Dr Julien Soubrier

Dr Julien Soubrier
 Position ARC Postdoctoral Research Associate
 Org Unit Ecology and Evolutionary Biology
 Email julien.soubrier@adelaide.edu.au
 Telephone +61 8 8313 5565
 Location Floor/Room 2 05c ,  Darling ,   North Terrace
  • 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

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Entry last updated: Friday, 24 Aug 2018

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