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Accueil > Equipes > Archaeology, Genomics, Evolution and Societies (AGES)

Publications | Publications

par Ludovic Orlando - publié le , mis à jour le

JPEG - 63.7 ko

A list of all articles released prior to 2017 is available through each researchers’s individual webpage.

2018

- Wagner S, Lagane F, Seguin-Orlando A, Schubert M, Leroy T, Guichoux E, Chancerel E, Bech-Hebelstrup I, Bernard V, Billard C, Billaud Y, Bolliger M, Croutsch C, Čufar K, Eynaud F, Heussner KU, Köninger J, Langenegger F, Leroy F, Lima C, Martinelli N, Momber G, Billamboz A, Nelle O, Palomo A, Piqué R, Ramstein M, Schweichel R, Stäuble H, Tegel W, Terradas X, Verdin F, Plomion C, Kremer A, Orlando L. 2018. High-Throughput DNA sequencing of ancient wood. Mol Ecol. 2018 Feb 7. doi : 10.1111/mec.14514.
- Pedersen CT, Albrechtsen A, Etter PD, Johnson EA, Orlando L, Chikhi L, Siegismund HR, Heller R. 2018. A southern African origin and cryptic structure in the highly mobile plains zebra. Nat Ecol Evol 2018 Jan 22. doi : 10.1038/s41559-017-0453-7.
- Moreno-Mayar JV, Potter BA, Vinner L, Steinrücken M, Rasmussen S, Terhorst J, Kamm JA, Albrechtsen A, Malaspinas AS, Sikora M, Reuther JD, Irish JD, Malhi RS, Orlando L, Song YS, Nielsen R, Meltzer DJ, Willerslev E. 2018. Terminal Pleistocene Alaskan genome reveals first founding population of Native Americans. Nature 553:203-207. doi : 10.1038/nature25173

2017

- Heintzman PD, Zazula GD, MacPhee R, Scott E, `Cahill JA, McHorse BK, Kapp JD, Stiller M, Wooller MJ, Orlando L, Southon J, Froese DG, Shapiro B. 2017. A new genus of horse from Pleistocene North America. Elife 6 pii:e29944. doi : 10.7554/eLife.29944.
- Metcalf J, Song Se Jin, Morton JT, WeissS, Seguin-Orlando A, Joly F, Feh C, Taberlet P, Coissac E, Amir A, WillerslevE, Knight R, McKenzie V, Orlando L. 2017. Evaluating the impact of domestication and captivity on the horse gut microbiome. Sci Rep 7:15497. doi : 10.1038/s41598-017-15375-9.
- Fortes-Lima C, Gessain A, Ruiz-Linares A, Bortolini MC, Migot-Nabias F,Bellis G, Moreno-Mayar JV, Restrepo BN, Rojas W, Avendaño-Tamayo E, Bedoya G,Orlando L, Salas A, Helgason A, GilbertMTP, Sikora M, Schroeder H, Dugoujon JM. 2017. Genome-wide Ancestryand Demographic History of African-Descendant Maroon Communities from French Guiana and Suriname. Am J Hum Genet 101:725-736. doi : 10.1016/j.ajhg.2017.09.021.
- Thompson LR, Sanders JG, McDonald D, Amir A, Ladau J, Locey KJ, Prill RJ, Tripathi A, Gibbons SM, Ackermann G, Navas-Molina JA, Janssen S, Kopylova E, Vázquez-Baeza Y, González A, Morton JT, Mirarab S, Zech Xu Z, Jiang L, Haroon MF, Kanbar J, Zhu Q, Jin Song S, Kosciolek T, Bokulich NA, Lefler J, Brislawn CJ, Humphrey G, Owens SM, Hampton-Marcell J, Berg-Lyons D, McKenzie V, Fierer N, Fuhrman JA, Clauset A, Stevens RL, Shade A, Pollard KS, Goodwin KD, Jansson JK, Gilbert JA, Knight R ; Earth Microbiome Project Consortium. 2017. A communal catalogue reveals Earth’s multiscale microbial diversity. Nature 551:457-463. doi : 10.1038/nature24621.
- Benazzo A, Trucchi E, Cahill JA, MaisanoDelser P, Mona S, Fumagalli M, Bunnefeld L, Cornetti L, Ghirotto S, Girardi M,Ometto L, Panziera A, Rota-Stabelli O, Zanetti E, Karamanlidis A, Groff C,Paule L, Gentile L, Vilà C, Vicario S, Boitani L,Orlando L, Fuselli S, Vernesi C, Shapiro B, Ciucci P, Bertorelle G.2017. Survival and divergence in a small group : the extraordinary genomic history of the endangered Apennine brown bear stragglers. Proc Natl Acad Sci U S A 114:E9589-E9597. doi:10.1073/pnas.1707279114.
- MacKenzie VJ, Song S, Delsuc F, Prest TL, Oliverio AM, Korpita TM, Alexiev A, Amato KR, Metcalf JL, Kowalewski M, Avenant NL, Link A, Di Fiore A, Seguin-Orlando A, Feh A, Orlando L, Mendelson JR, Sanders J, Knight R. 2017. The effects of captivity on the mammalian gut microbiome. Integr Comp Biol 57:690-704. doi : 10.1093/icb/icx090.
- 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, MargaryanA, Vasilyev SV, Veselovskaya EV, Borutskaya SB, Deviese T, Comeskey D, HighamT, Manica A, Foley R, Meltzer DJ, Nielsen R, Excoffier L, Lahr MM, Orlando L, Willerslev E. 2017. Ancient genomes show social and reproductive behavior of early Upper Paleolithic foragers. Science 358:659-62. doi : 10.1126/science.aao1807.
- Schaefer RJ, Schubert M, Bailey E, Bannasch DL, Barrey E, Bar-Gal GK, Brem G, Brooks SA,Distl O, Fries R, Finno CJ, Gerber V, Haase B, Jagannathan V, Kalbfleisch T,Leeb T, Lindgren G, Lopes MS, Mach N, da Câmara Machado A, MacLeod JN, McCoy A,Metzger J, Penedo C, Polani S, Rieder S, Tammen I, Tetens J, Thaller G,Verini-Supplizi A, Wade CM, Wallner B,OrlandoL, Mickelson JR, McCue ME. 2017. Developing a 670k genotyping array to tag 2M SNPs across 24 horse breeds. BMC Genomics 18:565. doi : 10.1186/s12864-017-3943-8.
- Gopalakrishnan S, Castruita JS, Sinding MH, Kuderna L, Raikkonen J, Petersen B, Sicheritz-Ponten T, Larson G, Orlando L, Marques-Bonet T, Hansen A, Dalen L, Gilbert MTP. 2017. The wolf reference genome sequence (Canis lupus lupus) and its implications for Canis spp. population genomics. BMC Genomics 18:495. doi : 10.1186/s12864-017-3883-3.
- Warinner C, Herbig A, Mann A, Fellows Yates JA, Weiß CL, Burbano HA, Orlando L, Krause J. 2017. A robust framework for microbial archaeology. Ann Rev Genomics Hum Genet 18:321-356. doi : 10.1146/annurev-genom-091416-035526.
- Librado P, Gamba C, Gaunitz C, Der Sarkissian C, Pruvost M, Albrechtsen A, Fages A, Khan N, Schubert M, Jagannathan V, Serres A, Kuderna LFK, Povolotskaya I, Seguin-Orlando A, Lepetz S, Neuditschko M, Theves C, Alquaraishi S, Alfarhan AH, Al-Rasheid K, Rieder S, Samashev Z, Francfort HP, Benecke N, Hofreiter M, Ludwig A, Keyser C, Marques-Bonet T, Ludes B, Crubezy E, Leeb T, Willerslev E, Orlando L. 2017. Ancient genomic changes associated with domestication of the horse. Science 356:442-5. doi : 10.1126/science.aam5298.
- Lefebure T, Morvan C, Malard F, Francois C, Konecky-Dupre L, Gueguen L, Weiss-Gayet M,Seguin-Orlando A, Ermini L, Der Sarkissian C, Charrier PN, Eme D, Mermillord-Blondin F, Duret L, Vieira C, Orlando L, Douady CJ. 2017. Less effective selection leads to larger genome. Genome Res 27:1016-1028. doi : 10.1101/gr.212589.116.
- Der Sarkissian C, Pichereau V, Dupont C, Ilsøe P, Perrigault M, Butler P, Chauvaud L, Eiriksson J, Scourse J, Paillard C, Orlando L. 2017. Ancient DNA analysis identifies marine mollusk shells as new metagenomic archives of the past. Mol Ecol Resour 17:835-53. doi : 10.1111/1755-0998.12679.
- Cucchi T, Mohaseb A, Peigne S, Debue K,Orlando L, Mashkour M. 2017. Detecting taxonomic and phylogenetic signals in equid cheek teeth : towards new palaeontological and archaeological proxies. R Soc Open Sci 4:160997. doi : 10.1098/rsos.160997.
- Leonardi M, Librado P, Der Sarkissian C, Schubert M, Alfarhan AH, Alquraishi SA, Al-Rasheid KAS, Gamba C, Willerslev E, Orlando L. 2017. Evolutionary patterns and processes : lessons from ancient DNA. Syst Biol 66:e1-e29. doi : 10.1093/sysbio/syw059.
- Fabre PH, Upham NS, Emmons LH, Justy F,Leite YL, Loss AC, Orlando L, Tilak MK, Patterson BD, Douzery EJ. 2017. Mitogenomic phylogeny, diversification, and biogeography of South American spiny rats. Mol Biol Evol 34:613-633. doi : 10.1093/molbev/msw261.
- Llamas B, Willerslev E, Orlando L. 2017. Human evolution : a tale from ancient genomes. Phil Trans Roy Soc B 372(1713) pii : 20150484.
- Schubert M, Mashkour M, Gaunitz C, Fages A, Seguin-Orlando S, Sheikhi S, Alfarhan AH, Alquraishi SA, Al-Rasheid KAS, Chuang R, Ermini L, Gamba C, Vila E, WeinstockJ, Vedat O, Orlando L. 2017. Zonkey : a fast, simple, accurate and sensitive method to genetically identify F1-equid hybrids in archaeological assemblages. J Arc Sci 78:147-157. doi : 10.1016/j.jas.2016.12.005.
- Renaud G, Hanghøj K, Willeslev E, Orlando L. 2017. gargammel : a sequence simulator for ancient DNA. Bioinformatics 33:577-579. doi : 10.1093/bioinformatics/btw670.
- Boessenkool S, Hanghøj K, Nistelberger HM, Der Sarkissian C, Gondek A, Orlando L, Barrett JH, Star B. 2017. Combining bleach and mild pre-digestion improves ancient DNA recovery from bones. Mol Ecol Resour 17:742-751. doi : 10.1111/1755-0998.12623.
- Cruz-Davalos DI, Llamas B, Gaunitz C,Fages A, Gamba C, Soubrier J, Librado P, Seguin-Orlando A, Pruvost M, AlfarhanAH, Al Quraishi SA, Al-Rasheid KAS, Scheu A, Benecke N, Ludwig A, Cooper A, Willerslev E, Orlando L. 2017. Experimental conditions improving in solution target enrichment for ancient DNA. Mol Ecol Resour 17:508-522. doi : 10.1111/1755-0998.12595.
- MacHugh D, Larson G, Orlando L. 2017. Taming the Past : Ancient DNA and the Study of Animal Domestication. Ann Rev Anim Biosci 5:329-51. doi : 10.1146/annurev-animal-022516-022747.