, Price AL, Ruiz-Linares A.

Nature. 2012 Aug 16;488(7411):370-4. doi: 10.1038/nature11258. Erratum in: Nature. 2012 Nov 8;491(7423):288.

49.

Recent colonization of the Galápagos by the tree Geoffroea spinosa Jacq. (Leguminosae).

Caetano S, Currat M, Pennington RT, Prado D, Excoffier L, Naciri Y.

Mol Ecol. 2012 Jun;21(11):2743-60. doi: 10.1111/j.1365-294X.2012.05562.x. Epub 2012 Apr 17.

PMID:
22509817
50.

Evolutionary forces shaping genomic islands of population differentiation in humans.

Hofer T, Foll M, Excoffier L.

BMC Genomics. 2012 Mar 22;13:107. doi: 10.1186/1471-2164-13-107.

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