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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

Eligible to supervise Masters and PhD — email supervisor to discuss availability.

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).

 

Appointments

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 Professor University of Adelaide
2005 - 2010 ARC Federation Fellow 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 Country Amount
2017 Award ARC Centre of Excellence for Australian Biodiversity and Heritage University of Adelaide Australia $43M
2016 Award South Australian Scientist of the Year, 2016
2016 Award Verco Medal Royal Society of South Australia Australia
2015 Fellowship ARC Laureate Fellowship University of Adelaide Australia

Education

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

Research Interests

Journals

Year Citation
2018 Boast, A., Weyrich, L., Wood, J., Metcalf, J., Knight, R., & Cooper, A. (2018). Coprolites reveal ecological interactions lost with the extinction of New Zealand birds. Proceedings of the National Academy of Sciences, 115(7), 1546-1551.
DOI Scopus2 WoS2 Europe PMC2
2018 Feigin, C., Newton, A., Doronina, L., Schmitz, J., Hipsley, C., Mitchell, K., . . . Pask, A. (2018). Genome of the Tasmanian tiger provides insights into the evolution and demography of an extinct marsupial carnivore. Nature Ecology and Evolution, 2(1), 182-192.
DOI Scopus2 WoS2 Europe PMC3
2018 Bover, P., Mitchell, K., Llamas, B., Rofes, J., Thomson, V., Cuenca-Bescós, G., . . . Pons, J. (2018). Molecular phylogenetics supports the origin of an endemic Balearic shrew lineage (Nesiotites) coincident with the Messinian Salinity Crisis. Molecular Phylogenetics and Evolution, 125, 188-195.
DOI
2018 Thomson, V., Mitchell, K., Eberhard, R., Dortch, J., Austin, J., & Cooper, A. (2018). Genetic diversity and drivers of dwarfism in extinct island emu populations. Biology Letters, 14(4), 4 pages.
DOI
2018 Sheng, G., Barlow, A., Cooper, A., Hou, X., Ji, X., Jablonski, N., . . . Lai, X. (2018). Ancient DNA from giant panda (Ailuropoda melanoleuca) of south-western China reveals genetic diversity loss during the holocene. Genes, 9(4).
DOI
2017 Czechowski, P., Clarke, L., Cooper, A., & Stevens, M. (2017). Ground-truthing Phylotype Assignments for Antarctic Invertebrates. DNA Barcodes, 5(1), 1-13.
DOI
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.
DOI Scopus1 WoS1
2017 Turney, C., Jones, R., Phipps, S., Thomas, Z., Hogg, A., Kershaw, A., . . . Cooper, A. (2017). Rapid global ocean-atmosphere response to Southern Ocean freshening during the last glacial. Nature Communications, 8(1), 520-1-520-9.
DOI Scopus2 WoS2 Europe PMC1
2017 Lipson, M., Szécsényi-Nagy, A., Mallick, S., Pósa, A., Stégmár, B., Keerl, V., . . . Reich, D. (2017). Parallel palaeogenomic transects reveal complex genetic history of early European farmers. Nature, 551(7680), 368-372.
DOI Scopus9 WoS7 Europe PMC6
2017 Eisenhofer, R., Anderson, A., Dobney, K., Cooper, A., & Weyrich, L. (2017). Ancient Microbial DNA in Dental Calculus: A New method for Studying Rapid Human Migration Events. Journal of Island and Coastal Archaeology, Online, 1-14.
DOI
2017 Wood, J., Mitchell, K., Scofield, R., De Pietri, V., Rawlence, N., & Cooper, A. (2017). Phylogenetic relationships and terrestrial adaptations of the extinct laughing owl, Sceloglaux albifacies (Aves: Strigidae). Zoological Journal of the Linnean Society, 179(4), 907-918.
DOI Scopus5 WoS5
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.
DOI WoS1
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.
DOI Scopus5 WoS6 Europe PMC2
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.
DOI Scopus2 WoS1
2017 Weyrich, L., Duchene, S., Soubrier, J., Arriola, L., Llamas, B., Breen, J., . . . Cooper, A. (2017). Neanderthal behaviour, diet, and disease inferred from ancient DNA in dental calculus. Nature, 544(7650), 357-361.
DOI Scopus23 WoS15 Europe PMC10
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.
DOI Scopus18 WoS14 Europe PMC9
2017 Nagle, N., Van Oven, M., Wilcox, S., Van Holst Pellekaan, S., Tyler-Smith, C., Xue, Y., . . . Ziegle, J. (2017). Aboriginal Australian mitochondrial genome variation - an increased understanding of population antiquity and diversity. Scientific Reports, 7, 1-12.
DOI Scopus2
2017 Llamas, B., Valverde, G., Fehren-Schmitz, L., Weyrich, L. S., Cooper, A., & Haak, W. (2017). From the field to the laboratory: Controlling DNA contamination in human ancient DNA research in the high-throughput sequencing era. STAR: Science & Technology of Archaeological Research, 3(1), 1-14.
DOI
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.
DOI Europe PMC1
2017 Eisenhofer, R., Cooper, A., & Weyrich, L. (2017). Reply to santiago-rodriguez et al.: Proper authentication of ancient DNA is essential. FEMS Microbiology Ecology, 93(5), 3 pages.
DOI Scopus1 WoS1 Europe PMC1
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.
DOI Scopus2 WoS2 Europe PMC1
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, 9 pages.
DOI Scopus4 WoS2
2016 Abdul-Aziz, M., Cooper, A., & Weyrich, L. (2016). Exploring relationships between host genome and microbiome: new insights from genome-wide association studies. Frontiers in Microbiology, 7(OCT), 1611-1-1611-9.
DOI Scopus3 WoS3 Europe PMC2
2016 Soubrier, J., Gower, G., Chen, K., Richards, S., Llamas, B., Mitchell, K., . . . Cooper, A. (2016). Early cave art and ancient DNA record the origin of European bison. Nature Communications, 7, 13158-1-13158-7.
DOI Scopus11 WoS10 Europe PMC4
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.
DOI Scopus11 WoS8
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.
DOI Scopus1
2016 Huang, Y., Lowe, D., Churchman, G., Schipper, L., 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.
DOI Scopus6 WoS5
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.
DOI Scopus6 WoS6 Europe PMC2
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. PLoS ONE, 11(6), e0155508-1-e0155508-18.
DOI Scopus2 WoS2 Europe PMC1
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.
DOI Scopus6 WoS6 Europe PMC4
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), e1501682-1-e1501682-8.
DOI Scopus17 WoS18 Europe PMC5
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.
DOI Scopus2 WoS3 Europe PMC1
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.
DOI Scopus1 Europe PMC1
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.
DOI Scopus7 WoS7 Europe PMC7
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.
DOI Scopus5 WoS5
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.
DOI Scopus25 WoS23 Europe PMC19
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.
DOI Scopus24 WoS24 Europe PMC12
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.
DOI Scopus12 WoS12 Europe PMC4
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.
DOI
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.
DOI Scopus2 WoS2
2016 Sandoval, J., Lacerda, D., Acosta, O., Jota, M., Robles-Ruiz, P., Salazar-Granara, A., . . . Schurr, T. (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.
DOI Scopus5 Europe PMC3
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.
DOI Scopus21 WoS21
2016 Llamas, B., Fehren-Schmitz, L., Valverde, G., Soubrier, J., Mallick, S., Rohland, N., . . . Haak, W. (2016). Ancient mitochondrial DNA provides high-resolution time scale of the peopling of the Americas. Science Advances, 2(4), e1501385-1-e1501385-10.
DOI Scopus59 WoS53 Europe PMC27
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.
DOI Scopus2 WoS1 Europe PMC1
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.
DOI Scopus4 WoS4
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.
DOI Scopus19 WoS17 Europe PMC9
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. Applied and Environmental Microbiology, 81(18), 6463-6473.
DOI Scopus13 WoS11 Europe PMC5
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.
DOI Scopus55 WoS54 Europe PMC25
2015 Clarke, L., Weyrich, L., & Cooper, A. (2015). Reintroduction of locally extinct vertebrates impacts arid soil fungal communities. Molecular Ecology, 24(12), 3194-3205.
DOI Scopus9 WoS8 Europe PMC3
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.
DOI Scopus5 WoS6 Europe PMC5
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.
DOI Scopus6 WoS4 Europe PMC3
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.
DOI Scopus12 WoS15
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.
DOI Scopus4 WoS5 Europe PMC1
2015 Haak, W., Lazaridis, I., Patterson, N., Rohland, N., Mallick, S., Llamas, B., . . . Reich, D. (2015). Massive migration from the steppe was a source for Indo-European languages in Europe. Nature, 522(7555), 207-211.
DOI Scopus269 WoS251 Europe PMC169
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.
DOI Scopus19 WoS18 Europe PMC13
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.
DOI Scopus10 WoS10
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.
DOI Scopus14 WoS12 Europe PMC11
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.
DOI Scopus11 WoS12 Europe PMC7
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.
DOI Scopus9 WoS8 Europe PMC3
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.
DOI Scopus5 WoS5
2015 Mathieson, I., Lazaridis, I., Rohland, N., Mallick, S., Patterson, N., Roodenberg, S., . . . Reich, D. (2015). Genome-wide patterns of selection in 230 ancient Eurasians. Nature, 528(7583), 499-503.
DOI Scopus198 WoS186 Europe PMC143
2015 Kushniarevich, A., Utevska, O., Chuhryaeva, M., Agdzhoyan, A., Dibirova, K., Uktveryte, I., . . . Balanovsky, O. (2015). Genetic heritage of the balto-slavic speaking populations: a synthesis of autosomal, mitochondrial and Y-chromosomal data. PLoS One, 10(9), e0135820-1-e0135820-19.
DOI Scopus21 Europe PMC13
2015 Weyrich, L., Dobney, K., & Cooper, A. (2015). Ancient DNA analysis of dental calculus. Journal of Human Evolution, 79, 119-124.
DOI Scopus28 WoS26 Europe PMC13
2014 Orlando, L., & Cooper, A. (2014). Using ancient DNA to understand evolutionary and ecological processes. Annual Review of Ecology, Evolution, and Systematics, 45(1), 573-598.
DOI Scopus14 WoS13
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.
DOI Scopus25 WoS25
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.
DOI Scopus11 WoS11
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.
DOI Scopus4 WoS3 Europe PMC1
2014 Vilar, M., Melendez, C., Sanders, A., Walia, A., Gaieski, J., Owings, A., . . . Ziegle, J. (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.
DOI Scopus11 Europe PMC7
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.
DOI Scopus13 Europe PMC7
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.
DOI Scopus18 WoS18 Europe PMC11
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.
DOI Scopus62 WoS59 Europe PMC6
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.
DOI Scopus6 WoS4 Europe PMC5
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.
DOI Scopus3 WoS3
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.
DOI Scopus15 WoS14 Europe PMC7
2014 Willerslev, E., Davison, J., Moora, M., Zobel, M., Coissac, E., Edwards, M., . . . Taberlet, P. (2014). Fifty thousand years of Arctic vegetation and megafaunal diet. Nature, 506(7486), 47-51.
DOI Scopus157 WoS142 Europe PMC73
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.
DOI Scopus21 WoS19 Europe PMC6
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.
DOI Scopus84 WoS79 Europe PMC47
2014 Lazaridis, I., Patterson, N., Mittnik, A., Renaud, G., Mallick, S., Kirsanow, K., . . . Romano, V. (2014). Ancient human genomes suggest three ancestral populations for present-day Europeans. Nature, 513(7518), 409-413.
DOI Scopus291 WoS273 Europe PMC224
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. PLoS One, 9(3), e93292-1-e93292-11.
DOI Scopus10 WoS8 Europe PMC5
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. PLoS One, 9(2), e87612-1-e87612-10.
DOI Scopus11 WoS4 Europe PMC7
2014 Elhaik, E., Tatarinova, T., Chebotarev, D., Piras, I., Calò, C., De Montis, A., . . . Ziegle, J. (2014). Geographic population structure analysis of worldwide human populations infers their biogeographical origins. Nature Communications, 5, 3513-1-3513-12.
DOI Scopus42 Europe PMC32
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.
DOI Scopus43 WoS41 Europe PMC31
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.
DOI Scopus16 WoS14 Europe PMC7
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. PLoS One, 9(3), e91356-1-e91356-11.
DOI Scopus12 WoS10 Europe PMC3
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.
DOI Scopus45 WoS43 Europe PMC19
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.
DOI Scopus20 WoS18 Europe PMC7
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.
DOI Scopus13 WoS15 Europe PMC12
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.
DOI Scopus19 WoS21 Europe PMC8
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.
DOI Scopus139 WoS131 Europe PMC83
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.
DOI Scopus34 WoS31 Europe PMC8
2013 Cooper, A., & Stringer, C. (2013). Did the Denisovans cross Wallace's Line?. Science, 342(6156), 321-323.
DOI Scopus26 WoS19 Europe PMC12
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.
DOI Scopus14 WoS11
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.
DOI Scopus35 Europe PMC19
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.
DOI Scopus9 WoS6
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.
DOI Scopus86 WoS75 Europe PMC56
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.
DOI Scopus22 WoS14 Europe PMC5
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.
DOI Scopus167 WoS148 Europe PMC117
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.
DOI Scopus29 WoS26 Europe PMC9
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.
DOI Scopus46 WoS22 Europe PMC29
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.
DOI Scopus42 WoS45 Europe PMC34
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.
DOI Scopus12 WoS12
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.
DOI Scopus11 WoS11 Europe PMC7
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.
DOI Scopus40 Europe PMC20
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.
DOI Scopus12 WoS10 Europe PMC4
2013 Elhaik, E., Greenspan, E., Staats, S., Krahn, T., Tyler-Smith, C., Xue, Y., . . . Ziegle, J. (2013). The GenoChip: A new tool for genetic anthropology. Genome Biology and Evolution, 5(5), 1021-1031.
DOI Scopus28 Europe PMC26
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. PLoS One, 8(1), e54616-1-e54616-11.
DOI Scopus26 WoS22 Europe PMC19
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.
DOI Scopus23 WoS20 Europe PMC18
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.
DOI Scopus19 WoS20 Europe PMC6
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.
DOI Scopus31 WoS31 Europe PMC25
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.
DOI Scopus15 WoS14 Europe PMC4
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.
DOI Scopus26 WoS25
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.
DOI Scopus42 WoS39 Europe PMC13
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.
Scopus16 WoS15
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.
DOI Scopus38 WoS32 Europe PMC29
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.
DOI Scopus30 WoS30
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.
DOI Scopus13 WoS12
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.
DOI Scopus33 WoS30 Europe PMC24
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.
DOI Scopus19 WoS17 Europe PMC5
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.
DOI WoS3
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.
DOI Scopus22 WoS20 Europe PMC17
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.
DOI WoS4 Europe PMC5
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.
DOI WoS15 Europe PMC11
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.
DOI WoS17 Europe PMC13
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.
DOI
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.
DOI WoS12 Europe PMC10
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.
DOI Scopus19 WoS19 Europe PMC15
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.
DOI
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.
DOI Scopus106 WoS89 Europe PMC54
2011 Cooper, A. (2011). Species-specific responses of Late Quaternary megafauna to climate and humans. Nature, 479(7373), 359-364.
DOI Scopus271 WoS257 Europe PMC135
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.
DOI Scopus75 WoS69 Europe PMC48
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.
DOI Scopus9 WoS9 Europe PMC4
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.
DOI Scopus42 WoS36 Europe PMC30
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.
DOI Scopus240 WoS241 Europe PMC176
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.
DOI Scopus33 WoS26 Europe PMC18
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.
DOI Scopus65 WoS54
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.
DOI Scopus29 WoS30
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.
DOI Scopus62 WoS59
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.
DOI Scopus19 WoS20 Europe PMC13
2011 Zhai, Y., Okoro, L., Cooper, A., & Winter, R. (2011). Applications of pressure perturbation calorimetry in biophysical studies. Biophysical Chemistry, 156(1), 13-23.
DOI
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.
DOI
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.
DOI
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.
DOI WoS5 Europe PMC3
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.
DOI Scopus23 WoS23 Europe PMC19
2011 Yan, S., Wang, C., Li, H., Li, S., Jin, L., Schurr, T., . . . Spencer Wells, R. (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.
DOI Scopus30 WoS36 Europe PMC27
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.
DOI Scopus30 WoS26 Europe PMC21
2011 Gaieski, J., Owings, A., Vilar, M., Dulik, M., Gaieski, D., Gittelman, R., . . . Schurr, T. (2011). Genetic ancestry and indigenous heritage in a Native American descendant community in Bermuda. American Journal of Physical Anthropology, 146(3), 392-405.
DOI WoS9 Europe PMC8
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. PLoS ONE, 6(8), 10 pages.
DOI Scopus37 WoS27 Europe PMC22
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. PLOS COMPUTATIONAL BIOLOGY, 6(11), 13 pages.
DOI WoS7 Europe PMC7
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.
DOI Scopus55 WoS53 Europe PMC40
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.
DOI
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.
DOI Scopus226 WoS205 Europe PMC136
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.
DOI Scopus12 WoS9 Europe PMC8
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.
DOI Scopus4 WoS4 Europe PMC4
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.
DOI Scopus57 WoS54 Europe PMC34
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.
DOI Scopus102 WoS97 Europe PMC39
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.
DOI Scopus116 WoS102 Europe PMC51
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.
DOI Scopus75 WoS77 Europe PMC28
2009 Decker, J., Pires, J., Conant, G., McKay, S., Heaton, M., Chen, K., . . . Taylor, J. (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.
DOI Scopus126 WoS121 Europe PMC85
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.
DOI Scopus26 WoS18 Europe PMC5
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.
DOI Scopus29 WoS25 Europe PMC5
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.
DOI Scopus6 WoS5 Europe PMC4
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.
DOI Scopus99 WoS87 Europe PMC26
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.
DOI Scopus65 WoS62 Europe PMC17
2009 Adler, C., Haak, W., & Cooper, A. (2009). Quantification of DNA in ancient human teeth. HOMO-JOURNAL OF COMPARATIVE HUMAN BIOLOGY, 60(3), 262.
DOI
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.
DOI Scopus33 WoS31 Europe PMC27
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.
DOI WoS1
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.
DOI Scopus8 WoS7 Europe PMC7
2008 Zalloua, P., Xue, Y., Khalife, J., Makhoul, N., Debiane, L., Platt, D., . . . Rosset, S. (2008). Y-chromosomal diversity in Lebanon is structured by recent historical events. American Journal of Human Genetics, 82(4), 873-882.
DOI Scopus81 WoS77 Europe PMC69
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.
DOI Scopus25 WoS22 Europe PMC18
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.
DOI Scopus72 WoS70 Europe PMC51
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.
DOI Scopus7 WoS7 Europe PMC5
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.
DOI Scopus241 WoS236 Europe PMC161
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.
DOI Scopus9 WoS9
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.
DOI Scopus1
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.
DOI Scopus13 WoS10
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.
DOI Scopus13 WoS11 Europe PMC8
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.
DOI Scopus69 WoS64
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.
DOI Scopus130 WoS117 Europe PMC81
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.
DOI Scopus55 WoS52 Europe PMC28
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.
DOI Scopus19 WoS19 Europe PMC8
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.
DOI Scopus149 WoS143 Europe PMC105
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.
DOI Scopus238 WoS228 Europe PMC98
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.
DOI Scopus189 WoS186 Europe PMC138
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.
DOI Scopus76 WoS76 Europe PMC59
2007 Larson, G., Cucchi, T., Fujita, M., Matisoo-Smith, E., Robins, J., Anderson, A., . . . Dobney, K. (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.
DOI Scopus152 WoS151 Europe PMC60
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.
WoS3
2006 Cooper, A. (2006). Using ancient DNA to analyse environmental and evolutionary change. HOMO-JOURNAL OF COMPARATIVE HUMAN BIOLOGY, 57(3), 222.
2006 Cooper, A. (2006). Using ancient DNA to study human evolution and general evolutionary processes. Australian Archaeology, 63, 80.
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.
DOI Scopus45 WoS40 Europe PMC24
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.
DOI Scopus47 WoS49
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.
DOI Scopus28 WoS26 Europe PMC21
2006 Cooper, A. (2006). The year of the mammoth. PLoS Biology, 4(3), 311-313.
DOI Scopus4 WoS5 Europe PMC3
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.
DOI Scopus2 WoS1
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.
DOI Scopus55 WoS45 Europe PMC11
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.
DOI Scopus31 WoS27
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.
DOI Scopus22 WoS16 Europe PMC12
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.
DOI WoS6
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.
DOI Scopus38 WoS40 Europe PMC23
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.
DOI Scopus68 WoS54 Europe PMC24
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.
DOI Scopus11 WoS1 Europe PMC5
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.
DOI Scopus676 WoS670 Europe PMC478
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.
DOI Scopus432 WoS409 Europe PMC259
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.
DOI Scopus91 WoS95 Europe PMC37
2005 Willerslev, E., & Cooper, A. (2005). Ancient DNA. Proceedings of the Royal Society of London Series B-Biological Sciences, 272(1558), 3-16.
DOI Scopus420 WoS391 Europe PMC144
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.
DOI Scopus58 WoS48 Europe PMC12
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.
DOI Scopus98 WoS94 Europe PMC76
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.
DOI Scopus28 WoS21 Europe PMC14
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.
DOI Scopus18 WoS17
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 (7 pages).
DOI Scopus96 WoS92 Europe PMC32
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.
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.
DOI Scopus30 WoS23 Europe PMC12
2004 Gilbert, M., Cuccui, J., White, W., Lynnerup, N., Titball, R., Cooper, A., & Prentice, M. (2004). Response to Drancourt and Raoult. MICROBIOLOGY-SGM, 150(2), 264-265.
DOI WoS5
2004 Shapiro, B., Drummond, A., Rambaut, A., Wilson, M., Matheus, P., Sher, A., . . . Cooper, A. (2004). Rise and fall of the Beringian steppe bison. Science, 306(5701), 1561-1565.
DOI Scopus416 WoS398 Europe PMC236
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.
DOI Scopus118 WoS98 Europe PMC73
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.
DOI Scopus119 WoS97 Europe PMC57
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.
DOI Scopus105 WoS98 Europe PMC74
2004 Strugnell, J., Norman, M., Drummond, A., & Cooper, A. (2004). Neotenous origins for pelagic octopuses. Current Biology, 14(8), 300-301.
DOI Scopus23 WoS17 Europe PMC6
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.
DOI Scopus78 WoS72 Europe PMC35
2004 Cooper, A., Drummond, A., & Willerslev, E. (2004). Ancient DNA: would the real Neandertal please stand up?. Current Biology, 14(11), 431-433.
DOI Scopus13 WoS10 Europe PMC4
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.
DOI Scopus54 WoS47
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.
DOI Scopus9 WoS7 Europe PMC5
2004 Prentice, M., Gilbert, T., & Cooper, A. (2004). Was the Black Death caused by Yersinia pestis?. The Lancet Infectious Diseases, 4(2), 72.
DOI Scopus22 WoS18 Europe PMC11
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.
DOI Scopus287 WoS271 Europe PMC144
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.
DOI Scopus161 WoS150 Europe PMC114
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.
DOI Scopus125 WoS112 Europe PMC51
2003 Shapiro, B., & Cooper, A. (2003). Beringia as an Ice Age genetic museum. Quaternary Research, 60(1), 94-100.
DOI Scopus19 WoS14
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.
DOI Scopus91 WoS81 Europe PMC52
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.
DOI Scopus160 WoS149 Europe PMC83
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.
DOI Scopus154 WoS135 Europe PMC83
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.
DOI WoS9
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.
DOI Scopus21 WoS18 Europe PMC9
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.
DOI Scopus109 WoS101 Europe PMC48
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.
DOI Scopus241 WoS218 Europe PMC125
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.
DOI Scopus238 WoS212 Europe PMC58
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.
DOI Scopus49 WoS49
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.
DOI Scopus295 WoS272 Europe PMC143
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.
DOI Scopus100 WoS97 Europe PMC39
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.
DOI Scopus87 WoS78 Europe PMC28
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.
DOI Scopus34 WoS35 Europe PMC23
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.
DOI Scopus47 WoS42
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.
DOI Scopus196 WoS191 Europe PMC81
2000 Cooper, A., & Poinar, H. (2000). Ancient DNA: do it right or not at all. Science, 289(5482), 1139.
DOI Scopus667 WoS646 Europe PMC364
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.
DOI Scopus70 WoS65 Europe PMC16
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.
DOI Scopus62 WoS53
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.
DOI Scopus116 WoS116 Europe PMC41
1998 Cooper, A., & Fortey, R. (1998). Shortening the phylogenetic fuse - Reply. TRENDS IN ECOLOGY & EVOLUTION, 13(8), 323-324.
DOI WoS2
1998 Fortey, R., & Cooper, A. (1998). Trace fossils and the Cambrian explosion - Reply. TRENDS IN ECOLOGY & EVOLUTION, 13(12), 508.
DOI
1998 Cooper, A., & Wayne, R. (1998). New uses for old DNA. Current Opinion in Biotechnology, 9(1), 49-53.
DOI Scopus27 WoS28 Europe PMC12
1998 Cooper, A., & Fortey, R. (1998). Evolutionary explosions and the phylogenetic fuse. Trends in Ecology and Evolution, 13(4), 151-156.
DOI Scopus123 WoS130 Europe PMC42
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.
DOI Scopus2
1998 Lee, M., Cooper, A., & Fortey, R. (1998). Shortening the phylogenetic fuse [3] (multiple letters). Trends in Ecology and Evolution, 13(8), 323-324.
DOI Scopus2
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.
Scopus22 WoS23 Europe PMC11
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.
DOI Scopus17 WoS18
1997 Cooper, A., & Penny, D. (1997). Mass survival of birds across the Cretaceous-tertiary boundary: Molecular evidence. Science, 275(5303), 1109-1113.
DOI Scopus344 WoS350 Europe PMC148
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.
DOI Scopus46 WoS43 Europe PMC34
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.
DOI Scopus30 WoS26 Europe PMC12
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.
DOI Scopus224 WoS219 Europe PMC126
1996 Steel, M., Cooper, A., & Penny, D. (1996). Confidence intervals for the divergence time of two clades. Systematic Biology, 45(2), 127-133.
DOI Scopus25 WoS28
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.
DOI Scopus69 WoS62 Europe PMC23
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.
DOI Scopus37 WoS37 Europe PMC18
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.
DOI Scopus121 WoS129 Europe PMC20
1994 Cooper, A. (1994). Ancient DNA sequences reveal unsuspected phylogenetic relationships within New Zealand wrens (Acanthisittidae). Experientia, 50(6), 558-563.
DOI Scopus15 WoS16 Europe PMC3
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.
DOI Scopus30 WoS29 Europe PMC4
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.
DOI Scopus180 WoS186 Europe PMC49

Book Chapters

Year Citation
2001 Cooper, A., Grassly, N., & Rambaut, A. (2001). Using molecular data to estimate divergence times. In Palaeobiology II (1 ed., pp. 532-534). Abington, Oxon: Blackwell Science Ltd.
DOI Scopus1
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 (pp. 263 pages). 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. In AMERICAN JOURNAL OF PHYSICAL ANTHROPOLOGY Vol. 156 (pp. 217). St Louis, MO: WILEY-BLACKWELL.
2014 Huang, Y. -T., Lowe, D., Churchman, G., Schipper, L., Rawlence, N., & Cooper, A. (2014). Carbon storage and DNA adsorption in allophanic soils and paleosols. In Proceedings of the IUSS Global Soil C Conference (pp. 163-172). Germany: Springer.
DOI WoS4
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. In J. M. LopezHiguera, J. Jones, M. LopezAmo, & J. L. Santos (Eds.), Proceedings of SPIE - The International Society for Optical Engineering Vol. 9157 (pp. 91574P-1-91574P-4). Santander, Spain: SPIE.
DOI Scopus2 WoS1
2009 Armstrong, K., Aplin, K., Donnellan, S., & Cooper, A. (2009). Linking morphological and molecular systematics using ancient DNA methods on informative museum specimens. In Proceedings of the Combined Asutralian Entomlogical Society AGM (pp. 16). Australia: Australian Entomological Society.
2009 Parida, L., Javed, A., Melé, M., Calafell, F., & Bertranpetit, J. (2009). Minimizing recombinations in consensus networks for phylogeographic studies. In BMC Bioinformatics Vol. 10 (pp. 12 pages). Tsinghua Univ, Beijing, PEOPLES R CHINA: BIOMED CENTRAL LTD.
DOI Scopus11 WoS11 Europe PMC6
2003 Nielsen-Marsh, C., Ostrom, P., Gandhi, H., Shapiro, B., Cooper, A., Hauschka, P., . . . Collins, M. (2003). Ancient protein sequences: A new direction for molecular palaeontology.. In ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY Vol. 225 (pp. U929). NEW ORLEANS, LA: AMER CHEMICAL SOC.

Conference Items

Year Citation
2017 Perry, T. J. (2017). Ancient DNA from the North American flat-headed peccary reveals it’s phylogenetic position and a genetically diverse population prior to extinction. Poster session presented at the meeting of 12th International Mammological Congress. Perth, WA.
2017 Weyrich, L., Dobney, K., & Cooper, A. (2017). Insights from Neandertals and beyond: Evolution of the hominin microbiome on a global scale. Poster session presented at the meeting of Abstracts of the 86th Annual Meeting of the American Association of Physical Anthropologists (AAPA), as published in American Journal of Physical Anthropology. New Orleans, LA: Wiley-Liss.
DOI
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. Poster session presented at the meeting of AMERICAN JOURNAL OF PHYSICAL ANTHROPOLOGY. St Louis, MO: WILEY-BLACKWELL.
2015 Farrer, A. G., Weyrich, L. S., & Cooper, A. (2015). Ancient DNA studies provide a basis for medical research. Poster session presented at the meeting of 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. Poster session presented at the meeting of Proceedings of eResearch Australasia 2016. Brisbane, Australia: eResearch Australasia.
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. Poster session presented at the meeting of AMERICAN JOURNAL OF PHYSICAL ANTHROPOLOGY. Knoxville, TN: WILEY-BLACKWELL.
2012 Nguyen, L., Warren-Smith, S., Cooper, A., & Monro, T. (2012). DNA detection using molecular beacon in soft-glass microstructured optical fibers. Poster session presented at the meeting of 22nd International Conference on Optical Fiber Sensors, Beijing. Beijing, China: SPIE-INT SOC OPTICAL ENGINEERING.
DOI Scopus1 WoS1
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.. Poster session presented at the meeting of AMERICAN JOURNAL OF PHYSICAL ANTHROPOLOGY. Portland, OR: WILEY-BLACKWELL.
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. Poster session presented at the meeting of Comparative Biochemistry and Physiology. Part A: Molecular & Integrative Physiology. Innsbruck, Austria: Elsevier.
DOI
2007 Bray, S., Austin, J., Barnes, I., Weinstock, J., Shapiro, B., & Cooper, A. (2007). The evolution and genetic diversity of the extinct Tremarctine bears.. Poster session presented at the meeting of Conference on Australasian Vertebrate Evolution Palaeontology and Systematics. Melbourne, Vic: Geological Society of Australia.

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. 

Current Higher Degree by Research Supervision (University of Adelaide)

Date Role Research Topic Program Degree Type Student Load Student Name
2018 Principal Supervisor Genomic Adaptation in Indigenous Populations of Sahul and Island Southeast Asia Master of Philosophy Master Full Time Miss Gina Lucille Guzzo
2018 Co-Supervisor Health, History and Ethics: A Multidisciplinary Study of Modern and Historical Microbial Communities in Indigenous Australians Doctor of Philosophy Doctorate Full Time Ms Matilda Handsley-Davis
2017 Co-Supervisor Low Biomass Microbiome Research in Health Doctor of Philosophy Doctorate Full Time Miss Caitlin Alyssa Selway
2017 Principal Supervisor Bioinformatics for Ancient DNA Doctor of Philosophy Doctorate Full Time Mr Graham Gower
2017 Principal Supervisor Paleo Population Genetic History of Australia and the Near East Doctor of Philosophy Doctorate Full Time Mr Matthew Williams
2017 Co-Supervisor Role of DNA Methylation in Human Adaptation to Environmental Stressors Doctor of Philosophy Doctorate Full Time Miss Marlene Taja-Moreno
2016 Co-Supervisor Human Oral Microbiome Analysis Doctor of Philosophy Doctorate Full Time Ms Emily Jean Skelly
2016 Principal Supervisor Ancient DNA of Brown Bears Doctor of Philosophy Doctorate Full Time Mr Alexander Theodore Salis
2016 Co-Supervisor Role of Epigenetic Modification and Niobium Evolution in Boind Adaption to Environmental Change Doctor of Philosophy Doctorate Full Time Ms Yichen Liu
2015 Co-Supervisor Genomic and Metagenomic Alterations and Impacts on Disease through time using Ancient DNA Doctor of Philosophy Doctorate Full Time Mr Muslihudeen Abdul-Razaq Abdul-Aziz
2015 Principal Supervisor Cereal Domestication and the Evolution of grasses Doctor of Philosophy Doctorate Full Time Mr Oscar Andres Estrada Santamaria
2015 Principal Supervisor Evolution of North American Bison Doctor of Philosophy Doctorate Full Time Ms Lindsey Erin Fenderson
2015 Co-Supervisor Analysing Ancient Oral Micro biomes for Health and Disease Doctor of Philosophy Doctorate Full Time Mr Raphael Alexandre Eisenhofer Philipona
2015 Principal Supervisor Bison Epigenomics and Phylogenomics Doctor of Philosophy Doctorate Full Time Miss Ayla Lore Van Loenen
2014 Principal Supervisor Genomic evolution of pathogenic oral microbial in homo sapiens using DNA samples from ancient and modern dental Doctor of Philosophy Doctorate Full Time Mr Luis Arriola

Past Higher Degree by Research Supervision (University of Adelaide)

Date Role Research Topic Program Degree Type Student Load Student Name
2014 - 2016 Principal Supervisor Ancient DNA of New Zealand's extinct avifauna: Using next-generation sequencing (NGS) to research the paleoecology of the megaherbivore moa (Aves: Dinornithiformes) and the phylogenetics of the enigmatic gruiform Aptornis (Aves: Aptornithidae) Master of Philosophy Master Full Time Mr Alexander Peter Boast
2013 - 2017 Principal Supervisor Ancient DNA Studies of Dental Calculus Doctor of Philosophy Doctorate Full Time Mr Andrew Graham Farrer
2013 - 2015 Principal Supervisor Methodological Challenges To Study The Nuclear Evolutionary History Of An Ancient Bison Species Master of Philosophy Master Full Time Oliver Lomax-James Wooley
2013 - 2017 Principal Supervisor Climate-Driven Ecological Changes Through the Last Glacial Period: Innovations in Plant Ancient DNA and Stable Isotope Palaeoecology Doctor of Philosophy Doctorate Full Time Mr Tim Rabanus-Wallace
2012 - 2015 Principal Supervisor Metagenomic amplicon sequencing as a rapid and high-throughput tool for aquatic biodiversity surveys Doctor of Philosophy Doctorate Full Time Miss Jennifer Shaw
2012 - 2015 Co-Supervisor Antarctic biodiversity surveys using high-throughput-sequencing: understanding landscape and communities of the Prince Charles Mountains Doctor of Philosophy Doctorate Full Time Mr Paul Czechowski
2012 - 2015 Principal Supervisor Using high-throughput DNA sequencing and molecular phylogenies to investigate the evolution and biogeography of the southern hemisphere fauna Doctor of Philosophy Doctorate Full Time Mr Kieren James Mitchell
2012 - 2015 Co-Supervisor Genetic studies on prehistoric translocations of chickens in the Indo-Pacific Doctor of Philosophy Doctorate Full Time Dr Michael James Herrera
2011 - 2016 Co-Supervisor Ancient DNA from pre-Columbian South America Doctor of Philosophy Doctorate Full Time Mr Guido Marcelo Valverde Garnica
2011 - 2014 Principal Supervisor Application of DNA metabarcoding and high-throughput sequencing for enhanced forensic soil DNA analysis Doctor of Philosophy Doctorate Full Time Miss Jennifer Young
2009 - 2012 Principal Supervisor What (molecular) time is it? Using ancient DNA to date Evolutionary Events Doctor of Philosophy Doctorate Full Time Dr Julien Soubrier
2009 - 2009 Other Amino acid racemization geochronology - contributions to the understanding of Quaternaty sea-level changes, neotectonics and coastal evolution Doctor of Science Higher Doctorate Full Time Prof Colin Murray-Wallace
2009 - 2015 Principal Supervisor Investigation and Application of Methods for Ancient DNA Research Doctor of Philosophy Doctorate Full Time Mr Steve Richards
2008 - 2012 Principal Supervisor Ancient DNA Studies of Human Evolution Doctor of Philosophy Doctorate Full Time Ms Christina Adler
2008 - 2011 Principal Supervisor Mitochondrial DNA in Ancient Human Populations of Europe Doctor of Philosophy Doctorate Full Time Miss Clio Dersarkissian
2007 - 2011 Co-Supervisor The origin and characterisation of new nuclear genes originating from a cytoplasmic organellar genome Doctor of Philosophy Doctorate Full Time Mr Andrew Henry Mark Lloyd
2007 - 2012 Principal Supervisor Ancient DNA in the Australian Context: Investigating Evolutionary and Ecological Responses to Environmental Change Doctor of Philosophy Doctorate Full Time Ms Vicki Ann Thomson
2007 - 2010 Co-Supervisor Improved Techniques for the Characterisation of Soil Organic Phosphorus Using 31P Nuclear Magnetic Resonance Spectroscopy and Their Application to Australian Soils Doctor of Philosophy Doctorate Full Time Dr Ashlea Doolette
2006 - 2010 Principal Supervisor Palaeoecology & population demographics of the extinct New Zealand moa (Aves: Dinornithiformes) Doctor of Philosophy Doctorate Full Time Mr Nicolas Rawlence
2006 - 2011 Co-Supervisor Mitochondrial DNA Analysis of the Evolution and Genetic Diversity of Ancient and Extinct Bears Doctor of Philosophy Doctorate Full Time Miss Sarah Bray
2005 - 2008 Principal Supervisor Tertiary Fossil Waterfowl (Aves: Anseriformes) of Australia and New Zealand Doctor of Philosophy Doctorate Full Time Mr Trevor Worthy
Position
Director - Australian Centre for Ancient DNA
Phone
83135950
Fax
8313 4364
Campus
North Terrace
Building
Darling Building, floor 2
Room Number
2 09b
Org Unit
Genetics & Evolution

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