Professor Alan Cooper

Alan Cooper
Director - Australian Centre for Ancient DNA
School of Biological Sciences
Faculty of Sciences

Ancient DNA researcher specialising in: human evolution, climate change, megafaunal extinctions, evolution of the human microbiome, molecular clocks, genomics, extinct species, mammal and avian evolution, bioinformatics

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Professor Alan Cooper

Ancient DNA researcher specialising in: human evolution, climate change, megafaunal extinctions, evolution of the human microbiome, molecular clocks, genomics, extinct species, mammal and avian evolution, bioinformatics

Prof. Alan Cooper has played a central role in the development of the field of ancient DNA, starting with his PhD research in Allan Wilson’s UC Berkeley laboratory with Svante Paabo in 1989. He created the Henry Wellcome Ancient Biomolecules Centre at the University of Oxford, and was Professor of Ancient Biomolecules from 2001-2005. He then established the Australian Centre for Ancient DNA (ACAD) at the University of Adelaide as an Australian Research Council Federation Fellow (2005-2010), and has since been an ARC Future Fellow (2011-2014) and is now an ARC Laureate Fellow (2015-2019). In 2016 he was named the South Australian Scientist of the Year.

He currently leads the Aboriginal Heritage Project in collaboration with the South Australian Museum and Aboriginal Families and Communities around Australia, which aims to create the first map of Aboriginal Australia, allowing people of Aboriginal descent to trace their heritage back beyond recent records. 

Prof. Cooper’s research interests include the use of ancient genetic data and analytical approaches to study key evolutionary processes – including genomic responses to past climate and environmental changes, extinction events, human evolution and migration, molecular evolution, microbiomes and disease – across a broad range of time and space. His multi-disciplinary focus integrates data from genomics, bioinformatics, zoology, archaeology, microbiology, forensics, palaeontology, physical dating methods, and climate records and he has led many large international multi-author studies which have resulted in major advances and high profile publications (27 in Science and Nature). He has published over 230 peer reviewed papers which have been cited over 17,000 times. His h-index is 55 (Web of Science) or 69 (Google Scholar).



Date Position Institution name
2016 South Australian Scientist of the Year, 2016 University of Adelaide
2015 - 2019 ARC Laureate Fellow University of Adelaide
2010 - 2014 ARC Future Fellow University of Adelaide
2005 Director, Australian Centre for Ancient DNA University of Adelaide
2005 - 2010 ARC Federation Fellow University of Adelaide
2005 Professor University of Adelaide
2002 - 2005 Professor of Ancient Biomolecules Oxford University
2001 - 2005 Director, Henry Wellcome Ancient Biomolecules Centre Oxford University

Awards and Achievements

Date Type Title Institution Name Amount
2017 - 2024 ARC Centre of Excellence for Australian Biodiversity and Heritage University of Adelaide
2016 - 2017 South Australian Scientist of the Year, 2016
2016 Verco Medal Royal Society of South Australia
2015 - 2019 ARC Laureate Fellowship University of Adelaide


Date Institution name Country Title
1989 - 1993 Victoria University of Wellington New Zealand PhD

Research Interests

Aboriginal and Torres Strait Islander Archaeology, Aboriginal and Torres Strait Islander History, Agricultural and Veterinary Sciences, Anthropological Genetics, Archaeological Science, Bacteriology, Climate Change Processes, Evolutionary Biology, Evolutionary Impacts of Climate Change, Forensic Biology, Genetics & Heredity, Genomics, History and Archaeology, Human Geography


Year Citation
2017 Shaw, J., Weyrich, L. & Cooper, A. (2017). Using environmental (e)DNA sequencing for aquatic biodiversity surveys: A beginner's guide. Marine and Freshwater Research, 68, 1, 20-33. 10.1071/MF15361
2017 Fogwill, C., Turney, C., Golledge, N., Etheridge, D., Rubino, M., Thornton, D. ... Cooper, A. (2017). Antarctic ice sheet discharge driven by atmosphere-ocean feedbacks at the Last Glacial Termination. Scientific Reports, 7, 39979-1-39979-10. 10.1038/srep39979
2017 Weyrich, L., Duchene, S., Soubrier, J., Arriola, L., Llamas, B., Breen, J. ... Soltysiak, A. (2017). Neanderthal behaviour, diet, and disease inferred from ancient DNA in dental calculus. Nature, 544, 7650, 357-361. 10.1038/nature21674
2017 Frisia, S., Weyrich, L., Hellstrom, J., Borsato, A., Golledge, N., Anesio, A. ... Cooper, A. (2017). The influence of Antarctic subglacial volcanism on the global iron cycle during the Last Glacial Maximum. Nature Communications, 8, -. 10.1038/ncomms15425
2017 Rabanus-Wallace, M., Wooller, M., Zazula, G., Shute, E., Jahren, A., Kosintsev, P. ... Cooper, A. (2017). Megafaunal isotopes reveal role of increased moisture on rangeland during late Pleistocene extinctions. Nature Ecology & Evolution, 1, 5, 0125-1-0125-5. 10.1038/s41559-017-0125
2017 Nagle, N., Van Oven, M., Wilcox, S., Van Holst Pellekaan, S., Tyler-Smith, C., Xue, Y. ... Dulik, M. (2017). Aboriginal Australian mitochondrial genome variation - An increased understanding of population antiquity and diversity. Scientific Reports, 7, 1-12. 10.1038/srep43041
2017 Czechowski, P., Clarke, L., Cooper, A. & Stevens, M. (2017). A primer to metabarcoding surveys of Antarctic terrestrial biodiversity. Antarctic Science, 29, 1, 3-15. 10.1017/S0954102016000389
2017 Perry, T., van Loenen, A., Heiniger, H., Lee, C., Gongora, J., Cooper, A. & Mitchell, K. (2017). Ancient DNA analysis of the extinct North American flat-headed peccary (Platygonus compressus). Molecular Phylogenetics and Evolution, 112, 258-267. 10.1016/j.ympev.2017.03.024
2017 Tobler, R., Rohrlach, A., Soubrier, J., Bover, P., Llamas, B., Tuke, J. ... Cooper, A. (2017). Aboriginal mitogenomes reveal 50,000 years of regionalism in Australia. Nature, 544, 7649, 180-184. 10.1038/nature21416
2017 Scofield, R., Mitchell, K., Wood, J., De Pietri, V., Jarvie, S., Llamas, B. & Cooper, A. (2017). The origin and phylogenetic relationships of the New Zealand ravens. Molecular Phylogenetics and Evolution, 106, 136-143. 10.1016/j.ympev.2016.09.022
2016 Wood, J., Mitchell, K., Scofield, R., De Pietri, V., Rawlence, N. & Cooper, A. (2016). Phylogenetic relationships and terrestrial adaptations of the extinct laughing owl, Sceloglaux albifacies (Aves: Strigidae). Zoological Journal of the Linnean Society, 179, 4, 907-918. 10.1111/zoj.12483
2016 Bover, P., Valenzuela, A., Torres, E., Cooper, A., Pons, J. & Alcover, J. (2016). Closing the gap: New data on the last documented Myotragus and the first human evidence on Mallorca (Balearic Islands, Western Mediterranean Sea). Holocene, 26, 11, 1887-1891. 10.1177/0959683616645945
2016 Llamas, B., Fehren-Schmitz, L., Valverde, G., Soubrier, J., Mallick, S., Rohland, N. ... Santoro, C. (2016). Ancient mitochondrial DNA provides high-resolution time scale of the peopling of the Americas.. Science advances, 2, 4, e1501385-1-e1501385-10. 10.1126/sciadv.1501385
2016 Mitchell, K., Bray, S., Bover, P., Soibelzon, L., Schubert, B., Prevosti, F. ... Cooper, A. (2016). Ancient mitochondrial DNA reveals convergent evolution of giant short-faced bears (Tremarctinae) in North and South America. Biology letters, 12, 4, 20160062-1-20160062-4. 10.1098/rsbl.2016.0062
2016 Eisenhofer Philipona, R., Cooper, A. & Weyrich, L. (2016). Isolating viable ancient bacteria: what you put in is what you get out. Genome Announcements, 4, 4, e00712-16-e00712-16. 10.1128/genomeA.00712-16
2016 Mitchell, K., Scanferla, A., Soibelzon, E., Bonini, R., Ochoa, J. & Cooper, A. (2016). Ancient DNA from the extinct South American giant glyptodont Doedicurus sp. (Xenarthra: Glyptodontidae) reveals that glyptodonts evolved from Eocene armadillos. Molecular Ecology, 25, 14, 3499-3508. 10.1111/mec.13695
2016 Shaw, J., Clarke, L., Wedderburn, S., Barnes, T., Weyrich, L. & Cooper, A. (2016). Comparison of environmental DNA metabarcoding and conventional fish survey methods in a river system. Biological Conservation, 197, 131-138. 10.1016/j.biocon.2016.03.010
2016 Cruz-Dávalos, D., Llamas, B., Gaunitz, C., Fages, A., Gamba, C., Soubrier, J. ... Orlando, L. (2016). Experimental conditions improving in-solution target enrichment for ancient DNA. Molecular Ecology Resources, Online, 3, 1-15. 10.1111/1755-0998.12595
2016 Soubrier, J., Gower, G., Chen, K., Richards, S., Llamas, B., Mitchell, K. ... Guerreschi, A. (2016). Early cave art and ancient DNA record the origin of European bison. Nature Communications, 7, 13158-1-13158-7. 10.1038/ncomms13158
2016 Mitchell, K., Wood, J., Llamas, B., McLenachan, P., Kardailsky, O., Scofield, R. ... Cooper, A. (2016). Ancient mitochondrial genomes clarify the evolutionary history of New Zealand's enigmatic acanthisittid wrens. Molecular Phylogenetics and Evolution, 102, 295-304. 10.1016/j.ympev.2016.05.038
2016 Czechowski, P., White, D., Clarke, L., McKay, A., Cooper, A. & Stevens, M. (2016). Age-related environmental gradients influence invertebrate distribution in the prince Charles mountains, east Antarctica. Royal Society Open Science, 3, 12, 160296-160296. 10.1098/rsos.160296
2016 Rodríguez-Rey, M., Herrando-Pérez, S., Brook, B., Saltré, F., Alroy, J., Beeton, N. ... Bradshaw, C. (2016). A comprehensive database of quality-rated fossil ages for Sahul’s Quaternary vertebrates. Scientific Data, 3, 160053-1-160053-7. 10.1038/sdata.2016.53
2016 Huang, Y., Lowe, D., Zhang, H., Cursons, R., Young, J., Churchman, G. ... Cooper, A. (2016). A new method to extract and purify DNA from allophanic soils and paleosols, and potential for paleoenvironmental reconstruction and other applications. Geoderma, 274, 114-125. 10.1016/j.geoderma.2016.04.003
2016 Sandoval, J., Lacerda, D., Acosta, O., Jota, M., Robles-Ruiz, P., Salazar-Granara, A. ... Valampuri, K. (2016). The Genetic History of Peruvian Quechua-Lamistas and Chankas: Uniparental DNA Patterns among Autochthonous Amazonian and Andean Populations. Annals of Human Genetics, 80, 2, 88-101. 10.1111/ahg.12145
2016 Abdul-Aziz, M., Cooper, A. & Weyrich, L. (2016). Exploring relationships between host genome and microbiome: new insights from genome-wide association studies. Bosch,Thomas C. (Ed.). Frontiers in Microbiology, 7, OCT, 1611-1-1611-9. 10.3389/fmicb.2016.01611
2016 Johnson, C., Alroy, J., Beeton, N., Bird, M., Brook, B., Cooper, A. ... Bradshaw, C. (2016). What caused extinction of the Pleistocene megafauna of Sahul?. Proceedings of the Royal Society B, 283, 1824, 20152399-1-20152399-8. 10.1098/rspb.2015.2399
2016 Valverde, G., Romero, M., Espinoza, I., Cooper, A., Fehren-Schmitz, L., Llamas, B. & Haak, W. (2016). Ancient DNA analysis suggests negligible impact of the Wari Empire expansion in Peru's Central Coast during the Middle Horizon. A. Achilli (Ed.). PLoS ONE, 11, 6, e0155508-1-e0155508-18. 10.1371/journal.pone.0155508
2016 Young, J., Weyrich, L. & Cooper, A. (2016). High-throughput sequencing of trace quantities of soil provides reproducible and discriminative fungal DNA profiles. Journal of Forensic Sciences, 61, 2, 478-484. 10.1111/1556-4029.12996
2016 Cooper, A., Turney, C. & Hughen, K. (2016). Response to Comment on "Abrupt warming events drove Late Pleistocene Holarctic megafaunal turnover. Science, 351, 6276, 927c-. 10.1126/science.aad8016
2016 Huang, Y. -. T., Lowe, D. J., Churchman, G. J., Schipper, L. A., Cursons, R., Zhang, H. ... Cooper, A. (2016). DNA adsorption by nanocrystalline allophane spherules and nanoaggregates, and implications for carbon sequestration in Andisols. Applied Clay Science, 120, 40-50. 10.1016/j.clay.2015.11.009
2016 Czechowski, P., Clarke, L. J., Breen, J., Cooper, A. & Stevens, M. I. (2016). Antarctic eukaryotic soil diversity of the Prince Charles Mountains revealed by high-throughput sequencing. Soil Biology and Biochemistry, 95, 112-121. 10.1016/j.soilbio.2015.12.013
2016 Saltre, F., Rodriguez-Rey, M., Brook, B., Johnson, C., Turney, C., Alroy, J. ... Bradshaw, C. (2016). Climate change not to blame for late Quaternary megafauna extinctions in Australia. Nature Communications, 7, 10511-1-10511-7. 10.1038/ncomms10511
2016 Metcalf, J., Turney, C., Barnett, R., Martin, F., Bray, S., Vilstrup, J. ... Cooper, A. (2016). Synergistic roles of climate warming and human occupation in Patagonian megafaunal extinctions during the Last Deglaciation. Science advances, 2, 6, 1-8. 10.1126/sciadv.1501682
2016 Schiffels, S., Haak, W., Paajanen, P., Llamas, B., Popescu, E., Loe, L. ... Durbin, R. (2016). Iron Age and Anglo-Saxon genomes from East England reveal British migration history. Nature Communications, 7, 10408-1-10408-9. 10.1038/ncomms10408
2015 Shaw, J., Monis, P., Weyrich, L., Sawade, E., Drikas, M. & Cooper, A. (2015). Using amplicon sequencing to characterize and monitor bacterial diversity in drinking water distribution systems. D. Schaffner (Ed.). Applied and Environmental Microbiology, 81, 18, 6463-6473. 10.1128/AEM.01297-15
2015 Kushniarevich, A., Utevska, O., Chuhryaeva, M., Agdzhoyan, A., Dibirova, K., Uktveryte, I. ... Yunusbayev, B. (2015). Genetic heritage of the balto-slavic speaking populations: a synthesis of autosomal, mitochondrial and Y-chromosomal data. F. Calafell (Ed.). PLoS One, 10, 9, e0135820-1-e0135820-19. 10.1371/journal.pone.0135820
2015 Mitchell, K., Cooper, A. & Phillips, M. (2015). Comment on "whole-genome analyses resolve early branches in the tree of life of modern birds". Science, 349, 6255, 1460-1460. 10.1126/science.aab1062
2015 Fehren-Schmitz, L., Llamas, B., Lindauer, S., Tomasto-Cagigao, E., Kuzminsky, S., Rohland, N. ... Haak, W. (2015). A re-appraisal of the early Andean human remains from Lauricocha in Peru. PLoS One, 10, 6, e0127141-1-e0127141-13. 10.1371/journal.pone.0127141
2015 Gibb, G., England, R., Hartig, G., McLenachan, P., Taylor Smith, B., McComish, B. ... Penny, D. (2015). New Zealand passerines help clarify the diversification of major songbird lineages during the Oligocene. Genome Biology and Evolution, 7, 11, 2983-2995. 10.1093/gbe/evv196
2015 Rodríguez-Rey, M., Herrando-Pérez, S., Gillespie, R., Jacobs, Z., Saltré, F., Brook, B. ... Bradshaw, C. (2015). Criteria for assessing the quality of Middle Pleistocene to Holocene vertebrate fossil ages. Quaternary Geochronology, 30, 69-79. 10.1016/j.quageo.2015.08.002
2015 Haak, W., Lazaridis, I., Patterson, N., Rohland, N., Mallick, S., Llamas, B. ... Moiseyev, V. (2015). Massive migration from the steppe was a source for Indo-European languages in Europe. Nature, 522, 7555, 207-211. 10.1038/nature14317
2015 Mathieson, I., Lazaridis, I., Rohland, N., Mallick, S., Patterson, N., Roodenberg, S. ... Mochalov, O. (2015). Genome-wide patterns of selection in 230 ancient Eurasians. Nature, 528, 7583, 499-503. 10.1038/nature16152
2015 Weyrich, L., Dobney, K. & Cooper, A. (2015). Ancient DNA analysis of dental calculus. Journal of Human Evolution, 79, 119-124. 10.1016/j.jhevol.2014.06.018
2015 Llamas, B., Brotherton, P., Mitchell, K., Templeton, J., Thomson, V., Metcalf, J. ... Cooper, A. (2015). Late Pleistocene Australian marsupial DNA clarifies the affinities of extinct megafaunal kangaroos and wallabies. Molecular Biology and Evolution, 32, 3, 574-584. 10.1093/molbev/msu338
2015 Cooper, A., Weyrich, L., Dixit, S. & Farrer, A. (2015). The skin microbiome: Associations between altered microbial communities and disease. Australasian Journal of Dermatology, 56, 4, 268-274. 10.1111/ajd.12253
2015 Vai, S., Vilaça, S., Romandini, M., Benazzo, A., Visentini, P., Modolo, M. ... Bertorelle, G. (2015). The Biarzo case in northern Italy: is the temporal dynamic of swine mitochondrial DNA lineages in Europe related to domestication?. Scientific Reports, 5, 1, 16514-1-16514-9. 10.1038/srep16514
2015 Young, J., Weyrich, L., Clarke, L. & Cooper, A. (2015). Residual soil DNA extraction increases the discriminatory power between samples. Forensic Science, Medicine, and Pathology, 11, 2, 268-272. 10.1007/s12024-015-9662-z
2015 Clarke, L., Weyrich, L. & Cooper, A. (2015). Reintroduction of locally extinct vertebrates impacts arid soil fungal communities. Molecular Ecology, 24, 12, 3194-3205. 10.1111/mec.13229
2015 Saltré, F., Brook, B. W., Rodríguez-Rey, M., Cooper, A., Johnson, C. N., Turney, C. S. M. & Bradshaw, C. J. A. (2015). Uncertainties in dating constrain model choice for inferring extinction time from fossil records. Quaternary Science Reviews, 112, 128-137. 10.1016/j.quascirev.2015.01.022
2015 Turney, C., Thomas, Z., Hutchinson, D., Bradshaw, C., Brook, B., England, M. ... Cooper, A. (2015). Obliquity-driven expansion of North Atlantic sea ice during the last glacial. Geophysical Research Letters, 42, 23, 10382-10390. 10.1002/2015GL066344
2015 Cooper, A., Turney, C., Hughen, K., Brook, B., McDonald, H. & Bradshaw, C. (2015). Abrupt warming events drove Late Pleistocene Holarctic megafaunal turnover. Science, 349, 6248, 602-606. 10.1126/science.aac4315
2015 Young, J., Weyrich, L., Breen, J., Macdonald, L. & Cooper, A. (2015). Predicting the origin of soil evidence: High throughput eukaryote sequencing and MIR spectroscopy applied to a crime scene scenario. Forensic Science International, 251, 22-31. 10.1016/j.forsciint.2015.03.008
2014 Mitchell, K., Wood, J., Scofield, R., Llamas, B. & Cooper, A. (2014). Ancient mitochondrial genome reveals unsuspected taxonomic affinity of the extinct Chatham duck (Pachyanas chathamica) and resolves divergence times for New Zealand and sub-Antarctic brown teals. Molecular Phylogenetics and Evolution, 70, 1, 420-428. 10.1016/j.ympev.2013.08.017
2014 Thomson, V., Lebrasseur, O., Austin, J., Hunt, T., Burney, D., Denham, T. ... Cooper, A. (2014). Using ancient DNA to study the origins and dispersal of ancestral Polynesian chickens across the Pacific. Proceedings of the National Academy of Sciences, 111, 13, 4826-4831. 10.1073/pnas.1320412111
2014 Metcalf, J., Prost, S., Nogués-Bravo, D., DeChaine, E., Anderson, C., Batra, P. ... Guralnick, R. (2014). Integrating multiple lines of evidence into historical biogeography hypothesis testing: a Bison bison case study. Proceedings of the Royal Society of London: Biological Sciences, 281, 1777, 20132782-1-20132782-9. 10.1098/rspb.2013.2782
2014 Mitchell, K., Llamas, B., Soubrier, J., Rawlence, N., Worthy, T., Wood, J. ... Cooper, A. (2014). Ancient DNA reveals elephant birds and kiwi are sister taxa and clarifies ratite bird evolution. Science, 344, 6186, 898-900. 10.1126/science.1251981
2014 Orlando, L. & Cooper, A. (2014). Using ancient DNA to understand evolutionary and ecological processes. D. J. Futuyma (Ed.). Annual Review of Ecology, Evolution, and Systematics, 45, 1, 573-598. 10.1146/annurev-ecolsys-120213-091712
2014 Der Sarkissian, C., Brotherton, P., Balanovsky, O., Templeton, J., Llamas, B., Soubrier, J. ... Genographic Consortium, (2014). Mitochondrial genome sequencing in mesolithic North East Europe unearths a new sub-clade within the broadly distributed human haplogroup C1. A. Achilli (Ed.). PLoS One, 9, 2, e87612-1-e87612-10. 10.1371/journal.pone.0087612
2014 Willerslev, E., Davison, J., Moora, M., Zobel, M., Coissac, E., Edwards, M. ... Bellemain, E. (2014). Fifty thousand years of Arctic vegetation and megafaunal diet. Nature, 506, 7486, 47-51. 10.1038/nature12921
2014 Mitchell, K., Pratt, R., Watson, L., Gibb, G., Llamas, B., Kasper, M. ... Cooper, A. (2014). Molecular phylogeny, biogeography, and habitat preference evolution of marsupials. Molecular Biology and Evolution, 31, 9, 2322-2330. 10.1093/molbev/msu176
2014 Thomson, V., Aplin, K., Cooper, A., Hisheh, S., Suzuki, H., Maryanto, I. ... Donnellan, S. (2014). Molecular genetic evidence for the place of origin of the Pacific rat, Rattus exulanso. C. Lalueza-Fox (Ed.). PLoS One, 9, 3, e91356-1-e91356-11. 10.1371/journal.pone.0091356
2014 Shaw, J., Monis, P., Fabris, R., Ho, L., Braun, K., Drikas, M. & Cooper, A. (2014). Assessing the impact of water treatment on bacterial biofilms in drinking water distribution systems using high-throughput DNA sequencing. Chemosphere, 117, 1, 185-192. 10.1016/j.chemosphere.2014.06.077
2014 Clarke, A., Prost, S., Stanton, J., White, W., Kaplan, M., Matisoo-Smith, E. & Genographic Consortium, (2014). From cheek swabs to consensus sequences: an A to Z protocol for high-throughput DNA sequencing of complete human mitochondrial genomes. BMC Genomics, 15, 1, 68-1-68-12. 10.1186/1471-2164-15-68
2014 Coutinho, A., Valverde, G., Fehren-Schmitz, L., Cooper, A., Barreto Romero, M., Flores Espinoza, I. ... Haak, W. (2014). AmericaPlex26: a SNaPshot multiplex system for genotyping the main human mitochondrial founder lineages of the Americas. A. Achilli (Ed.). PLoS One, 9, 3, e93292-1-e93292-11. 10.1371/journal.pone.0093292
2014 Vilar, M., Melendez, C., Sanders, A., Walia, A., Gaieski, J., Owings, A. ... Martínez-Cruz, B. (2014). Genetic diversity in Puerto Rico and its implications for the peopling of the Island and the West Indies. American Journal of Physical Anthropology, 155, 3, 352-368. 10.1002/ajpa.22569
2014 Clarke, L., Soubrier, J., Weyrich, L. & Cooper, A. (2014). Environmental metabarcodes for insects: In silico PCR reveals potential for taxonomic bias. Molecular Ecology Resources, 14, 6, 1160-1170. 10.1111/1755-0998.12265
2014 Wood, J., Mitchell, K., Scofield, R., Tennyson, A., Fidler, A., Wilmshurst, J. ... Cooper, A. (2014). An extinct nestorid parrot (Aves, Psittaciformes, Nestoridae) from the Chatham Islands, New Zealand. Zoological Journal of the Linnean Society, 172, 1, 185-199. 10.1111/zoj.12164
2014 Young, J., Weyrich, L. & Cooper, A. (2014). Forensic soil DNA analysis using high-throughput sequencing: a comparison of four molecular markers. Forensic Science International: Genetics, 13, 176-184. 10.1016/j.fsigen.2014.07.014
2014 Young, J., Rawlence, N., Weyrich, L. & Cooper, A. (2014). Limitations and recommendations for successful DNA extraction from forensic soil samples: a review. Science and Justice, 54, 3, 238-244. 10.1016/j.scijus.2014.02.006
2014 Linh, V., Giannetti, S., Warren-Smith, S., Cooper, A., Selleri, S., Cucinotta, A. & Monro, T. (2014). Genotyping single nucleotide polymorphisms using different molecular beacon multiplexed within a suspended core optical fiber. Sensors, 14, 8, 14488-14499. 10.3390/s140814488
2014 Weyrich, L., Llamas, B. & Cooper, A. (2014). Reply to Santiago-Rodriguez et al.: Was luxS really isolated from 25- to 40-million-year-old bacteria?. FEMS Microbiology Letters, 353, 2, 85-86. 10.1111/1574-6968.12415
2014 Rawlence, N., Lowe, D., Wood, J., Young, J., Churchman, G., Huang, Y. & Cooper, A. (2014). Using palaeoenvironmental DNA to reconstruct past environments: progress and prospects. Journal of Quaternary Science, 29, 7, 610-626. 10.1002/jqs.2740
2014 Sheng, G., Soubrier, J., Liu, J., Werdelin, L., Llamas, B., Thomson, V. ... Cooper, A. (2014). Pleistocene Chinese cave hyenas and the recent Eurasian history of the spotted hyena, Crocuta crocuta. Molecular Ecology, 23, 3, 522-533. 10.1111/mec.12576
2014 Clarke, L., Czechowski, P., Soubrier, J., Stevens, M. & Cooper, A. (2014). Modular tagging of amplicons using a single PCR for high-throughput sequencing. Molecular Ecology Resources, 14, 1, 117-121. 10.1111/1755-0998.12162
2014 Thomson, V., Lebrasseur, O., Austin, J., Hunt, T., Burney, D., Denham, T. ... Cooper, A. (2014). Reply to Beavan, Bryant, and Storey and Matisoo-Smith: Ancestral polynesian "d" haplotypes reflect authentic pacific chicken lineages. Proceedings of the National Academy of Sciences of the United States of America, 111, 35, E3585-E3586. 10.1073/pnas.1411566111
2014 Lazaridis, I., Patterson, N., Mittnik, A., Renaud, G., Mallick, S., Kirsanow, K. ... Rohland, N. (2014). Ancient human genomes suggest three ancestral populations for present-day Europeans. Nature, 513, 7518, 409-413. 10.1038/nature13673
2014 Elhaik, E., Tatarinova, T., Chebotarev, D., Piras, I., Calò, C., De Montis, A. ... Balanovska, E. (2014). Geographic population structure analysis of worldwide human populations infers their biogeographical origins. Nature Communications, 5, 3513-1-3513-12. 10.1038/ncomms4513
2013 Wood, J., Wilmshurst, J., Rawlence, N., Bonner, K., Worthy, T., Kinsella, J. & Cooper, A. (2013). A megafauna's microfauna: gastrointestinal parasites of New Zealand's extinct Moa (Aves: Dinornithiformes). PLoS One, 8, 2, 1-9. 10.1371/journal.pone.0057315
2013 Badro, D., Douaihy, B., Haber, M., Youhanna, S., Salloum, A., Ghassibe-Sabbagh, M. ... Zalloua, P. (2013). Y-Chromosome and mtDNA genetics reveal significant contrasts in affinities of modern Middle Eastern populations with European and African populations. D. Caramelli (Ed.). PLoS One, 8, 1, e54616-1-e54616-11. 10.1371/journal.pone.0054616
2013 Vilstrup, J., Seguin-Orlando, A., Stiller, M., Ginolhac, A., Raghavan, M., Nielsen, S. ... Orlando, L. (2013). Mitochondrial phylogenomics of modern and ancient equids. PLoS One, 8, 2, 1-12. 10.1371/journal.pone.0055950
2013 Edson, J., Brooks, E., McLaren, C., Robertson, J., McNevin, D., Cooper, A. & Austin, J. (2013). A quantitative assessment of a reliable screening technique for the STR analysis of telogen hair roots. Forensic Science International: Genetics, 7, 1, 180-188. 10.1016/j.fsigen.2012.10.001
2013 Johnson, C., Bradshaw, C., Cooper, A., Gillespie, R. & Brook, B. (2013). Rapid megafaunal extinction following human arrival throughout the New World. Quaternary International, 308-309, 273-277. 10.1016/j.quaint.2013.06.022
2013 Bray, S., Austin, J., Metcalf, J., Ostbye, K., Ostbye, E., Lauritzen, S. ... Cooper, A. (2013). Ancient DNA identifies post-glacial recolonisation, not recent bottlenecks, as the primary driver of contemporary mtDNA phylogeography and diversity in Scandinavian brown bears. Diversity and Distributions, 19, 3, 245-256. 10.1111/j.1472-4642.2012.00923.x
2013 Austin, J., Soubrier, J., Prevosti, F., Prates, L., Trejo, V., Mena, F. & Cooper, A. (2013). The origins of the enigmatic Falkland Islands wolf. Nature Communications, 4, 1-7. 10.1038/ncomms2570
2013 Brotherton, P., Haak, W., Templeton, J., Soubrier, J., Adler, C., Richards, S. ... Cooper, A. (2013). Neolithic mitochondrial haplogroup H genomes and the genetic origins of Europeans. Nature Communications, 4, 1764, 1-11. 10.1038/ncomms2656
2013 Dersarkissian, C., Balanovsky, O., Brandt, G., Khartanovich, V., Buzhilova, A., Koshel, S. ... Haak, W. (2013). Ancient DNA reveals prehistoric gene-flow from Siberia in the complex human population history of north east Europe. PLoS Genetics, 9, 2, 1-17. 10.1371/journal.pgen.1003296
2013 Templeton, J., Brotherton, P., Llamas, B., Soubrier, J., Haak, W., Cooper, A. & Austin, J. (2013). DNA capture and next-generation sequencing can recover whole mitochondrial genomes from highly degraded samples for human identification. Investigative Genetics, 4, 26, 1-13. 10.1186/2041-2223-4-26
2013 Wood, J., Wilmshurst, J., Richardson, S., Rawlence, N., Wagstaff, S., Worthy, T. & Cooper, A. (2013). Resolving lost herbivore community structure using coprolites of four sympatric moa species (Aves: Dinornithiformes). Proceedings of the National Academy of Sciences of the United States of America, 110, 42, 16910-16915. 10.1073/pnas.1307700110
2013 Cooper, A. & Stringer, C. (2013). Did the Denisovans cross Wallace's Line?. Science, 342, 6156, 321-323. 10.1126/science.1244869
2013 Brook, B., Bradshaw, C., Cooper, A., Johnson, C., Worthy, T., Bird, M. ... Roberts, R. (2013). Lack of chronological support for stepwise prehuman extinctions of Australian megafauna. Proceedings of the National Academy of Sciences of USA, 110, 36, E3368-E3368. 10.1073/pnas.1309226110
2013 Brandt, G., Haak, W., Adler, C., Roth, C., Szecsenyi-Nagy, A., Karimnia, S. ... Alt, K. (2013). Ancient DNA reveals key stages in the formation of Central European mitochondrial genetic diversity. Science, 342, 6155, 257-261. 10.1126/science.1241844
2013 Boattini, A., Adler, C., Cooper, A., Dersarkissian, C. & Haak, W. (2013). Uniparental markers in Italy reveal a sex-biased genetic structure and different historical strata. PLoS One, 8, 5, 1-12. 10.1371/journal.pone.0065441
2013 Rawlence, N. & Cooper, A. (2013). Youngest reported radiocarbon age of a moa (Aves: Dinornithiformes) dated from a natural site in New Zealand. Journal of the Royal Society of New Zealand, 43, 2, 100-107. 10.1080/03036758.2012.658817
2013 Adler, C., Dobney, K., Weyrich, L., Kaidonis, J., Walker, A., Haak, W. ... Cooper, A. (2013). Sequencing ancient calcified dental plaque shows changes in oral microbiota with dietary shifts of the Neolithic and Industrial revolutions. Nature Genetics, 45, 4, 450-455. 10.1038/ng.2536
2012 Wood, J., Wilmshurst, J., Wagstaff, S., Worthy, T., Rawlence, N. & Cooper, A. (2012). High-resolution coproecology: using coprolites to reconstruct the habits and habitats of New Zealand's extinct upland Moa (Megalapteryx didinus). PLoS One, 7, 6, 1-13. 10.1371/journal.pone.0040025
2012 Dulik, M., Owings, A., Gaieski, J., Vilar, M., Andre, A., Lennie, C. ... Haak, W. (2012). Y-chromosome analysis reveals genetic divergence and new founding native lineages in Athapaskan- and Eskimoan-speaking populations. Proceedings of the National Academy of Sciences of the United States of America, 109, 22, 8471-8476. 10.1073/pnas.1118760109
2012 Javed, A., Mele, M., Pybus, M., Zalloua, P., Haber, M., Comas, D. ... Haak, W. (2012). Recombination networks as genetic markers in a human variation study of the Old World. Human Genetics, 131, 4, 601-613. 10.1007/s00439-011-1104-8
2012 Rawlence, N., Metcalf, J., Wood, J., Worthy, T., Austin, J. & Cooper, A. (2012). The effect of climate and environmental change on the megafaunal moa of New Zealand in the absence of humans. Quaternary Science Reviews, 50, 141-153. 10.1016/j.quascirev.2012.07.004
2012 Haber, M., Adler, C., Cooper, A., Dersarkissian, C. & Haak, W. (2012). Afghanistan's ethnic groups share a Y-chromosomal heritage structured by historical events. PLoS One, 7, 3, 1-8. 10.1371/journal.pone.0034288
2012 Behar, D., Haak, W., Adler, C., Cooper, A. & Dersarkissian, C. (2012). The Basque paradigm: genetic evidence of a maternal continuity in the Franco-Cantabrian region since pre-neolithic times. American Journal of Human Genetics, 90, 3, 486-493. 10.1016/j.ajhg.2012.01.002
2012 Kang, L., Lu, Y., Wang, C., Hu, K., Chen, F., Liu, K. ... Haak, W. (2012). Y-chromosome O3 Haplogroup diversity in Sino-Tibetan populations reveals two migration routes into the Eastern Himalayas. Annals of Human Genetics, 76, 1, 92-99. 10.1111/j.1469-1809.2011.00690.x
2012 ArunKumar, G., Soria-Hernanz, D., Kavitha, V., Arun, V., Syama, A., Ashokan, K. ... Haak, W. (2012). Population differentiation of Southern Indian male lineages correlates with agricultural expansions predating the caste system. PLoS One, 7, 11, 1-16. 10.1371/journal.pone.0050269
2012 Bradshaw, C., Cooper, A., Turney, C. & Brook, B. (2012). Robust estimates of extinction time in the geological record. Quaternary Science Reviews, 33, 14-19. 10.1016/j.quascirev.2011.11.021
2012 Lu, Y., Adler, C., Cooper, A., Dersarkissian, C. & Haak, W. (2012). Mitochondrial origin of the matrilocal Mosuo people in China. Mitochondrial DNA, 23, 1, 13-19. 10.3109/19401736.2011.643875
2012 Schurr, T., Dulik, M., Owings, A., Zhadanov, S., Gaieski, J., Vilar, M. ... Dersarkissian, C. (2012). Clan, language, and migration history has shaped genetic diversity in Haida and Tlingit populations from southeast Alaska. American Journal of Physical Anthropology, 148, 3, 422-435. 10.1002/ajpa.22068
2012 Gillespie, R., Camens, A., Worthy, T., Rawlence, N., Reid, C., Bertuch, F. ... Cooper, A. (2012). Man and megafauna in Tasmania: closing the gap. Quaternary Science Reviews, 37, 38-47. 10.1016/j.quascirev.2012.01.013
2012 Soubrier, J., Steel, M., Lee, M., Dersarkissian, C., Guindon, S., Ho, S. & Cooper, A. (2012). The influence of rate heterogeneity among sites on the time dependence of molecular rates. Molecular Biology and Evolution, 29, 11, 3345-3358. 10.1093/molbev/mss140
2012 Nguyen, V., Warren-Smith, S., Cooper, A. & Monro, T. (2012). Molecular beacons immobilized within suspended core optical fiber for specific DNA detection. Optics Express, 20, 28, 29378-29385. 10.1364/OE.20.029378
2012 Martinez-Cruz, B. & Haak, W. (2012). Evidence of pre-roman tribal genetic structure in basques from uniparentally inherited markers. Molecular Biology and Evolution, 29, 9, 2211-2222. 10.1093/molbev/mss091
2012 Wood, J., Wilmshurst, J., Worthy, T. & Cooper, A. (2012). First coprolite evidence for the diet of Anomalopteryx didiformis, an extinct forest ratite from New Zealand. New Zealand Journal of Ecology, 36, 2, 164-170.
2012 Martinez-Cruz, B., Ioana, M., Calafell, F., Arauna, L., Sanz, P., Ionescu, R. ... Haak, W. (2012). Y-chromosome analysis in individuals bearing the Basarab name of the first dynasty of Wallachian Kings. PLoS Genetics, 7, 7, 1-6. 10.1371/journal.pone.0041803
2012 Wood, J., Wilmshurst, J., Worthy, T., Holzapfel, A. & Cooper, A. (2012). A lost link between a flightless parrot and a parasitic plant and the potential role of coprolites in conservation paleobiology. Conservation Biology, 26, 6, 1091-1099. 10.1111/j.1523-1739.2012.01931.x
2012 Metcalf, J., Love Stowell, S., Kennedy, C., Rogers, K., McDonald, D., Epp, J. ... Martin, A. (2012). Historical stocking data and 19th century DNA reveal human-induced changes to native diversity and distribution of cutthroat trout. Molecular Ecology, 21, 21, 5194-5207. 10.1111/mec.12028
2012 Mele, M., Javed, A., Pybus, M., Zalloua, P., Haber, M., Comas, D. ... Haak, W. (2012). Recombination gives a new insight in the effective population size and history of the Old World human populations. Molecular Biology and Evolution, 29, 1, 25-30. 10.1093/molbev/msr213
2012 Llamas, B., Holland, M., Chen, K., Cropley, J., Cooper, A. & Suter, C. (2012). High-resolution analysis of cytosine methylation in ancient DNA. PLoS One, 7, 1, 1-6. 10.1371/journal.pone.0030226
2011 Ho, S., Lanfear, R., Bromham, L., Phillips, M., Soubrier, J., Rodrigo, A. & Cooper, A. (2011). Time-dependent rates of molecular evolution. Molecular Ecology, 20, 15, 3087-3101. 10.1111/j.1365-294X.2011.05178.x
2011 Meenan, N., Ball, G., Bromek, K., Uhrin, D., Cooper, A., Kennedy, M. & Smith, B. (2011). Solution structure of a repeated unit of the ABA-1 nematode polyprotein allergen of Ascaris reveals a novel fold and two discrete. PLoS Neglected Tropical Diseases, 5, 4, e1040-. 10.1371/journal.pntd.0001040
2011 Cai, X., Qin, Z., Wen, B., Xu, S., Wang, Y., Lu, Y. ... Li, H. (2011). Human migration through bottlenecks from Southeast Asia into East Asia during last glacial maximum revealed by Y chromosomes. D. O'Rourke (Ed.). PLoS ONE, 6, 8, -. 10.1371/journal.pone.0024282
2011 Zhai, Y., Okoro, L., Cooper, A. & Winter, R. (2011). Applications of pressure perturbation calorimetry in biophysical studies. Biophysical Chemistry, 156, 1, 13-23. 10.1016/j.bpc.2010.12.010
2011 Balanovsky, O., Haak, W., Adler, C., Cooper, A. & Dersarkissian, C. (2011). Parallel evolution of genes and languages in the Caucasus region. Molecular Biology and Evolution, 28, 10, 2905-2920. 10.1093/molbev/msr126
2011 Wood, J., Wilmshurst, J., Worthy, T. & Cooper, A. (2011). Sporormiella as a proxy for non-mammalian herbivores in island ecosystems. Quaternary Science Reviews, 30, 7-8, 915-920. 10.1016/j.quascirev.2011.01.007
2011 Aplin, K., Suzuki, H., Chinen, A., Chesser, R., ten Have, J., Donnellan, S. ... Cooper, A. (2011). Multiple geographic origins of commensalism and complex dispersal history of black rats. PLoS One, 6, 11, 1-20. 10.1371/journal.pone.0026357
2011 Zhang, H., Curreli, F., Zhang, X., Bhattacharya, S., Waheed, A., Cooper, A. ... Debnath, A. (2011). Antiviral activity of α-helical stapled peptides designed from the HIV-1 capsid dimerization domain. Retrovirology, 8, 1, 28-. 10.1186/1742-4690-8-28
2011 Adler, C., Haak, W., Donlon, D., Cooper, A. & Dersarkissian, C. (2011). Survival and recovery of DNA from ancient teeth and bones. Journal of Archaeological Science, 38, 5, 956-964. 10.1016/j.jas.2010.11.010
2011 Vijayakrishnan, S., Callow, P., Nutley, M., McGow, D., Gilbert, D., Kropholler, P. ... Lindsay, J. (2011). Variation in the organization and subunit composition of the mammalian pyruvate dehydrogenase complex E2/E3BP core assembly. Biochemical Journal, 437, 3, 565-574. 10.1042/bj20101784
2011 Davison, J., Ho, S., Bray, S., Korsten, M., Tammeleht, E., Hindrikson, M. ... Saarma, U. (2011). Late-Quaternary biogeographic scenarios for the brown bear (Ursus arctos), a wild mammal model species. Quaternary Science Reviews, 30, 3-4, 418-430. 10.1016/j.quascirev.2010.11.023
2011 Yan, S., Wang, C., Li, H., Li, S., Jin, L., Schurr, T. ... Soria Hernanz, D. (2011). An updated tree of Y-chromosome Haplogroup O and revised phylogenetic positions of mutations P164 and PK4. European Journal of Human Genetics, 19, 9, 1013-1015. 10.1038/ejhg.2011.64
2011 Yang, K., Zheng, H., Qin, Z., Lu, Y., Farina, S. E., Li, S. ... Li, H. (2011). Positive selection on mitochondrial M7 lineages among the Gelong people in Hainan. JOURNAL OF HUMAN GENETICS, 56, 3, 253-256. 10.1038/jhg.2010.165
2011 Cooper, A. (2011). Species-specific responses of Late Quaternary megafauna to climate and humans. Nature, 479, 7373, 359-364. 10.1038/nature10574
2011 Lippold, S., Knapp, M., Kuznetsova, T., Leonard, J., Benecke, N., Ludwig, A. ... Hofreiter, M. (2011). Discovery of lost diversity of paternal horse lineages using ancient DNA. Nature Communications, 2, 1, 1-6. 10.1038/ncomms1447
2011 Lari, M., Rizzi, E., Mona, S., Corti, G., Catalano, G., Chen, K. ... Cooper, A. (2011). The Complete mitochondrial genome of an 11,450-year-old Aurochsen (Bos primigenius) from Central Italy. BMC Evolutionary Biology, 11, 1, 1-10. 10.1186/1471-2148-11-32
2011 Yuan, Y., Shen, T., Gupta, P., Ho, N., Simplaceanu, V., Tam, T. ... Ho, C. (2011). A biochemical-biophysical study of hemoglobins from woolly mammoth, asian elephant, and humans. Biochemistry, 50, 34, 7350-7360. 10.1021/bi200777j
2011 Haber, M., Platt, D., Badro, D., Xue, Y., El-Sibai, M., Bonab, M. ... Zalloua, P. (2011). Influences of history, geography, and religion on genetic structure: The Maronites in Lebanon. European Journal of Human Genetics, 19, 3, 334-340. 10.1038/ejhg.2010.177
2011 Gaieski, J. B., Owings, A. C., Vilar, M. G., Dulik, M. C., Gaieski, D. F., Gittelman, R. M. ... Schurr, T. G. (2011). Genetic Ancestry and Indigenous Heritage in a Native American Descendant Community in Bermuda. AMERICAN JOURNAL OF PHYSICAL ANTHROPOLOGY, 146, 3, 392-405. 10.1002/ajpa.21588
2011 Jota, M., Lacerda, D., Sandoval, J., Vieira, P., Santos-Lopes, S., Bisso-Machado, R. ... Santos, F. (2011). A new subhaplogroup of native American Y-Chromosomes from the Andes. American Journal of Physical Anthropology, 146, 4, 553-559. 10.1002/ajpa.21519
2010 Zhadanov, S., Dulik, M., Markley, M., Jennings, G., Gaieski, J., Elias, G. ... Cooper, A. (2010). Genetic heritage and native identity of the Seaconke Wampanoag tribe of Massachusetts. American Journal of Physical Anthropology, 142, 4, 579-589. 10.1002/ajpa.21281
2010 Brotherton, P., Sanchez, J., Cooper, A. & Endicott, P. (2010). Preferential access to genetic information from endogenous hominin ancient DNA and accurate quantitative SNP-typing via SPEX. Nucleic Acids Research, 38, 2, E7-1-E7-12. 10.1093/nar/gkp897
2010 Qin, Z., Yang, Y., Kang, L., Yan, S., Cho, K., Cai, X. ... Li, H. (2010). A mitochondrial revelation of early human migrations to the Tibetan Plateau before and after the last glacial maximum. American Journal of Physical Anthropology, 143, 4, 555-569. 10.1002/ajpa.21350
2010 Haak, W., Balanovsky, O., Sanchez, J., Koshel, S., Zaporozhchenko, V., Adler, C. ... Cooper, A. (2010). Ancient DNA from European early Neolithic farmers reveals their near eastern affinities. PLoS Biology, 8, 11, 1000536-1-1000536-16. 10.1371/journal.pbio.1000536
2010 Gupta, P., Ho, N. T., Shen, T. -. J., Simplaceanu, V., Hofreiter, M., Cooper, A. ... Ho, C. (2010). A Biophysical-Biochemical Comparison of Hemoglobins from Mammoth, Asian Elephant, and Human. BIOPHYSICAL JOURNAL, 98, 3, 638A-638A.
2010 Campbell, K., Roberts, J., Watson, L., Stetefeld, J., Sloan, A., Signore, A. ... Cooper, A. (2010). Substitutions in woolly mammoth hemoglobin confer biochemical properties adaptive for cold tolerance. Nature Genetics, 42, 5, 536-542. 10.1038/ng.574
2010 Mele, M., Javed, A., Pybus, M., Calafell, F., Parida, L. & Bertranpetit, J. (2010). A New Method to Reconstruct Recombination Events at a Genomic Scale. C. P. Ponting (Ed.). PLOS COMPUTATIONAL BIOLOGY, 6, 11, -. 10.1371/journal.pcbi.1001010
2009 Decker, J., Pires, J., Conant, G., McKay, S., Heaton, M., Chen, K. ... Wilson, G. (2009). Resolving the evolution of extant and extinct ruminants with high-throughput phylogenomics. Proceedings of the National Academy of Sciences of the United States of America, 106, 44, 18644-18649. 10.1073/pnas.0904691106
2009 Slater, G., Thalman, O., Leonard, J., Schweizer, R., Koepfli, K., Pollinger, J. ... Wayne, R. (2009). Evolutionary history of the Falklands wolf. Current Biology, 19, 20, R937-R938. 10.1016/j.cub.2009.09.018
2009 Boessenkool, S., Austin, J., Worthy, T., Scofield, P., Cooper, A., Seddon, P. & Waters, J. (2009). Relict or colonizer? Extinction and range expansion of penguins in southern New Zealand. Proceedings of the Royal Society of London Series B-Biological Sciences, 276, 1658, 815-821. 10.1098/rspb.2008.1246
2009 Haile, J., Froese, D., MacPhee, R., Roberts, R., Arnold, L., Reyes, A. ... Willerslev, E. (2009). Ancient DNA reveals late survival of mammoth and horse in interior Alaska. Proceedings of the National Academy of Sciences of the United States of America, 106, 52, 22352-22357. 10.1073/pnas.0912510106
2009 Bunce, M., Worthy, T., Phillips, M., Holdaway, R., Willerslev, E., Haile, J. ... Cooper, A. (2009). The evolutionary history of the extinct ratite moa and New Zealand Neogene paleogeography. Proceedings of the National Academy of Sciences of the United States of America, 106, 49, 20646-20651. 10.1073/pnas.0906660106
2009 Rawlence, N., Wood, J., Armstrong, K. & 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-Biological Sciences, 276, 1672, 3395-3402. 10.1098/rspb.2009.0755
2009 Adler, C., Haak, W. & Cooper, A. (2009). Quantification of DNA in ancient human teeth. HOMO-JOURNAL OF COMPARATIVE HUMAN BIOLOGY, 60, 3, 262-262. 10.1016/j.jchb.2009.02.037
2009 Barnett, R., Shapiro, B., Barnes, I., Ho, S., Burger, J., Yamaguchi, N. ... Cooper, A. (2009). Phylogeography of lions (Panthera leo ssp.) reveals three distinct taxa and a late Pleistocene reduction in genetic diversity. Molecular Ecology, 18, 8, 1668-1677. 10.1111/j.1365-294X.2009.04134.x
2009 El-Sibai, M., Platt, D., Haber, M., Xue, Y., Youhanna, S., Wells, R. ... Zalloua, P. (2009). Geographical structure of the Y-chromosomal genetic landscape of the levant: A coastal-inland contrast. Annals of Human Genetics, 73, 6, 568-581. 10.1111/j.1469-1809.2009.00538.x
2009 Endicott, P., Sanchez, J., Pichler, I., Brotherton, P., Brooks, J., Egarter-Vigl, E. ... Pramstaller, P. (2009). 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, 1, 1-14. 10.1186/1471-2156-10-29
2009 Orlando, L., Metcalf, J., Alderdi, M., Telles-Antunes, M., Bonjean, D., Otte, M. ... Cooper, A. (2009). Revising the recent evolutionary history of equids using ancient DNA. Proceedings of the National Academy of Sciences of the United States of America, 106, 51, 21754-21759. 10.1073/pnas.0903672106
2008 Zalloua, P., Platt, D., El Sibai, M., Khalife, J., Makhoul, N., Haber, M. ... Cooper, A. (2008). Identifying genetic traces of historical expansions: Phoenician footprints in the Mediterranean. American Journal of Human Genetics, 83, 5, 633-642. 10.1016/j.ajhg.2008.10.012
2008 Gongora, J., Rawlence, N. J., Mobegi, V. A., Jianlin, H., Alcalde, J. A., Matus, J. T. ... Cooper, A. (2008). Indo-European and Asian origins for Chilean and Pacific chickens revealed by mtDNA (vol 105, pg 10308, 2008). PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 105, 37, 14234-14234. 10.1073/pnas.0807512105
2008 Stewart, J. & Cooper, A. (2008). Ice age refugia and quaternary extinctions: an issue of quaternary evolutionary palaeoecology. Quaternary Science Reviews, 27, 27-28 Sp Iss, 2443-2448. 10.1016/j.quascirev.2008.10.005
2008 Zalloua, P., Xue, Y., Khalife, J., Makhoul, N., Debiane, L., Platt, D. ... Cooper, A. (2008). Y-chromosomal diversity in Lebanon is structured by recent historical events. American Journal of Human Genetics, 82, 4, 873-882. 10.1016/j.ajhg.2008.01.020
2008 Brotherton, P., Endicott, P., Beaumont, M., Barnett, R., Austin, J., Cooper, A. & Sanchez, J. (2008). Single primer extension (SPEX) amplification to accurately genotype highly damaged DNA templates. Forensic Science International: Genetics Supplement Series, 1, 1, 19-21. 10.1016/j.fsigss.2007.10.111
2008 Rosset, S., Wells, R., Soria-Hernanz, D., Tyler-Smith, C., Royyuru, A., Behar, D. ... Hernanz, D. (2008). Maximum-likelihood estimation of site-specific mutation rates in human mitochondrial DNA from partial phylogenetic classification. Genetics, 180, 3, 1511-1524. 10.1534/genetics.108.091116
2008 Behar, D., Blue-Smith, J., Soria-Hernanz, D., Tzur, S., Hadid, Y., Bormans, C. ... Parida, L. (2008). A novel 154-bp deletion in the human mitochondrial DNA control region in healthy individuals. Human Mutation, 29, 12, 1387-1391. 10.1002/humu.20835
2008 Gan, R., Pan, S., Mustavich, L., Qin, Z., Cai, X., Qian, J. ... Cooper, A. (2008). Pinghua population as an exception of Han Chinese's coherent genetic structure. Journal of Human Genetics, 53, 4, 303-313. 10.1007/s10038-008-0250-x
2008 Krause, J., Unger, T., Nocon, A., Malaspinas, A., Kolokotronis, S., Stiller, M. ... Hofreiter, M. (2008). Mitochondrial genomes reveal an explosive radiation of extinct and extant bears near the Miocene-Pliocene boundary. BMC Evolutionary Biology, 8, 1, WWW 1-WWW 12. 10.1186/1471-2148-8-220
2008 Wood, J., Rawlence, N., Rogers, G., Austin, J., Worthy, T. & Cooper, A. (2008). Coprolite deposits reveal the diet and ecology of the extinct New Zealand megaherbivore moa (Aves, Dinornithiformes). Quaternary Science Reviews, 27, 27-28 Sp Iss, 2593-2602. 10.1016/j.quascirev.2008.09.019
2008 Orlando, L., Male, D., Alberdi, M., Prado, J., Prieto, A., Cooper, A. & Hanni, C. (2008). Ancient DNA clarifies the evolutionary history of American late Pleistocene equids. Journal of Molecular Evolution, 66, 5, 533-538. 10.1007/s00239-008-9100-x
2008 Gongora, J., Rawlence, N., Mobegi, V., Jianlin, H., Alcalde, J., Matus, J. ... Cooper, A. (2008). Indo-European and Asian origins for Chilean and Pacific chickens revealed by mtDNA. Proceedings of the National Academy of Sciences of the United States of America, 105, 30, 10308-10313. 10.1073/pnas.0801991105
2008 Gongora, J., Rawlence, N., Mobegi, V., Jianlin, H., Alcalde, J., Matus, J. ... Cooper, A. (2008). Reply to Storey et al.: More DNA and dating studies needed for ancient El Arenal-1 chickens. Proceedings of the National Academy of Sciences of the United States of America, 105, 48, E100-E100. 10.1073/pnas.0809681105
2008 Behar, D., Villems, R., Soodyall, H., Blue-Smith, J., Pereira, L., Metspalu, E. ... Cooper, A. (2008). The dawn of human matrilineal diversity. American Journal of Human Genetics, 82, 5, 1130-1140. 10.1016/j.ajhg.2008.04.002
2008 Parida, L., Mele, M., Calafell, F., Bertranpetit, J., Schurr, T., Santos, F. ... Wells, R. (2008). Estimating the ancestral recombinations graph (ARG) as compatible networks of SNP patterns. Journal of Computational Biology, 15, 9, 1133-1153. 10.1089/cmb.2008.0065
2007 Brotherton, P., Endicott, P., Sanchez, J., Beaumont, M., Barnett, R., Austin, J. & Cooper, A. (2007). 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, 35, 17, 5717-5728. 10.1093/nar/gkm588
2007 Ho, S., Shapiro, B., Phillips, M., Cooper, A. & Drummond, A. (2007). Evidence for time dependency of molecular rate estimates. Systematic Biology, 56, 3, 515-522. 10.1080/10635150701435401
2007 Larson, G., Cucchi, T., Fujita, M., Matisoo-Smith, E., Robins, J., Anderson, A. ... Rabett, R. (2007). Phylogeny and ancient DNA of Sus provides insights into neolithic expansion in island southeast Asia and Oceania. Proceedings of the National Academy of Sciences of the United States of America, 104, 12, 4834-4839. 10.1073/pnas.0607753104
2007 Larson, G., Albarella, U., Dobney, K., Rowley-Conwy, P., Schibler, J., Tresset, A. ... Cooper, A. (2007). Ancient DNA, pig domestication, and the spread of the Neolithic into Europe. Proceedings of the National Academy of Sciences of the United States of America, 104, 39, 15276-15281. 10.1073/pnas.0703411104
2007 Behar, D. M., Rosset, S., Blue-Smith, J., Balanovsky, O., Tzur, S., Comas, D. ... Wells, R. S. (2007). The genographic project public participation mitochondrial DNA database (vol 3, pg 1083, 2007). PLOS GENETICS, 3, 9, 1785-1785.
2007 Behar, D., Rosset, S., Blue-Smith, J., Balanovsky, O., Tzur, S., Comas, D. ... Royyuru, A. (2007). The genographic project public participation mitochondrial DNA database. PLoS Genetics, 3, 6, 1083-1095. 10.1371/journal.pgen.0030104
2006 Gilbert, M., Janaway, R., Tobin, D., Cooper, A. & Wilson, A. (2006). Histological correlates of post mortem mitochondrial DNA damage in degraded hair. Forensic Science International, 156, 2, 201-207. 10.1016/j.forsciint.2005.02.019
2006 Barnett, R., Yamaguchi, N., Barnes, I. & Cooper, A. (2006). The origin, current diversity and future conservation of the modern lion (Panthera leo). Proceedings of the Royal Society of London Series B-Biological Sciences, 273, 1598, 2119-2125. 10.1098/rspb.2006.3555
2006 Barnett, R., Yamaguchi, N., Barnes, I. & Cooper, A. (2006). Lost populations and preserving genetic diversity in the lion Panthera leo: Implications for its ex situ conservation. Conservation Genetics, 7, 4, 507-514. 10.1007/s10592-005-9062-0
2006 Cooper, A. (2006). The year of the mammoth. PLoS Biology, 4, 3, 311-313. 10.1371/journal.pbio.0040078
2006 Cooper, A. (2006). Using ancient DNA to study human evolution and general evolutionary processes. Australian Archaeology, 63, 80-.
2006 Cooper, A. (2006). Using ancient DNA to analyse environmental and evolutionary change. HOMO-JOURNAL OF COMPARATIVE HUMAN BIOLOGY, 57, 3, 222-222.
2006 Endicott, P., Metspalu, M., Stringer, C., Macaulay, V., Cooper, A. & Sanchez, J. (2006). Multiplexed SNP typing of ancient DNA clarifies the origin of Andaman mtDNA haplogroups amongst South Asian tribal populations. PLoS One, 1, 1, 1-8. 10.1371/journal.pone.0000081
2006 Strugnell, J., Norman, M. & Cooper, A. (2006). DNA from beach-washed shells of the ram's horn squid, Spirula spirula. Bulletin of Marine Science, 78, 2, 389-391. 10.1002/jctb.2204
2006 Strugnell, J., Jackson, J., Drummond, A. & Cooper, A. (2006). Divergence time estimates for major cephalopod groups: evidence from multiple genes. Cladistics-The International Journal of the Willi Hennig Society, 22, 1, 89-96. 10.1111/j.1096-0031.2006.00086.x
2006 Willerslev, E. & Cooper, A. (2006). Pathogenic microbial ancient DNA: a problem or an opportunity?. Proceedings of the Royal Society of London Series B-Biological Sciences, 273, 1587, 643-643. 10.1098/rspb.2005.3262
2006 Gilbert, M., Menez, L., Janaway, R., Tobin, D., Cooper, A. & Wilson, A. (2006). Resistance of degraded hair shafts to contaminant DNA. Forensic Science International, 156, 2, 208-212. 10.1016/j.forsciint.2005.02.021
2005 Strugnell, J., Norman, M., Jackson, J., Drummond, A. & Cooper, A. (2005). Molecular phylogeny of coleoid cephalopods (Mollusca: Cephalopoda) using a multigene approach; the effect of data partitioning on resolving phylogenies in a Bayesian framework. Molecular Phylogenetics and Evolution, 37, 2, 426-441. 10.1016/j.ympev.2005.03.020
2005 Ho, S., Phillips, M., Cooper, A. & Drummond, A. (2005). Time dependency of molecular rate estimates and systematic overestimation of recent divergence times. Molecular Biology and Evolution, 22, 7, 1561-1568. 10.1093/molbev/msi145
2005 Gilbert, M., Barnes, I., Collins, M., Smith, C., Eklund, J., Goudsmit, J. ... Cooper, A. (2005). Long-term survival of ancient DNA in Egypt: Response to Zink and Nerlich (2003). American Journal of Physical Anthropology, 128, 1, 110-114. 10.1002/ajpa.20045
2005 Larson, G., Dobney, K., Albarella, U., Matisoo-Smith, E., Robins, J., Lowden, S. ... Cooper, A. (2005). Domesticated pigs in eastern Indonesia - Response. Science, 309, 5733, 381-381. 10.1126/science.309.5733.381a
2005 Cook, S., Diallo, M., Sall, A., Cooper, A. & Holmes, E. (2005). Mitochondrial markers for molecular identification of Aedes mosquitoes (Diptera: Culicidae) involved in transmission of arboviral disease in West Africa.. Journal of Medical Entomology, 42, 1, 19-28. 10.1603/0022-2585(2005)042[0019:MMFMIO]2.0.CO;2
2005 Gilbert, M., Shapiro, B., Drummond, A. & Cooper, A. (2005). Post-mortem DNA damage hotspots in Bison (Bison bison) provide evidence for both damage and mutational hotspots in human mitochondrial DNA. Journal of Archaeological Science, 32, 7, 1053-1060. 10.1016/j.jas.2005.02.006
2005 Vioarsdottir, U., Buck, T., Cooper, A., Endicott, P. & Stringer, C. (2005). Morphology and molecules: a study of diversity and dispersal in the island populations of South Asia.. AMERICAN JOURNAL OF PHYSICAL ANTHROPOLOGY, 200-200.
2005 Ho, S., Phillips, M., Drummond, A. & Cooper, A. (2005). Accuracy of rate estimation using relaxed-clock models with a critical focus on the early Metazoan radiation. Molecular Biology and Evolution, 22, 5, 1355-1363. 10.1093/molbev/msi125
2005 Barnett, R., Barnes, I., Phillips, M., Martin, L., Harington, C., Leonard, J. & Cooper, A. (2005). Evolution of the extinct Sabretooths and the American cheetah-like cat. Current Biology, 15, 15, R589-R590. 10.1016/j.cub.2005.07.052
2005 Larson, G., Dobney, K., Albarella, U., Fang, M., Matisoo-Smith, E., Robins, J. ... Cooper, A. (2005). Worldwide phylogeography of wild boar reveals multiple centers of pig domestication. Science, 307, 5715, 1618-1621. 10.1126/science.1106927
2005 Weinstock, J., Willerslev, E., Sher, A., Tong, W., Ho, S., Rubenstein, D. ... Cooper, A. (2005). Evolution systematics and phylogeography of Pleistocene horses in the New World: a molecular perspective. PLoS Biology, 3, 8, e241-. 10.1371/journal.pbio.0030241
2005 Willerslev, E. & Cooper, A. (2005). Ancient DNA. Proceedings of the Royal Society of London Series B-Biological Sciences, 272, 1558, 3-16. 10.1098/rspb.2004.2813
2005 Bunce, M., Szulkin, M., Lerner, R., Barnes, I., Shapiro, B., Cooper, A. & Holdaway, R. (2005). Ancient DNA provides new insights into the evolutionary history of New Zealand's extinct Giant Eagle. PLoS Biology, 3, 1, 1-10. 10.1371/journal.pbio.0030009
2004 Gilbert, T., Wilson, A., Bunce, M., Hansen, A., Willerslev, E., Shapiro, B. ... Cooper, A. (2004). Ancient mitochondrial DNA from hair. Current Biology, 14, 12, 463-464. 10.1016/j.cub.2004.06.008
2004 Prentice, M., Gilbert, T. & Cooper, A. (2004). Was the Black Death caused by Yersinia pestis?. The Lancet Infectious Diseases, 4, 2, 72-72. 10.1016/S1473-3099(04)00923-5
2004 Shapiro, B., Drummond, A., Rambaut, A., Wilson, M., Matheus, P., Sher, A. ... Tedford, R. (2004). Rise and fall of the Beringian steppe bison. Science, 306, 5701, 1561-1565. 10.1126/science.1101074
2004 Harrison, G., McLenachan, P., Phillips, M., Slack, K., Cooper, A. & Penny, D. (2004). Four New Avian Mitochondrial Genomes Help Get to Basic Evolutionary Questions in the Late Cretaceous. Molecular Biology and Evolution, 21, 6, 974-983. 10.1093/molbev/msh065
2004 Barnett, O., Worobey, M., Holmes, E. & Cooper, A. (2004). Detection of TT virus among chimpanzees in the wild using a noninvasive technique.. Journal of Wildlife Diseases, 40, 2, 230-237. 10.7589/0090-3558-40.2.230
2004 Yamaguchi, N., Cooper, A., Werdelin, L. & Macdonald, D. (2004). Evolution of the mane and group-living in the lion (Panthera leo): a review. Journal of Zoology, 263, 4, 329-342. 10.1017/S0952836904005242
2004 Gilbert, T., Cuccui, J., White, W., Lynnerup, N., Titball, R., Cooper, A. & Prentice, M. (2004). Absence of Yersinia pestis-specific DNA in human teeth from five European excavations of putative plague victims. Microbiology, 150, 2, 341-354. 10.1099/mic.0.26594-0
2004 Strugnell, J., Norman, M., Drummond, A. & Cooper, A. (2004). Neotenous origins for pelagic octopuses. Current Biology, 14, 8, 300-301. 10.1016/j.cub.2004.03.048
2004 Cooper, A., Drummond, A. & Willerslev, E. (2004). Ancient DNA: would the real Neandertal please stand up?. Current Biology, 14, 11, 431-433. 10.1016/j.cub.2004.05.037
2004 Drancourt, M., Raoult, D., Gilbert, M., Cuccui, J., White, W., Lynnerup, N. ... Prentice, M. (2004). Molecular detection of Yersinia pestis in dental pulp. Microbiology, 150, 2, 263-265. 10.1099/mic.0.26885-0
2004 Gilbert, M. T. P., Cuccui, J., White, W., Lynnerup, N., Titball, R. W., Cooper, A. & Prentice, M. B. (2004). Response to Drancourt and Raoult. MICROBIOLOGY-SGM, 150, 2, 264-265. 10.1099/mic.0.26959-0
2004 Willerslev, E., Hansen, A., Ronn, R., Brand, T., Barnes, I., Wiuf, C. ... Cooper, A. (2004). Long-term persistence of bacterial DNA. Current Biology, 14, 1, R9-R10. 10.1016/j.cub.2003.12.012
2003 Shapiro, B. & Cooper, A. (2003). Beringia as an Ice Age genetic museum. Quaternary Research, 60, 1, 94-100. 10.1016/S0033-5894(03)00009-7
2003 Endicott, P., Macaulay, V., Kivisild, T., Stringer, C. & Cooper, A. (2003). South Asia, the Andamanese, and the genetic evidence for an "early" human dispersal out of Africa - Reply. AMERICAN JOURNAL OF HUMAN GENETICS, 72, 6, 1590-1593. 10.1086/375408
2003 Cordaux, R., Stoneking, M., Endicott, P., Macaulay, V., Kivisild, T., Stringer, C. & Cooper, A. (2003). South Asia, the andamanese, and the genetic evidence for an "early" human dispersal out of Africa [2]. American Journal of Human Genetics, 72, 6, 1586-1593. 10.1086/375407
2003 Gilbert, M., Willerslev, E., Hansen, A., Barnes, I., Rudbeck, L., Lynnerup, N. & Cooper, A. (2003). Distribution patterns of postmortem damage in human mitochondrial DNA. American Journal of Human Genetics, 72, 1, 32-47. 10.1086/345378
2003 Endicott, P., Gilbert, M., Stringer, C., Willerslev, E., Lalueza-Fox, C., Hansen, A. & Cooper, A. (2003). The genetic origins of the Andaman Islanders. American Journal of Human Genetics, 72, 1, 178-184. 10.1086/345487
2003 Bunce, M., Worthy, T., Ford, T., Hoppitt, W., Willerslev, E., Drummond, A. & Cooper, A. (2003). Extreme reversed sexual size dimorphism in the extinct New Zealand moa Dinornis. Nature, 425, 6954, 172-175. 10.1038/nature01871
2003 Gilbert, M., Hansen, A., Willerslev, E., Rudbeck, E., Barnes, I., Lynnerup, N. & Cooper, A. (2003). Characterization of genetic miscoding lesions caused by postmortem damage. American Journal of Human Genetics, 72, 1, 48-61. 10.1086/345379
2003 Jaenicke-Despres, V., Buckler, E., Smith, B., Gilbert, M., Cooper, A., Doebley, J. & Paabo, S. (2003). Early allelic selection in maize as revealed by ancient DNA. Science, 302, 5648, 1206-1208. 10.1126/science.1089056
2003 Willerslev, E., Hansen, A., Binladen, J., Brand, T., Gilbert, M., Shapiro, B. ... Cooper, A. (2003). Diverse plant and animal genetic records from Holocene and Pleistocene sediments. Science, 300, 5620, 791-795. 10.1126/science.1084114
2002 Barnes, I., Matheus, P., Shapiro, B., Jensen, D. & Cooper, A. (2002). Dynamics of pleistocene population extinctions in beringian brown bears. Science, 295, 5563, 2267-2270. 10.1126/science.1067814
2002 Nielsen-Marsh, C., Ostrom, P., Gandhi, H., Shapiro, B., Cooper, A., Hauschka, P. & Collins, M. (2002). Sequence preservation of osteocalcin protein and mitochondrial DNA in bison bones older than 55 ka. Geology, 30, 12, 1099-1102. 10.1130/0091-7613(2002)030<1099:SPOOPA>2.0.CO;2
2002 Shapiro, B., Sibthorpe, D., Rambaut, A., Austin, J., Wragg, G., Bininda-Emonds, O. ... Cooper, A. (2002). Flight of the Dodo. Science, 295, 5560, 1683-1683. 10.1126/science.295.5560.1683
2002 Ericson, P., Christidis, L., Cooper, A., Irestedt, M., Jackson, J., Johansson, U. & Norman, J. (2002). A Gondwanan origin of passerine birds supported by DNA sequences of the endemic New Zealand wrens. Proceedings of the Royal Society of London Series B-Biological Sciences, 269, 1488, 235-241. 10.1098/rspb.2001.1877
2001 Poinar, H., Kuch, M., Sobolik, K., Barnes, I., Stankiewicz, A., Kuder, T. ... Paabo, S. (2001). A molecular analysis of dietary diversity for three archaic Native Americans. Proceedings of the National Academy of Sciences of the United States of America, 98, 8, 4317-4322. 10.1073/pnas.061014798
2001 Cooper, A., Rambaut, A., Macaulay, V., Willerslev, E., Hansen, A. & Stringer, C. (2001). Human origins and ancient human DNA. Science, 292, 5522, 1655-1656. 10.1126/science.292.5522.1655
2001 Cooper, A., Fox, L., Anderson, S., Rambaut, A., Austin, J. & Ward, R. (2001). Complete mitochondrial genome sequences of two extinct moas clarify ratite evolution. Nature, 409, 6821, 704-707. 10.1038/35055536
2001 Smith, C., Chamberlain, A., Riley, M., Cooper, A., Stringer, C. & Collins, M. (2001). Neanderthal DNA: Not just old but old and cold?. Nature, 410, 6830, 771-772. 10.1038/35071177
2000 Leonard, J., Wayne, R. & Cooper, A. (2000). Population genetics of Ice Age brown bears. Proceedings of the National Academy of Sciences of the United States of America, 97, 4, 1651-1654. 10.1073/pnas.040453097
2000 Fleischer, R., Olson, S., James, H. & Cooper, A. (2000). Identification of the extinct Hawaiian eagle (Haliaeetus) by mtDNA sequence analysis. Auk, 117, 4, 1051-1056. 10.1642/0004-8038(2000)117[1051:IOTEHE]2.0.CO;2
2000 Cooper, A. & Poinar, H. (2000). Ancient DNA: do it right or not at all. Science, 289, 5482, 1139-1139. 10.1126/science.289.5482.1139b
1999 Wayne, R., Leonard, J. & Cooper, A. (1999). Full of sound and fury: The recent history of ancient DNA. Annual Review of Ecology and Systematics, 30, 1, 457-477. 10.1146/annurev.ecolsys.30.1.457
1999 Sorenson, M., Cooper, A., Paxinos, E., Quinn, T., James, H., Olson, S. & Fleischer, R. (1999). Relationships of the extinct moa-nalos, flightless Hawaiian waterfowl, based on ancient DNA. Proceedings of the Royal Society B: Biological Sciences, 266, 1434, 2187-2193. 10.1098/rspb.1999.0907
1998 Bromham, L., Rambaut, A., Fortey, R., Cooper, A. & Penny, D. (1998). Testing the Cambrian explosion hypothesis by using a molecular dating technique. Proceedings of the National Academy of Sciences of the United States of America, 95, 21, 12386-12389. 10.1073/pnas.95.21.12386
1998 Cooper, A. & Wayne, R. (1998). New uses for old DNA. Current Opinion in Biotechnology, 9, 1, 49-53. 10.1016/S0958-1669(98)80083-9
1998 Lee, M., Cooper, A. & Fortey, R. (1998). Shortening the phylogenetic fuse [3] (multiple letters). Trends in Ecology and Evolution, 13, 8, 323-324.
1998 Budd, G., Jensen, S., Thomas, A., Fortey, R. & Cooper, A. (1998). Trace fossils and the Cambrian explosion [2] (multiple letters). Trends in Ecology and Evolution, 13, 12, 507-508.
1998 Cooper, A. & Fortey, R. (1998). Evolutionary explosions and the phylogenetic fuse. Trends in Ecology and Evolution, 13, 4, 151-156. 10.1016/S0169-5347(97)01277-9
1998 Cooper, A. & Fortey, R. (1998). Shortening the phylogenetic fuse - Reply. TRENDS IN ECOLOGY & EVOLUTION, 13, 8, 323-324. 10.1016/S0169-5347(98)01409-8
1998 Fortey, R. & Cooper, A. (1998). Trace fossils and the Cambrian explosion - Reply. TRENDS IN ECOLOGY & EVOLUTION, 13, 12, 508-508. 10.1016/S0169-5347(98)01516-X
1997 Weber, B., Guo, X., Wraith, J., Cooper, A., Kleijer, W., Bunge, S. & Hopwood, J. (1997). Novel Mutations in Sanfilippo A Syndrome : Implications For Enzyme Function. Human Molecular Genetics, 6, 9, 1573-1579. 10.1093/hmg/6.9.1573
1997 Cooper, A., Beraud-Colomb, E., Roubin, R., Martin, J., Maroc, N., Gardeisen, A. ... Goossens, M. (1997). Reply to Stoneking: Ancient DNA - How do you really know when you have it? [4]. American Journal of Human Genetics, 60, 4, 1001-1003.
1997 Worthy, T., Holdaway, R., Sorenson, M. & Cooper, A. (1997). Description of the first complete skeleton of the extinct New Zealand goose Cnemiornis calcitrans (Aves: Anatidae), and a reassessment of the relationships of Cnemiornis. Journal of Zoology, 243, 4, 695-723.
1997 Cooper, A., Poinar, H., Paabo, S., Radovcic, J., Debenath, A., Caparros, M. ... Clark, G. (1997). Neandertal genetics [2] (multiple letters). Science, 277, 5329, 1021-1025. 10.1126/science.277.5329.1021
1997 Cooper, A. & Penny, D. (1997). Mass survival of birds across the Cretaceous-tertiary boundary: Molecular evidence. Science, 275, 5303, 1109-1113. 10.1126/science.275.5303.1109
1996 Hickson, R., Simon, C., Cooper, A., Spicer, G., Sullivan, J. & Penny, D. (1996). Conserved sequence motifs, alignment, and secondary structure for the third domain of animal 12S rRNA. Molecular Biology and Evolution, 13, 1, 150-169. 10.1093/oxfordjournals.molbev.a025552
1996 Steel, M., Cooper, A. & Penny, D. (1996). Confidence intervals for the divergence time of two clades. Systematic Biology, 45, 2, 127-133. 10.2307/2413610
1996 Cooper, A., Rhymer, J., James, H., Olson, S., McIntosh, C., Sorenson, M. & Fleischer, R. (1996). Ancient DNA and island endemics. Nature, 381, 6582, 484-. 10.1038/381484a0
1996 Fairbairn, L., Lashford, L., Spooncer, E., McDermott, R., Lebens, G., Arrand, J. ... Dexter, T. (1996). Long-term in vitro correction of alpha-L-iduronidase deficiency (Hurler syndrome) in human bone marrow. Proceedings of the National Academy of Sciences of the United States of America, 93, 5, 2025-2030. 10.1073/pnas.93.5.2025
1995 Cooper, A. & Cooper, R. (1995). The oligocene bottleneck and New Zealand biota: Genetic record of a past environmental crisis. Proceedings of the Royal Society B: Biological Sciences, 261, 1362, 293-302. 10.1098/rspb.1995.0150
1994 Cooper, A. (1994). Ancient DNA sequences reveal unsuspected phylogenetic relationships within New Zealand wrens (Acanthisittidae). Experientia, 50, 6, 558-563. 10.1007/BF01921725
1993 Cooper, A., Atkinson, I., Lee, W. & Worthy, T. (1993). Evolution of the moa and their effect on the New Zealand flora. Trends in Ecology and Evolution, 8, 12, 433-437. 10.1016/0169-5347(93)90005-A
1992 Cooper, A., Mourer-Chauviré, C., Chambers, G., Von Haeseler, A., Wilson, A. & Páábo, S. (1992). Independent origins of New Zealand moas and kiwis. Proceedings of the National Academy of Sciences of the United States of America, 89, 18, 8741-8744. 10.1073/pnas.89.18.8741

Book Chapters

Year Citation
2001 Cooper, A., Grassly, N. & Rambaut, A. (2001). Using molecular data to estimate divergence times. In Palaeobiology II (pp. 532-534). Abington, Oxon: Blackwell Science Ltd. 10.1002/9780470999295ch.132
1994 Cooper, A. (1994). Ancient DNA from Museum Specimens. In B. Herrman & S. Hummel (Eds.), Ancient DNA: recovery and analysis of genetic materials from paleontological, archeological, museum, medical, and forensic specimens Springer Verlag.

Conference Papers

Year Citation
2015 Mathieson, I., Haak, W., Patterson, N., Mallick, S., Llamas, B., Rohland, N. ... Reich, D. (2015). Phenotypic inference from ancient DNA. 84th Annual Meeting of the American-Association-of-Physical-Anthropologists. St Louis, MO.
2014 Nguyen, L. V., Warren-Smith, S. C., Cooper, A. & Monro, T. M. (2014). Interferometric fiber sensor using exposed core microstructured optical fiber for refractive index based biochemical sensing. 23rd International Conference on Optical Fibre Sensors. J. M. LopezHiguera, J. Jones, M. LopezAmo & J. L. Santos (Eds.) Santander, Spain. 10.1117/12.2059155
2014 Huang, Y. T., Lowe, D., Churchman, G. J., Schipper, L. A., Rawlence, N. & Cooper, A. (2014). Carbon storage and DNA adsorption in allophanic soils and paleosols. Soil Carbon. Madison, WI. 10.1007/978-3-319-04084-4_17
2009 Parida, L., Javed, A., Melé, M., Calafell, F. & Bertranpetit, J. (2009). Minimizing recombinations in consensus networks for phylogeographic studies. 9th Asia Pacific Bioinformatics Conference. Tsinghua Univ, Beijing, PEOPLES R CHINA. 10.1186/1471-2105-10-S1-S72
2009 Armstrong, K., Aplin, K., Donnellan, S. & Cooper, A. (2009). Linking morphological and molecular systematics using ancient DNA methods on informative museum specimens. Darwin 200 Evolution and Biodiversity. Darwin.
2003 Nielsen-Marsh, C. M., Ostrom, P. H., Gandhi, H., Shapiro, B., Cooper, A., Hauschka, P. V. ... Collins, M. J. (2003). Ancient protein sequences: A new direction for molecular palaeontology.. 225th National Meeting of the American-Chemical-Society. NEW ORLEANS, LA.

Conference Items

Year Citation
2015 Fehren-Schmitz, L., Skoglund, P., Llamas, B., Lindauer, S., Tomasto, E., Kuzminsky, S. ... Reich, D. (2015). Genome-wide data from ancient Peruvian highlanders and the Population History of South America. 84th Annual Meeting of the American-Association-of-Physical-Anthropologists. St Louis, MO.
2015 Farrer, A. G., Weyrich, L. S. & Cooper, A. (2015). Ancient DNA studies provide a basis for medical research. 2015 ASMR SA Scientific Meeting. National Wine Centre, University of Adelaide, South Australia.
2015 Miller, C., Franks, C., Breen, J., Weyrich, L., Soubrier, J., Llamas, B. ... Cooper, A. (2015). Open access to ancient human DNA: An Australian Centre for Ancient DNA (ACAD) and University Libraries collaboration. eResearch Australasia. Brisbane, Australia.
2013 Haak, W., Brotherton, P., Templeton, J., Brandt, G., Soubrier, J., Adler, C. J. ... Cooper, A. (2013). Neolithic human mitochondrial haplogroup H genomes and the genetic origins of Europeans. 82nd Annual Meeting of the American-Association-of-Physical-Anthropologists. Knoxville, TN.
2012 Nguyen, L., Warren-Smith, S., Cooper, A. & Monro, T. (2012). DNA detection using molecular beacon in soft-glass microstructured optical fibers. International Conference on Optical Fiber Sensors. Beijing, China. 10.1117/12.966847
2012 Calafell, F., Mele, M., Javed, A., Pybus, M., Zalloua, P., Haber, M. ... Parida, L. (2012). Recombination networks as genetic markers in a human variation study of the Old World.. 81st Annual Meeting of the American-Association-of-Physical-Anthropologists. Portland, OR.
2009 Campbell, K., Roberts, J., Stetefeld, J., Sloan, A., Signore, A., Howatt, J. ... Weber, R. (2009). Breathing new life into old blood: cold-adaptive evolution of woolly mammoth haemoglobin. Congress of the new European Society of Comparative Biochemistry and Physiology. Innsbruck, Austria. 10.1016/j.cbpa.2009.05.044
2007 Bray, S., Austin, J., Barnes, I., Weinstock, J., Shapiro, B. & Cooper, A. (2007). The evolution and genetic diversity of the extinct Tremarctine bears.. Conference on Australasian Vertebrate Evolution Palaeontology and Systematics. Melbourne, Vic.

Prof. Cooper has held a large number of Australian and International Research Grants, and while at Adelaide has been awarded over $15M in ARC funding for Discovery, Linkage and Fellowships. Since arriving in Adelaide he has continuously held ARC Fellowships (Federation, Future and Laureate), as well as 6 Discovery Projects, 9 Linkage Grants, and multiple LIEF grants. 

Director - Australian Centre for Ancient DNA
8313 4364
North Terrace
Darling Building
Room Number
2 09b
Org Unit
Genetics & Evolution