• Biography/ Background

  2009 – 2012    PhD in Molecular Biology and Evolution
  Australian Centre for Ancient DNA - School of Earth and Environmental Sciences - The University of Adelaide, Australia
  Research project: “What ‘molecular’ time is it? – Use of ancient DNA to refine estimates of molecular timescales”
  Supervised by Alan Cooper, Simon Ho (University of Sydney), Wolfgang Haak and Mike Lee
   
  2006 – 2008    Master’s degree in Functional Genomics and Oncology
  University Claude Bernard Lyon1, France
  Research project: “Supermatrix assemblies to study the phylogeny of Actinopterygii (ray-finned fishes)”
  Bibliographic dissertation: “Supermatrices and Supertrees: What solutions for Phylogenomics”
  Supervised by Christophe Douady, Groundwater Hydrobiology and Ecology team of “Laboratoire d’Ecologie des Hydrosystèmes Souterrains”, UMR CNRS 5023, University Claude Bernard Lyon1, France and Manolo Gouy, Bioinformatics and Evolutionary Genomics team of “Laboratoire Biométrie et Biologie Evolutive”, UMR5558, University Claude Bernard Lyon1, France

  2004 – 2006    Bachelor’s degree in Biology of Organisms and Populations
  University Claude Bernard Lyon1, France
  Research project: “Genetic analysis of domestication during the Neolithic period (Chronobos project).
  Supervised by Sandrine Hughes and Ludovic Orlando, Paleogenetic team of the “Institut de Génomique Fonctionnelle de Lyon”, UMR CNRS 5161, Ecole Normale supérieure de Lyon, France

  ---

   

   

• Research Interests

  As a member of the Australian Centre of Ancient DNA, Julien uses bioinformatic tools to analyse the genomes of both living and extinct species from next generation sequencing data. Using the bison as a model organism, with DNA data from specimens up to 50 ky old, he is currently studying how large mammals respond to environmental variation and adapt to periods of rapid climate change. This involves identifying genomic signatures associated with important evolutionary processes like speciation, population fragmentation, and population decline preceding extinction.

• Publications

  On Google Scholar

  http://scholar.google.com.au - Soubrier

  ---

  Peer-reviewd articles

   

  1.     Weyrich LS, Duchene S, Soubrier J, Arriola L, Llamas B, Breen J, Morris AG, Alt KW, Caramelli D, Dresely V, Farrell M, Farrer AG, Francken M, Gully N, Haak W, Hardy K, Harvati K, Held P, Holmes EC, Kaidonis J, Lalueza-Fox C, de la Rasilla M, Rosas A, Semal P, Soltysiak A, Townsend G, Usai D, Wahl J, Huson DH, Dobney K, Alan Cooper A

  Reconstructing Neandertal behavior, diet, and disease using ancient DNA from dental calculus

  Nature (2017) 10.1038/nature21674

   

  2.     Tobler R*, Rohrlach A*, Soubrier J, Bover P, Llamas B, Tuke J, Bean N, Abdullah-Highfold A, Agius S, O’Donoghue A, O’Loughlin I, Sutton P, Zilio F, Walshe K, Williams AN, Turney C, Williams M, Mitchell RJ, Kowal E, Stephen JR, Williams L, Haak H, Cooper A

  Aboriginal mitogenomes reveal 50,000 years of regionalism in Australia

  Nature (2017) 10.1038/nature21416 [*equally contributed]

   

  3.     Onar V, Soubrier J, Toker NY, van Loenen A, Llamas B, Siddiq AB, Pasicka E, Tokarska M

  Did the historical range of the European bison (Bison bonasus L.) extend further south? —a new finding from the Yenikapı Metro and Marmaray excavation, Turkey

  Mammal Research (2017) 10.1007/s13364-016-0299-4

   

  4.     Soubrier J*, Gower G*, Chen K, Richards SM, Llamas B, Mitchell KJ, Ho SYW, Kosintsev P, Lee MSY, Baryshnikov G, Bollongino R, Bover P, Burger J, Chivall D, Crégut-Bonnoure E, Decker JE, Doronichev VB, Douka K, Fordham DA, Fontana F, Fritz C, Glimmerveen J, Golovanova LV, Groves C, Guerreschi A, Haak W, Higham T, Hofman-Kamińska E, Immel A, Julien MA, Krause J, Krotova O, Langbein F, Larson G, Rohrlach A, Scheu A, Schnabel RD, Taylor JF, Tokarska M, Tosello G, vanderPlicht J, vanLoenen A, Vigne JD, Wooley O, Orlando L, Kowalczyk R, Shapiro B, Cooper A

  Early cave art and ancient DNA record the origin of European bison

  Nature Communications (2016) 10.1038/ncomms13158 [*equally contributed]

   

  5.     Cruz-Dávalos DI, Llamas B, Gaunitz C, Fages A, Gamba C, Soubrier J, Librado P, Seguin-Orlando A, Pruvost M, Alfarhan AH, Alquraishi SA, Khaled A. S. Al-Rasheid, Scheu A, Beneke N, Ludwig A, Cooper A, Willerslev E, Orlando L

  Experimental Conditions Improving in Solution Target Enrichment for Ancient DN

  Molecular Ecology Resources (2016) 10.1111/1755-0998.12595

   

  6.     Llamas B, Fehren-Schmitz, Valverde G, Soubrier J, Mallick S, Rohland N, Nordenfelt S, Valdiosera C, Richards SM, Rohrlach A, Barreto Romero MI, Flores Espinoza I, Tomasto Cagigao E, Watson Jiménez L, Makowski K, Leboreiro Reyna IS, Mansilla Lory J, Ballivián Torrez JA, Rivera MA, Burger RL, Constanza Ceruti M, Reinhard J, Wells RS, Politis G, Santoro CM, Standen VG, Smith C, Reich D, Ho SYW, Cooper A, Haak W

  Ancient mitochondrial DNA provides high-resolution time scale of the peopling of the Americas

  Science Advances (2016) 10.1126/sciadv.1501385

   

  7.     Mitchell KJ, Llamas B, Soubrier J, Rawlence NJ, Worthy TH, Wood J, Lee MSY, Cooper A

  Ancient DNA reveals elephant birds and kiwi are sister taxa and clarifies ratite bird evolution

  Science (2014) 10.1126/science.1251981

   

  8.     Clarke LJ, Soubrier J, Weyrich LS, CooperA

  Environmental metabarcodes for insects: in silico PCR reveals potential for taxonomic bias

  Molecular Ecology Resources (2014) 10.1111/1755-0998.12265

   

  9.     Der Sarkissian C, Brotherton P, Balanovsky O, Templeton J, Llamas B, Soubrier J, Moiseyev V, Khartanovich V, Cooper A, Haak W, The Genographic Consortium

  Mitochondrial Genome Sequencing in Mesolithic North East Europe Unearths a New Sub-clade Within the Broadly Distributed Human Haplogroup C1

  PLoS ONE (2014) 10.1371/journal.pone.0087612

   

  10.  Sheng GL*, Soubrier J*, Liu JY, Werdelin L, Llamas B, Thomson VA, Tuke J, Wu LJ, Hou XD, Chen QJ, Lai XL, Cooper A

  Pleistocene Chinese cave hyenas and the recent Eurasian history of the spotted hyena, Crocuta crocuta

  Molecular Ecology (2013) 10.1111/mec.12576 [*equally contributed]

   

  

   

  11.  Templeton JEL, Brotherton PM, Llamas B, Soubrier J, Haak W, Cooper A, Austin JJ

  DNA capture and next-generation sequencing can recover whole mitochondrial genomes from highly degraded samples for human identification

  Investigative Genetics (2013) 10.1186/2041-2223-4-26

   

  12.  Lee MSY, Soubrier J, and Edgecombe GD

  Rates of phenotypic and genomic evolution during the Cambrian Explosion

  Current Biology (2013) 10.1016/j.cub.2013.07.055

   

  13.  Clarke LJ, Czechowski P, Soubrier J, Stevens MI and Cooper A

  Modular tagging of amplicons using a single PCR (MoTASP) for high throughput sequencing

  Molecular Ecology Resources (2013) 10.1111/1755-0998.12162

   

  14.  Brotherton P, Haak W, Templeton J, Brandt G, Soubrier J, Adler CJ, Richards SM, Der Sarkissian C, Ganslmeier R, Friederich S, Dresely V, van Oven M, Kenyon R, Van der Hoek M, Korlach J, Luong K, Ho SYW, Quintana-Murci L, Behar DM, Meller H, Alt KW, Cooper A and The Genographic Project

  Neolithic mitochondrial haplogroup H genomes and the genetic origins of Europeans

  Nature Communications (2013) 10.1038/ncomms2570

   

  15.  Austin J*, Soubrier J*, Prevosti FJ, Prates L, Trejo V, Mena F, and Cooper A

  The origin of the enigmatic Falkland Islands wolf

  Nature Communications (2013) 4:1552 [*equally contributed]

   

  16.  Soubrier J, Steel M, Lee M, Der Sarkissian C, Guindon S, Ho SYW, Cooper A and The Genographic Consortium

  The influence of rate heterogeneity among sites on the time dependence of molecular rates

  Molecular Biology and Evolution (2012) 29:3345-3358

   

  17.  Ho SYW, Lanfear R, Bromham L, Phillips MJ, Soubrier J, Rodrigo AG and Cooper A

  Time-dependent rates of molecular evolution

  Molecular Ecology (2011) 20:3087-3101

   

  18.  Aplin KP, Suzuki H, Chinen AA, Chesser RT, Ten Have J, Donnellan SC, Austin J, Frost A, Gonzalez JP, Herbreteau V, Catzeflis F, Soubrier J, Fang YP, Robins J, Matisoo-Smith E, Bastos AD, Maryanto I, Sinaga MH, Denys C, Van Den Bussche RA, Conroy C, Rowe K and Cooper A

  Multiple geographic origins of commensalism and complex dispersal history of Black Rats

  PLoS One (2011) 6:e26357

   

  ---

  Other publications

  1.     Miller, C, Franks, C, Breen, J, Weyrich, L, Soubrier, J, Llamas, B, Haak, W, Cooper, A

  Open access to ancient human DNA: An Australian Centre for Ancient DNA (ACAD) and University Libraries collaboration

  Proceedings of eResearch Australasia 2016, 2015 / pp.27-1-27-3

Entry last updated: Tuesday, 29 Mar 2022

To link to this page, please use the following URL:  https://www.adelaide.edu.au/directory/julien.soubrier