Coprolites as a source of information on the genome and diet of the cave hyena

Proceedings of the Royal Society B: Biological Sciences

Volumn 279, Issue 1739, 2012, Pages 2825-2830

  Bon, Céline ^a   Berthonaud, Véronique ^a   Maksud, Frédéric ^b   Labadie, Karine ^c   Poulain, Julie ^c   Artiguenave, François ^c   Wincker, Patrick ^c   Aury, Jean Marc ^c   Elalouf, Jean Marc ^a  

^a CEA SACLAY   (France)

^b SRA   (France)

^c CENTRE NATIONAL DE SÉQUENÇAGE   (France)

Author keywords

Ancient DNA; Cervus elaphus; Crocuta crocuta; Hyaena hyaena; Mitochondrial genome

Indexed keywords

CARNIVORE; COPROLITE; DIET; FOSSIL RECORD; GENOME; MAMMAL; MITOCHONDRIAL DNA; PHYLOGENY; PLEISTOCENE;

EID: 84862130271     PISSN: 09628452     EISSN: 14712954     Source Type: Journal    
DOI: 10.1098/rspb.2012.0358     Document Type: Article

References (27)

1. Higuchi, R., Bowman, B., Freiberger, M., Ryder, O. A. & Wilson, A. C. 1984 DNA sequences from the quagga, an extinct member of the horse family. Nature 312, 282-284. (doi:10.1038/312282a0)
2. Cooper, A., Lalueza-Fox, C., Anderson, S., Rambaut, A., Austin, J. & Ward, R. 2001 Complete mitochondrial genome sequences of two extinct moas clarify ratite evolution. Nature 409, 704-707. (doi:10.1038/35055536)
3. Haddrath, O. & Baker, A. J. 2001 Complete mitochondrial DNA genome sequences of extinct birds: ratite phylogenetics and the vicariance biogeography hypothesis. Proc. R. Soc. Lond. B 268, 939-945. (doi:10.1098/rspb. 2001.1587)
4. Poinar, H. N. et al. 2006 Metagenomics to paleogenomics, large-scale sequencing of mammoth DNA. Science 311, 392-394. (doi:10.1126/science.1123360)
5. Miller, W. et al. 2008 Sequencing the nuclear genome of the extinct woolly mammoth. Nature 456, 387-390. (doi:10.1038/nature07446)
6. Green, R.E. et al. 2010 A draft sequence of the Neandertal genome. Science 328, 710-722. (doi:10.1126/science. 1188021)
7. Blow, M. J., Zhang, T., Woyke, T., Speller, C. F., Krivoshapkin, A., Yang, D. Y., Derevianko, A. & Rubin, E. M. 2008 Identification of ancient remains through genomic sequencing. Genome Res. 18, 1347-1353. (doi:10.1101/gr.076091.108)
8. Reich, D. et al. 2010 Genetic history of an archaic hominin group from Denisova Cave in Siberia. Nature 468, 1053-1060. (doi:10.1038/nature09710)
9. Poinar, H.N., Hofreiter, M., Spaulding, W.G., Martin, P.S., Stankiewicz, B. A., Bland, H., Evershed, R. P., Possnert, G. & Pääbo, S. 1998 Molecular coproscopy: dung and diet of the extinct ground sloth Nothrotheriops shastensis. Science 281, 402-406. (doi:10.1126/science.281. 5375.402)
10. Gilbert, M. T. et al. 2008 DNA from pre-Clovis human coprolites in Oregon, North America. Science 320, 786-789. (doi:10.1126/science.1154116)
11. Kurtén, B. 1968 Pleistocene mammals of Europe. London, UK: Weidenfeld & Nicholson.
12. Goldfuss, G. A. 1823 Osteologische Beiträge zur Kenntnis verschiedener Säugethiere der Vorwelt. VI. Ueber die Hölen-Hyäne (Hyaena spelaea). Nova Acta Physico-Medica Academiea Caesarae Leopoldino-Carolinae Naturae Curiosorum 3, 456-490.
13. Rohland, N., Pollack, J. L., Nagel, D., Beauval, C., Airvaux, J., Pääbo, S. & Hofreiter, M. 2005 The population history of extant and extinct hyenas. Mol. Biol. Evol. 22, 2435-2443. (doi:10.1093/molbev/msi244)
14. Fosse, P. 1997 Variabilité des assemblages osseux créés par l'hyene des caverns. Paléo 9, 15-54. (doi:10.3406/pal.1997.1227)
15. Stiller, M. et al. 2006 Patterns of nucleotide misincorporations during enzymatic amplification and direct large-scale sequencing of ancient DNA. Proc. Natl Acad. Sci. USA 103, 13 578-13 584. (doi:10.1073/pnas.0605327103)
16. Rasmussen, M. et al. 2010 Ancient human genome sequence of an extinct Palaeo-Eskimo. Nature 463, 757-762. (doi:10.1038/nature08835)
17. Bon, C. et al. 2008Deciphering the complete mitochondrial genome and phylogeny of the extinct cave bear in the Paleolithic painted cave of Chauvet. Proc. Natl Acad. Sci. USA 105, 17 447-17 452. (doi:10.1073/pnas.080614 3105)
18. Bentley, D. R. et al. 2008 Accurate whole human genome sequencing using reversible terminator chemistry. Nature 456, 53-59. (doi:10.1038/nature07517)
19. Li, R., Yu, C., Li, Y., Lam, T. W., Yiu, S. M., Kristiansen, K. &Wang, J. 2009 SOAP2: an improved ultrafast tool for short read alignment. Bioinformatics 25, 1966-1967. (doi:10.1093/bioinformatics/btp336)
20. Zhang, Z., Schwartz, S., Wagner, L. & Miller, W. 2000 A greedy algorithm for aligning DNA sequences. J. Comput. Biol. 7, 203-214. (doi:10.1089/10665270050081478)
21. Qin, J. et al. 2010 A human gut microbial gene catalogue established by metagenomic sequencing. Nature 464, 59-65. (doi:10.1038/nature08821)
22. Pontius, J. U. et al. 2007 Initial sequence and comparative analysis of the cat genome. Genome Res. 17, 1675-1689. (doi:10.1101/gr.6380007)
23. Paule, M. R. 1998 Class I genes. In Transcription of ribosomal RNA genes by eukaryotic RNA polymerase I (ed. M. R. Paule), pp. 1-8. New York, NY: Springer.
24. Johnson, W.E., Eizirik, E., Pecon-Slattery, J., Murphy, W. J., Antunes, A., Teeling, E. &O'Brien, S. J. 2006The lateMiocene radiation of modern Felidae: a genetic assessment. Science 311, 73-77. (doi:10.1126/science.1122277)
25. Lindqvist, C. et al. 2010 Complete mitochondrial genome of a Pleistocene jawbone unveils the origin of polar bear. Proc. Natl Acad. Sci. USA 107, 5053-5057. (doi:10.1073/pnas.0914266107)
26. Stuart, A. J. & Lister, A. M. 2007 Patterns of Late Quaternary megafaunal extinctions in Europe and northern Asia. Cour. Forsch. Inst. Senckenberg 259, 287-297.
27. Bon, C., Berthonaud, V., Fosse, P., Gély, B., Maksud, F., Vitalis, R., Philippe, M., van der Plicht, J. & Elalouf, J. M. 2011Lowregional diversity of late cave bearsmitochondrial DNA at the time of Chauvet Aurignacian paintings. J. Archaeol. Sci. 38, 1886-1895. (doi:10.1016/j.jas.2011. 03.033)