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Australian Centre for Ancient DNA
School of Earth & Environmental Sciences
Darling Building
THE UNIVERSITY OF ADELAIDE
SA 5005
AUSTRALIA
Email

Telephone: +61 8 8313 3952
Facsimile: +61 8 8313 4364

ACAD Recent Publications

2013

  • Badro DA, Douaihy B, Haber M, Youhanna SC, Salloum A, Ghassibe-Sabbagh M, Jonhsrud B, Khazen G, Matisoo-Smith E, Soria-Hernanz DF, Wells RS, Tyler-Smith C, Platt DE, Zalloua PA and The Genographic Consortium. Y chromosome and mtDNA Genetics Reveal Significant Contrasts in Affinities of Modern Middle Eastern Populations with European and African Populations. PLoS One 8(1).
  • Brotherton P, Haak W, Templeton J, Brandt G, Soubrier J, Adler CJ, Richards SM, Der Sarkissian C, Ganslmeier R, Friederich S, Dresely V, vanOven M, Kenyon R, Van der Hoek MB, Korlach J, Luong K, Ho SWY, Quintana-Murci L, Behar DM, Meller H, Alt KW, Cooper A & The Genographic Consortium. Neolithic mitochondrial genomes and the genetic origins of Europeans. Nature Communications (in press, accepted Jan 13)
  • Der Sarkissian C, Balanovsky O, Brandt G, Khartanovich V, Buzhilova A, Koshel S, Zaporozhchenko V, Gronenbom D, Moiseyev V, Kolpakov E, Shumkin V, Alt KW, Balanovska E, Cooper A, Haak W and The Genographic Consortium. Ancient DNA Reveals Prehistoric Gene-Flow. PloS Genetics. 9(2) e1003296. doi:10.1371/journal.pgen. 1003296.
  • Vilstrup JT, Seguin-Orlando A, Stiller M, Ginolhac A, Raghavan M, Nielsen SCA, Weinstock J, Froese D, Vasiliev SK, Ovodov ND, Clary J, Helgen KM, Fleischer RC, Cooper A, Shapiro B, Orlando L. Mitochondrial Phylogenomics of Modern and Ancient Equids. PLoS One 8: e55950

2012

  • Bradshaw CJA, Cooper A, Turney CSM, and Brook BW. Robust estimates of extinction time in the geological record. Quaternary Science Reviews [in Press Dec 11]. doi 10.1016/j.quascirev.2011.11.021.
  • Edson J, Brooks EM, McLaren C, Robertson J, McNevin D, Cooper A, Austin JJ. A quantitive assessment of a reliable screening technique for the STR analysis of telogen hair roots. Forensic Science International: Genetics Vol 7:1 pp180-188.

  • Gillespie R, Camens AB, Worthy TH, Rawlence NJ, Reid C, Bertuch F, Levchenko V, Cooper A. Man and megafauna in Tasmania: closing the gap. Quat Sci Reviews 37:38-47 (2012).

  • Haber M, Platt DE, Ashrafian Bonab M, Youhanna SC, Soria-Hernanz DF, Martínez-Cruz B, Douaihy B, Ghassibe-Sabbagh M, Rafatpanah H, Ghanbari M, Whale J, Balanovsky O, Wells RS, Comas D, Tyler-Smith C, Zalloua PA; The Genographic Consortium. Afghanistan's ethnic groups share a Y-chromosomal heritage structured by historical events. PLoS One. 2012;7(3):e34288
  • Hale JM, Heard GW, Smith KL, Parris JM, Austin JJ, Kearney M, Jelville J. Structure and Fragmentation of growling grass frog metapopulations. Conservation Genetics (accepted 6 Nov. 12)
  • Metcalf J, Love SS, Kennedy C, Rogers K, McDonald D, Keepers K, Epp J, Cooper A, Austin J, Martin A. Historical stocking data and 19th century DNA reveal human-induced changes to native diversity and distribution of cutthroat trout. Mol. Ecol. In press (July 2012).
  • Morris K, Austin JJ, Belov K. Low MHC diversity in the Tasmanian devil pre-dates European settlement and may explain susceptibility to disease epidemics. Biology Letters (accepted 6 Nov 12)
  • Nguyen LV, Warren-Smith SC, Cooper A, Monro TM. Molecular beacon immobolized within suspended core fibre for specific DNA detection. Optics Express 20:29378-29385.
  • Rawlence N, Metcalf JL, Wood JR, Worthy TH, Austin JJ, Cooper A. The effect of climate and environmental change on the megafaunal moa of New Zealand in the absence of humans. Quat Sci Reviews. Online - Aug 2012 http://dx.doi.org/10.1016/j.quascirev.2012.07.004
  • Rawlence NJ, Cooper A. Youngest reported radiocarbon age of a moa ( Aves: Dinornithiformes) dated from a natural site in New Zealand. J. Roy. Soc. New Zeal. Online May 2012 DOI:10.1080/03036758.2012.658817
  • Wood JR, Wilmshurst JM, Worthy TH, Holzapfel AS, Cooper A. A lost link between a flightless parrot and a parasitic plant and the potential role of coprolites in conservation paleobiology. Conservation Biology. In press (July 2012).
  • Wood JR, Wilmshurst JM, Worthy TH, Cooper A. High-Resolution Coproecology: Using Coprolites to Reconstruct the Habits and Habitats of New Zealand's Extinct Upland Moa (Megalapteryx didinus) PLoS One. 7:e40025 (2012)
  • Wood JR, Wilmshurst JM, Worthy TH, Cooper A. First coprolite evidence for the diet of Anomalopteryx didiformis, an extinct forest ratite from New Zealand. NZ J Ecology 36:164-170 (2012).

2011

  • Adler CJ, Haak W, Donlon D, Cooper A, The Genographic Consortium. Survival and recovery of DNA from ancient teeth and bones. Journal of Archaeological Science. 38:956-964 (2011). [doi 10.1016/j.jas.2010.11.010.]
  • Allentoft ME, Rawlence NJ. Moa's Ark or volant ghosts of Gondwana? Insights from nineteen years of ancient DNA research on the extinct moa (Aves: Dinornithiformes) of New Zealand. Annals of Anatomy. doi: 10.1016/j.aanat.2011.04.002.
  • Balanovsky O, Dibirova K, Dybo A, Mudrak O, Frolova S, Pocheshkhova E, Haber M, Platt D, Schurr T, Haak W, Kuznetsova M, Radzhabov M, Balaganskaya, Romanov A, Zakharova T, Hernanz DF,  Zalloua P, Koshei S, Ruhlen M, Renfrew C, Wells RS, Tyler-Smith C, Balanovska E, The Genographic Consortium. Parallel evolution of genes and languages in the Caucasus region. Molecular Biology Evolution 28:2905-2920 (2011).
  • Haber M, Platt DE, Badro DA, Xue Y, El-Sibai M, Bonab MA, Youhanna SC, Saade S, Soria-Hernanz DF, Royyuru A, Wells RS, Tyler-Smith C, Zalloua PA, The Genographic Consortium. Influences of history, geography, and religion on genetic structure: The Maronites in Lebanon. European J Human Genetics 19: 334-340 (2011).
  • Hale JM, Heard GW, Smith KL, Blacket MJ, Austin JJ, Melville J. Microsatellite loci for the endangered growling grass frog (litoria raniformis), with cross amplification in other Australian frog species. Conservation Genetics Resources (2011).
  • Ho SYW, Lanfear R, Bromham L, Phillips MJ, Soubrier J, Rodrigo AG, Cooper A. Time dependent rates of molecular evolution. Molecular Ecology 20:3087-3101 (2011).
  • Lippold S, Knapp M, Kuznetsova T, Leonard JA, Benecke N, Ludwig A, Rasmussen M, Cooper A, Weinstock J, Willerslev E, Shapiro B and Hofreiter M. Discovery of lost diversity of paternal horse lineages using ancient DNA, Nature Communications 2:450 (2011).
  • Lorenzen ED, Nogues-Bravo D, Orlando L, Weinstock J, Binladen J, Marske KA, Ugan A, Borregaard MK, Gilbert MTP, Nielsen R, Ho SYW, Goebel T, Graf KE, Byers D, Stenderup JT, Rasmussen M, Campos PF, Leonard JA, Koepfli K-P, Froese D, Zazula G, Stafford TW, Aaris-Sorensen K, Batra P, Haywood AM, Singarayer JS, Valdes PJ, Boeskorov G, Burns JA, Davydov SP, Haile J, Jenkins DL, Kosintsev P, Kuznetsova T, Lai X, Martin LD, McDonald HG, Mol D, Meldgaard M, Munch K, Stephan E, Sablin M, Sommer RS, Sipko T, Scott E, Suchard MA, Tikhonov A, Willerslev R, Wayne RK, Cooper A, Hofreiter M, Sher A, Shapiro B, Rahbek C, Willerslev E. Species-specific responses of Late Quaternary megafauna to climate and humans. Nature 479:359-364 (2011).
  • Paplinska JZ, Taggart DA, Corrigan T, Eldridge MDB, Austin JJ. Using DNA from museum specimens to preserve the integrity of Evolutionary Significant Unit boundaries in threatened species. Biological Conservation (2011)144: 290-297.
  • Wood JR, Wilmshurst JM, Worthy TH, Cooper A. Sporormiella as a proxy for non-mammalian herbivores in island ecosystems. Quaternary Science Reviews. 30:915-920 (2011).
  • Yuan Y, Shen TJ, Gupta P, Ho N, Simplaceanu V, Tam T-C, Hofreiter M, Cooper A, Campbell K, Ho, C. A Biochemical-Biophysical Study of Hemoglobins from Woolly Mammoth, Asian Elephant, and Humans. Biochemistry 50:7350-7360 (2011).

2010

  • Adler, C.J., Donlon, D., Sexual dimorphism in deciduous crown traits of a European derived Australian sample. Forensic Science International (2010) 199, 29-37.
  • Brotherton P, Sanchez JJ, Cooper A, Endicott P. Preferential access to genetic information from endogenous ancient DNA and quantitative SNP-typing from ancient hominin samples via SPEX. Nucleic Acids Research. 38:e7. doi:10.1093/nar/gkp897 (2010)
  • Braley M, Goldsworthy SD, Page B, Steer M, Austin JJ. Assessing morphological and DNA-based diet analysis techniques in a generalist predator, the arrow squid Nototodarus gouldi. Molecular Ecology Resources 10: 466-474 (2010)
  • Campbell KL, Roberts JEE, Watson LN, Stetefeld J, Sloan AM, Signore AV, Howatt JW, Tame JRH, Rohland N, Shen T-J, Austin JJ, Hofreiter M, Ho C, Weber RE, Cooper A. Substitutions in woolly mammoth hemoglobin confer biochemical properties adaptive for cold tolerance. Nature Genetics 42:536-540 (2010)
  • Haak W, Brandt G, Meyer C, De Jong HN, Ganslmeier R, Pike AWG, Meller H, Alt KW Die schnurkeramischen Familiengräber von Eulau – ein außergewöhnlicher Fund und seine interdisziplinäre Bewertung. Tagungen des Landesmuseums für Vorgeschichte Halle, Band 04, pp. 80-89. (2010)
  • Macqueen P, Seddon JM, Austin JJ, Hamilton S, Goldizen AQ Phylogenetics of the pademelons (Macropodidae: Thylogale) and historical biogeography of the Australo-Papuan region. Molecular Phylogenetics and Evolution 57(3):1134-1148 (2010)
  • Melé M, Javed A, Pybus M, Calafell F, Parida L, Bertranpetit J, The Genographic Consortium. A New Method to Reconstruct Recombination Events at a Genomic Scale. PLoS Computational Biology 6(11): e1001010. doi:10.1371/journal.pcbi.100101 0 (2010)
  • Worthy, T.H., S.J. Hand, J.M.T. Nguyen, A.J.D. Tennyson, J.P. Worthy, R.P. Scofield W.E. Boles & M. Archer, 2010. Biogeographical and phylogenetic implications of an Early Miocene wren (Aves: Passeriformes: Acanthisittidae) from New Zealand. Journal of Vertebrate Paleontology 30: 479-498; DOI: 10.1080/02724631003618033.
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2009
  • Austin JJ, Arnold EN, Jones CG (2009) Interrelationships and history of the slit-eared skinks (Gongylomorphus, Scincidae) of the Mascarene islands, based on mitochondrial and nuclear gene sequences. Zootaxa (2153):55-68 
  • Boessenkool, S., Austin, J. J., Worthy, T. H., Scofield, P., Cooper, A., Seddon, P. J. & Waters, J. M. (2009). Relict or colonizer? Extinction and range expansion of penguins in southern New Zealand. Proceedings of the Royal Society B doi:10.1098/rsbp.2008.1246
  • Barnett R, Shapiro B, Barnes I, Ho SYW, Burger J, Yamaguchi N, Higham T, Wheeler HT, Rosendahl W, Sher AV, Sotnikova MV, Kuznetsova T, Baryshnikov GF, Martin LD, Harington CR, Burns J, Cooper A. Phylogeography of lions (Panthera leo) reveals three distinct taxa and a late Pleistocene reduction in genetic diversity. Molecular Ecology 18:1668-1677 (2009)
  • Bunce M, Worthy TH, Phillips MJ, Holdaway RN, Willerslev E, Haile J, Shapiro B, Scofield P, Drummond A, Kamp P, Cooper A. The evolutionary history of the extinct ratite moa and New Zealand Neogene paleogeography. Proc. Natl. Acad. Sci. USA 106(49):20646-20651 (2009)
  • Decker JE, Pires JC, Conant GC, McKay SD, Heaton MP, Chen KC, Cooper A, Vilkki J, Seabury CM, Caetano AR, Johnson GS, Brenneman RA, Hanotte O, Eggert LS, Wiener P, Kim J-J, Kim KS, Sonstegard TS, Van Tassell CP, Neibergs HL, McEwan JC, Brauning R, Coutinho LL, Babar ME, Wilson GA, McClure MC, Rolf MM, Kim JW, Schnabel RD, Taylor JF. Resolving the evolution of extant and extinct ruminants with high-throughput phylogenomics. Proc. Natl. Acad. Sci. USA doi:10.1073/pnas.0904691106
  • Denham T, Atchison J, Austin J, Bestel S, Bowdery D, Crowther A, Dolby N, Fairbairn A, Field J, Kennedy A, Lentfer A, Matheson C, Nugent S, Parr J, Prebble M, Robertson G, Specht J, Torrence R, Barton H, Fullagar R, Haberle S, Horrocks M, Lewis T, Matthews P (2009) Archaeobotany in Australia and New Guinea: Practice, potential and prospects. Australian Archaeology 68: 1-10.
  • Endicott P, Sanchez JJ, Pichler I, Brotherton P, Brooks J, Egarter-Vigl E, Cooper A, Pramstaller P. Genotyping human ancient mtDNA control and coding region polymorphisms with a multiplexed Single-Base-Extension assay: the singular maternal history of the Tyrolean Iceman. BMC Genetics 10:29 doi:10.1186/1471-2156-10-29 (2009)
  • Haile J, Froese D, MacPhee RDE, Roberts RG, Arnold LJ, Rasmussen M, Nielsen R, Brook BW, Robinson S, Demuro M, Gilbert MTP, Munch K, Reyes AV, Austin JJ, Cooper A, Barnes I, Möller P Willerslev E. Ancient DNA reveals late survival of mammoth and horse in interior Alaska, Proc. Natl. Acad. Sci. USA 106(52):22352-22357 (2009)
  • Orlando L, Metcalf J, Alberdi MT, Telles-Antunes M, Bonjean D, Otte M, Martin F, Eisenmann V, Mashkour M, Morello F, Prado JL, Salas-Gismondi R, Shockey BJ, Wrinn PJ, Vasil’ev SK, Ovodov ND, Cherry MI, Hopwood B, Male D, Austin JJ, Hänni C, Cooper A. Revising the recent evolutionary history of equids using ancient DNA. Proc. Natl. Acad. Sci. USA 106(51):21754-21759 (2009)
  • Rawlence NJ, Wood JR, Armstrong KA, Cooper A 2009 DNA content and distribution in ancient feathers and potential to reconstruct the plumage of extinct avian taxa.Proceedings of the Royal Society of London Series B, 276, 3395-3402.
  • Slater GJ, Thalmann O, Leonard JA, Schweizer RM, Koepfli K, Pollinger JP, Rawlence NJ, Austin JJ, Cooper A, Wayne RK.  Evolutionary history of the Falkland Island Wolf. Current Biology 19(20):R937-R938 (2009)
  • Sands, CJ, Lancaster ML, Austin JJ, Sunnucks P (2009) Single copy nuclear DNA markers for the onychophoran Phallocephale tallagandensis Conservation Genetics Resources DOI 10.1007/s12686-009-9004-0
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2008

  • Stewart, JR, Cooper, A. Ice Age refugia and Quaternary extinctions: An issue of Quaternary evolutionary palaeoecology. Quat Sci Reviews. doi:10.1016/j.quascirev.2008.10.005
  • Gongora, J., Rawlence, NJ., Mobegi, VA., Jianlin, H., Alcalde, JA., Matus, JT., Hanotte, O., Moran, C., Larson, G., Austin, JJ., Ulm, S., Cooper, A. Reply to Storey et al.: More DNA and dating studies needed for ancient El-Arenal-1 chickens. PNAS  105(48): e100 (2008)
  • Wood, JR., Rawlence, NJ., Rogers, GM., Austin, JJ., Worthy, TH., Cooper, A. Coprolite deposits reveal the diet and ecology of the extinct New Zealand megaherbivore moa (Aves, Dinornithiformes). Quat. Sci. Rev. doi:10.1016/j.quascirev.2008.09.019
  • Gongora, J., Rawlence, N.J., Mobegi, V.A., Jianlin, H., Alcalde, J.A., Matus, J.T., Hanotte, O., Moran, C., Larson, G., Austin, J., Ulm, S., Cooper, A., Indo-European and Asian origins for modern Chilean and Pacific archaeological chickens revealed by mtDNA. Proceedings of the National Academy of Science USA doi 105:10308-10313
  • Zalloua, PA., Platt, DE., El Sibai, M., Khalife, J., Makhoul, N., Haber, M., Xue, Y., Izaabel, H., Bosch, E., Adams, SM., Arroyo, E., López-Parra, AM., Aler, M., Picornell, A., Ramon, M., Jobling, MA., Comas, D., Bertranpetit, J., Wells, RS., Tyler-Smith, C. The Genographic Consortium. Identifying Genetic Traces of Historical Expansions: Phoenician Footprints in the Mediterranean. American Journal Human Genetics. PMID: 18976729 (2008).
  • Behar, DM., Blue-Smith, J., Soria-Hernanz, DF., Tzur, S., Hadid, Y., Bormans, C., Moen, A., Tyler-Smith, C., Quintana-Murci, L., Wells RS. The Genographic Consortium. A novel 154-bp deletion in the human mitochondrial DNA control region in healthy individuals. Human Mutation PMID: 18629826 (2008)
  • Behar, DM., Villems, R., Soodyall, H., Blue-Smith, J., Pereira, L., Metspalu, E., Scozzari, R., Makkan, H., Tzur, S., Comas, D., Bertranpetit, J., Quintana-Murci, L., Tyler-Smith, C., Wells, RS., Rosset, S. The Genographic Consortium. The dawn of human matrilineal diversity. American Journal Human Genetics. 82:1130-40. (2008)
  • Zalloua, PA., Xue, Y., Khalife, J., Makhoul, N., Debiane, L., Platt, DE., Royyuru, AK., Herrera, RJ., Hernanz, DF., Blue-Smith, J., Wells, RS., Comas, D., Bertranpetit, J., Tyler-Smith, C. The Genographic Consortium. Y-chromosomal diversity in Lebanon is structured by recent historical events. American Journal Human Genetics. 82:873-82 (2008)
  • Gan, RJ., Pan, SL., Mustavich, LF., Qin, ZD., Cai, XY., Qian, J., Liu, CW., Peng, JH., Li, SL., Xu, JS., Jin, L., Li, H. The Genographic Consortium. Pinghua population as an exception of Han Chinese's coherent genetic structure. American Journal Human Genetics. 53:303-13 (2008)
  • Parida, L., Melé, M., Calafell, F., Bertranpetit, J. The Genographic Consortium. Estimating the ancestral recombinations graph (ARG) as compatible networks of SNP patterns. Journal Computer Biology 15:1133-54. PMID: 18844583 (2008)

  • Shoo, L.P., Rose, R., Doughty, P., Austin, J.J., Melville, J.,  Diversification patterns of pebble-mimic dragons are consistent with historical disruption of important habitat corridors in arid Australia. Molecular Phylogenetics and Evolution 48:528-542 (2008)

  • Worthy, T. H; Lee, M. S. Y. 2008. Affinities of Miocene (19-16 Ma) waterfowl (Anatidae: Manuherikia, Dunstanetta and Miotadorna) from the St Bathans Fauna, New Zealand. Palaeontology 51(3): 677-708. doi: 10.1111/j.1475-4983.2008.00778.x.
  • Wood, J.R., Worthy, T.H., Rawlence, N.J., Jones, S.M., Holdaway, R.N., Read, S.E. 2008. A deposition mechanism for Holocene miring bone deposits, South Island, New Zealand. Journal of Taphonomy 6: 1-20.
  • Wilmshurst, J. M.; Anderson, A. J.; Higham, T. F. G.; Worthy, T. H. 2008. Dating the late prehistoric dispersal of Polynesians to New Zealand using the commensal Pacific rat. Proceeding of the National Academy of Sciences 105(22): 7676-7680.
  • Holdaway, R.N.; Worthy, T.H., 2008. The Late Quaternary avifauna. Pp, 445-492, in Winterbourn, M. J., Knox, G. A., Burrows C. J. & Marsden, I. D. (eds), The natural history of Canterbury, 3rd edition. Canterbury University Press, Christchurch, 926 pp. (Book Chapter)
  • Worthy, T. H.; Tennyson, A. J. D.; Hand, S. J.; Scofield R. P. 2008. A new species of the diving duck Manuherikia and evidence for geese (Aves: Anatidae: Anserinae) in the St Bathans Fauna (Early Miocene), New Zealand. Journal of the Royal Society of New Zealand 38(2): 97-114.
  • Worthy, T. H.; Wragg, G. M. 2008. A new genus and species of pigeon (Aves: Columbidae) from Henderson Island, Pitcairn Group. Pp 499-510, in: Clark, G., Leach, F., O’Connor, S. (eds), Terra Australis 2. Islands of Inquiry: Colonisation, seafaring and the archaeology of maritime landscapes. ANU E Press, The Australian National University, Canberra. 510 pp.
  • Worthy, T. H. 2008. Pliocene waterfowl (Aves: Anseriformes) from South Australia and a new genus and species. Emu 108: 153-165.
  • Wood, J.R., Rawlence, N.J., Rogers, G, Austin, J, Cooper, A., Worthy, T.H., 2008. Coprolite deposits reveal the diet and ecology of the extinct New Zealand megaherbivore moas (Aves, Dinornithiformes). Quaternary Science Reviews 27: 2593-2602.
  • Worthy, T. H.; Olson, S. L.; Smith T. 2008. A reassessment of the fossil goose Anser scaldii Lambrecht, 1933 (Aves: Anatidae). Bulletin of the British Ornithologist’s Club 128(4): 228-232.
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2007

  • Larson, G., Albarella, U., Rowley-Conwy, P., Schibler, J., Tresset, A., Vigne, J-D., Edwards, C.J., Schlumbaum, A., Dinu, A., Balacsescu, A., Dolman, G., Tagliacozzo, A., Manaseryan, N., Miracle, P., Van Wijngaarden-Bakker, L., Masseti, M., Bradley, D.G. & Cooper, A., Ancient DNA, pig domestication, and the spread of the neolithic into Europe. Proceedings National Academy of Sciences 13(48) (2007)
  • Brotherton, P., Endicott, P., Sanchez, J.J., Beaumont, M., Barnett, R., Austin, J., Cooper., A., Novel high-resolution characterization of ancient DNA reveals C>U-type base modification events as the sole cause of post mortem miscoding lesions, Nucleic Acids Research.doi 10.1093/nar/gkm588 (2007)
  • Kowalchuk GA, Austin JJ, Gooding PS & Stephen JR (2007) Valid Recovery of Nucleic Acid Sequence Information from High Contamination Risk Samples – Ancient DNA and Environmental DNA. In: Perspectives in Bioanalysis, Volume 2 - New High Throughput Technologies for DNA Sequencing and Genomics (ed. K. Mitchelson), Macmillan
  • Larson, G., Cucci, T., Fujita, M., Matisoo-Smith, E., Robins, J., Anderson, A., Rolett, B., Spriggs, M., Dolman, G., Kim, TH., Thuy, N. T.D., Randi, E., Doherty, M., Due, R. A., Bollt, R., Djubiantono, T., Griffin, B., Intoch, M., Keane, E., Kirch, P., Li, K.T., Morwood, M., Pedrina, L.M., Piper, PJ., Rabett, R.J., Shooter, P., Van den Bergh, G., West, E., Wickler, S., Yuan, J., Cooper, A., and Dobney, K. Phylogeny and ancient DNA of Sus provides insights into neolithic expansion in Island Southeast Asia and Oceania. Proceedings National Academy of Sciences 104(12) 4834-9 (2007)
  • Ho SYW, Shapiro S, Phillips MJ, Cooper A, Drummond AJ. Evidence for time dependency of molecular rate estimates Systematic Biology 56:515-522 (2007).
  • Behar, D.M., Rosset, S., Blue-Smith, J., Balanovsky, O., Tzur, S., Comas, D., Mithcell., Quintana-Murci, L, Tyler-Smith, C., Wells, R.S., The Genographic Consortium. The Genographic Project Public Participation Mitochondrial DNA Database, PloS Genetics 3(6) (2007).
  • Melville J, Goebel S, Starr C, Keogh JS & Austin JJ (2007) Conservation genetics and species status of an endangered Australian dragon, Tympanocryptis pinguicolla (Reptilia: Agamidae). Conservation Genetics 8:185-198)
  • Doughty P, Maryan B, Austin JJ & Melville J (2007) Independent evolution of salt lake specialization in the genus Ctenophorus (Lacertilia: Agamidae), with a description of a new species from Lake Disappointment, Western Australia. Herpetology 63:72-86
  •  Nicholls, J.A., Austin, JJ., Pavlacky, DC., Green, DJ.  Characterization of polymorphic microsatellites in the logrunner, Orthonyx temminckii (Aves: Orthonychidae) Molecular Ecology Notes 7 (6):1117-1119 (2007)
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2006

  • Endicott P, Metspalu M, Stringer C, Macaulay V, Cooper A, Sanchez J. Multiplexed SNP typing of ancient DNA clarifies the origin of Andaman mtDNA haplogroups amongst South Asian tribal populations. PLoS One 1, e81 (2006).
  • Cooper A, Year of the mammoth. PLoS Biology 4, e78 (2006).
  • Barnett R, Yamaguchi N, Barnes I, Cooper A. Lost populations and preserving genetic diversity in the lion Panthera leo; Implications for its ex situ conservation. Conservation Genetics 7, 507-514 (2006).
  • Nicholls JA, Austin JJ, Moritz C & Goldizen AW (2006) Genetic population structure and call variation in a passerine bird, the satin bowerbird, Ptilonorhynchus violaceus. Evolution 60: 1279-1290.
  • Austin, JJ & Arnold, EN (2006) Using ancient and recent DNA to explore relationships of extinct and endangered Leiolopisma skinks (Reptilia: Scincidae) in the Mascarene islands. Molecular Phylogenetics and Evolution 39: 503-511.
  • Austin, JJ & Melville, J (2006) Incorporating historical museum specimens into molecular systematic and conservation genetics research. Molecular Ecology Notes 6: 1089-1092.
  • Austin, JJ, Rose, RJ & Melville, J (2006) Polymorphic microsatellite markers in the painted dragon lizard, Ctenophorus pictus. Molecular Ecology Notes 6:194-196
  • Wragg, G. M., Worthy, T. H. (2006). A new species of extinct imperial pigeon (Ducula: Columbidae) from Henderson Island, Pitcairn Group. Historical Biology 18(2): 127-140.

  • Holdaway, R. N., Worthy, T. H., (2006). Evolution of New Zealand and its vertebrates. Chapter 6 In Merrick, J. Archer, M., Hickey, G. M., and Lee, M. S. Y. (eds). Evolution and Biogeography of Australasian Vertebrates, Auscipub Pty Ltd: Sydney, Pp 111-128.

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2005

  • Willerslev E, Cooper A. Ancient DNA. Review Paper. Proc Roy Soc Lon B. 272:3-16 (2005).
  • Nicholls, JA & Austin, JJ (2005) Phylogeography of an east Australian wet forest bird, the satin bowerbird (Ptilonorhynchus violaceus), derived from mtDNA and morphology. Molecular Ecology 14, 1485-1496.
  • Rheindt, FE & Austin, JJ (2005) Major analytical and conceptual short-comings in a recent taxonomic revision of the Procellariiformes - a reply to Penhallurick and Wink (2004). Emu 105, 181-186.
  • Beadell, JS, Gering, E, Austin, JJ, Dumbacher, JP, Pierce, MA, Pratt, TK, Atkinson, CT & Fleischer, RC (2005) Host-specificity and prevalence of avian malaria parasites in the Austral-Papuan region. Molecular Ecology 13, 3829-3844.
  • Bardeleben, C, Semple-Delaney, K, Austin, JJ & Moore, RL (2005) Isolation of polymorphic tetra-nucleotide microsatellite markers for the grey-headed robin Poecilodryas albispecularis. Molecular Ecology Notes 5, 146-148.
  • Bardeleben, C, Gray, MM, Austin, JJ & Amorim do Rosario, I (2005) Isolation of polymorphic tetra-nucleotide microsatellite markers for the large-billed scrubwren Sericornis magnirostris. Molecular Ecology Notes 5, 143-145.
  • Bardeleben, C, Moore, RL, Austin, JJ & Robson, T (2005) Isolation of polymorphic tetra-nucleotide microsatellite markers for the Satin Bowerbird Ptilonorhynchus violaceus. Molecular Ecology Notes 5, 305-307.
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2004

  • Shapiro B, Drummond AJ, Rambaut A, Wilson MC, Matheus PE, AV Sher, Pybus OG, Gilbert MTP, Barnes I, Binladen J, Willerslev E, Hansen AJ, Baryshnikov GF, Burns JA, Davydov S, Driver JC,Froese DG, Harington CR, Keddie G, Kosintsev P, Kunz ML, Martin LD, Stephenson RO, Storer J, Tedford R, Zimov S, and Cooper A. Rise and fall of the Beringian steppe bison. Science 306:1561-1565 (2004).
  • Gilbert MTP, Wilson AS, Bunce M, Hansen AJ, Willerslev E, Shapiro B, Higham TFG, Richards MP, O'Connell TC, Tobin DJ, Janaway RC, and Cooper A. Ancient mitochondrial DNA from hair. Current Biology 14:R463-R464 (2004).
  • Austin, JJ, Bretagnole, V & Pasquet, E (2004) A global molecular phylogeny of the small Puffinus shearwaters and implications for the systematics of the Little/Audubon's shearwater complex. Auk 121, 847-864.
  • Austin, JJ, Arnold, EN & Jones, CG (2004) Reconstructing an island radiation using ancient and recent DNA: the extinct and living geckos (Phelsuma) of the Mascarene islands. Molecular Phylogenetics and Evolution 31, 109-122.
  • Cook, CE, Austin, JJ, and Disney, RHL (2004) A mitochondrial 12S and 16S rRNA phylogeny of critical genera of the Phoridae (Diptera) and related families of Aschiza,. Zootaxa 593, 1-11.
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