Publications: Haile, James
2013
Haouchar, D., Haile, J., Spencer, P.B.S. and Bunce, M. (2013) The identity of the Depuch Island rock-wallaby revealed through ancient DNA. Australian Mammalogy, 35 (1). pp. 101-106.
2012
Oskam, C.L., Allentoft, M.E., Walter, R., Scofield, R.P., Haile, J., Holdaway, R.N., Bunce, M. and Jacomb, C. (2012) Ancient DNA analyses of early archaeological sites in New Zealand reveal extreme exploitation of moa (Aves: Dinornithiformes) at all life stages. Quaternary Science Reviews, 52 . pp. 41-48.
White, N.E., Dawson, R., Coghlan, M.L., Tridico, S., Mawson, P.R., Haile, J. and Bunce, M. (2012) Application of STR markers in wildlife forensic casework involving Australian black-cockatoos (Calyptorhynchus spp.). Forensic Science International: Genetics, 6 (5). pp. 664-670.
Boessenkool, S., Epp, L.S., Haile, J., Bellemain, E.P., Edwards, M.E., Coissac, E., Willerslev, E. and Brochmann, C. (2012) Blocking human contaminant DNA during PCR allows amplification of rare mammal species from sedimentary ancient DNA. Molecular Ecology, 21 (8). pp. 1806-1815.
Yoccoz, N.G., Bråthen, K.A., Gielly, L., Haile, J., Edwards, M.E., Goslar, T., Von Stedingk, H., Brysting, A.K., Coissac, E., Pompanan, F., Sonstebo, J.H., Miquel, C., Valentini, A., De Bello, F., Chave, J, Thuiller, W., Wincker, P., Cruaud, C., Gavory, F., Rasmussen, M., Gilbert, M.T.P., Orlando, L., Brochmann, C., Willerslev, E. and Taberlet, P. (2012) DNA from soil mirrors plant taxonomic and growth form diversity. Molecular Ecology, 21 (15). pp. 3647-3655.
Coghlan, M.L., Haile, J., Houston, J., Murray, D.C., White, N.E., Moolhuijzen, P., Bellgard, M.I. and Bunce, M. (2012) Deep sequencing of plant and animal DNA contained within traditional Chinese medicines reveals legality issues and health safety concerns. PLoS Genetics, 8 (4). e1002657.
Coghlan, M.L., White, N.E., Parkinson, L., Haile, J., Spencer, P.B.S. and Bunce, M. (2012) Egg forensics: An appraisal of DNA sequencing to assist in species identification of illegally smuggled eggs. Forensic Science International: Genetics, 6 (2). pp. 268-273.
Parducci, L., Jorgensen, T., Tollefsrud, M.M., Elverland, E., Alm, T., Fontana, S.L., Bennett, K.D., Haile, J., Matetovici, I., Suyama, Y., Edwards, M.E., Andersen, K., Rasmussen, M., Boessenkool, S., Coissac, E., Brochmann, C., Taberlet, P., Houmark-Nielsen, M., Larsen, N.K., Orlando, L., Gilbert, M.T.P., Kjaer, K.H., Alsos, I.G. and Willerslev, E. (2012) Glacial survival of boreal trees in northern Scandinavia. Science, 335 (6072). pp. 1083-1086.
Murray, D.C., Pearson, S.G., Fullagar, R., Chase, B.M., Houston, J., Atchison, J., White, N.E., Bellgard, M.I., Clarke, E., Macphail, M., Gilbert, M.T.P., Haile, J. and Bunce, M. (2012) High-throughput sequencing of ancient plant and mammal DNA preserved in herbivore middens. Quaternary Science Reviews, 58 . pp. 135-145.
Jørgensen, T., Kjaer, K.H., Haile, J., Rasmussen, M., Boessenkool, S., Andersen, K., Coissac, E., Taberlet, P., Brochmann, C., Orlando, L., Gilbert, M.T.P. and Willerslev, E. (2012) Islands in the ice: detecting past vegetation on Greenlandic nunataks using historical records and sedimentary ancient DNA Meta-barcoding. Molecular Ecology, 21 (8). pp. 1980-1988.
Andersen, K., Bird, K.L., Rasmussen, M., Haile, J., Breuning-Madsen, H., Kjaer, K.H., Orlando, L., Gilbert, M.T.P. and Willerslev, E. (2012) Meta-barcoding of ‘dirt’ DNA from soil reflects vertebrate biodiversity. Molecular Ecology, 21 (8). pp. 1966-1979.
Epp, L.S., Boessenkool, S., Bellemain, E.P., Haile, J., Esposito, A., Riaz, T., Erséus, C., Gusarov, V.I, Edwards, M.E., Johnsen, A., Stenøien, H.K., Hassel, K., Kauserud, H., Yoccoz, N.G., Bråthen, K.A., Willerslev, E., Taberlet, P., Coissac, E. and Brochmann, C. (2012) New environmental metabarcodes for analysing soil DNA: potential for studying past and present ecosystems. Molecular Ecology, 21 (8). pp. 1821-1833.
Burgar, J., Haile, J., Houston, J., Murray, D., Craig, M., Stokes, V. and Bunce, M. (2012) Who’s for dinner? Determining bat dietary preferences utilising high-throughput sequencing genetic analyses. In: Ecological Society of Australia, Annual Conference, 3 - 7 December, Melbourne, Australia.
Jørgensen, T., Haile, J., Möller, P., Andreev, A., Boessenkool, S., Rasmussen, M., Kienast, F., Coissac, E., Taberlet, P., Brochmann, C., Bigelow, N.H., Andersen, K., Orlando, L., Gilbert, M.T.P. and Willerslev, E. (2012) A comparative study of ancient sedimentary DNA, pollen and macrofossils from permafrost sediments of northern Siberia reveals long-term vegetational stability. Molecular Ecology, 21 (8). pp. 1989-2003.
Allentoft, M.E., Collins, M., Harker, D., Haile, J., Oskam, C.L., Hale, M.L., Campos, P. F., Samaniego, J. A., Gilbert, T.P.M., Willerslev, E., Zhang, G., Scofield, R. P., Holdaway, R. N. and Bunce, M. (2012) The half-life of DNA in bone: measuring decay kinetics in 158 dated fossils. Proceedings of the Royal Society B: Biological Sciences, 279 (1748). pp. 4724-4733.
2011
Haile, J. (2011) Ancient DNA extraction from soils and sediments. Methods in molecular biology, 840 . pp. 57-63.
Murray, D.C., Bunce, M., Cannell, B.L., Oliver, R., Houston, J., White, N.E., Barrero, R.A., Bellgard, M.I. and Haile, J. (2011) DNA-based faecal dietary analysis: A comparison of qPCR and high throughput sequencing approaches. PloS one, 6 (10). e25776.
Oskam, C.L., Jacomb, C., Allentoft, M.E., Walter, R., Paul Scofield, R., Haile, J., Holdaway, R.N. and Bunce, M. (2011) Molecular and morphological analyses of avian eggshell excavated from a late thirteenth century earth oven. Journal of Archaeological Science, 38 (10). pp. 2589-2595.
Bjørk, A.A., Björck, S., Cronholm, A., Haile, J., Ljung, Karl and Porter, C. (2011) Possible Late Pleistocene volcanic activity on Nightingale Island, South Atlantic Ocean, based on geoelectrical resistivity measurements, sediment corings and14C dating. GFF, 133 (3-4). pp. 141-147.
Bunce, M., White, N., Allentoft, M., Oskam, C. and Haile, J. (2011) What can ancient DNA tell us about palaeoecology? Case studies from Australasia. In: Ecological Society of Australia, 2011 Annual conference, 21 - 25 November, Hobart, Australia.
2010
Oskam, C.L., Haile, J., McLay, E., Rigby, P., Allentoft, M.E., Olsen, M.E., Bengtsson, C., Miller, G.H., Schwenninger, J.L., Jacomb, C., Walter, R., Baynes, A., Dortch, J., Parker-Pearson, M., Gilbert, M.T.P., Holdaway, R.N., Willerslev, E. and Bunce, M. (2010) Fossil avian eggshell preserves ancient DNA. Proceedings of the Royal Society B: Biological Sciences, 277 (1690). pp. 1991-2000.
2009
Bunce, M., Worthy, T. H., Phillips, M. J., Holdaway, R. N., Willerslev, E., Haile, J., Shapiro, B., Scofield, R. P., Drummond, A., Kamp, P. J. J. and Cooper, A. (2009) The evolutionary history of the extinct ratite moa and New Zealand Neogene paleogeography. Proceedings of the National Academy of Sciences, 106 (49). pp. 20646-20651.
2007
Haile, J., Holdaway, R., Oliver, K., Bunce, M., Gilbert, M. T. P., Nielsen, R., Munch, K., Ho, S. Y. W., Shapiro, B. and Willerslev, E. (2007) Ancient DNA chronology within sediment deposits: Are paleobiological reconstructions possible and is DNA leaching a factor? Molecular Biology and Evolution, 24 (4). pp. 982-989.
Willerslev, E., Cappellini, E., Boomsma, W., Nielsen, R., Hebsgaard, M. B., Brand, T. B., Hofreiter, M., Bunce, M., Poinar, H. N., Dahl-Jensen, D., Johnsen, S., Steffensen, J. P., Bennike, O., Schwenninger, J.-L., Nathan, R., Armitage, S., de Hoog, C.-J., Alfimov, V., Christl, M., Beer, J., Muscheler, R., Barker, J., Sharp, M., Penkman, K. E. H., Haile, J., Taberlet, P., Gilbert, M. T. P., Casoli, A., Campani, E. and Collins, M. J. (2007) Ancient biomolecules from deep ice cores reveal a forested southern Greenland. Science, 317 (5834). pp. 111-114.
2005
Binladen, J., Wuif, C, Gilbert, M. T. P., Bunce, M., Barnett, R., Larson, G., Greenwood, A.D., Haile, J., Ho, S. Y. W., Hansen, A. J. and Willerslev, E. (2005) Assessing the fidelity of Ancient DNA sequences amplified from nuclear genes. Genetics, 172 (2). pp. 733-741.
