C. Harvey, S. Qureshi, and H. Macisaac, Detection of a colonizing, aquatic, non-indigenous species, Diversity and Distributions, vol.7, issue.3, pp.429-437, 2009.
DOI : 10.1111/j.1472-4642.2008.00550.x

A. Margurran, Measuring Biological Diversity, 2004.

S. Mehta, R. Haight, F. Homans, S. Polasky, and R. Venette, Optimal detection and control strategies for invasive species management, Ecological Economics, vol.61, issue.2-3, pp.237-245, 2007.
DOI : 10.1016/j.ecolecon.2006.10.024

D. Smith, Survey design for detecting rare freshwater mussels, Journal of the North American Benthological Society, vol.25, issue.3, pp.701-711, 2006.
DOI : 10.1899/0887-3593(2006)25[701:SDFDRF]2.0.CO;2

G. Ficetola, C. Miaud, F. Pompanon, and P. Taberlet, Species detection using environmental DNA from water samples, Biology Letters, vol.317, issue.5834, pp.423-425, 2008.
DOI : 10.1126/science.1141758
URL : https://hal.archives-ouvertes.fr/halsde-00308650

D. Mackenzie, J. Nichols, N. Sutton, K. Kawanishi, and L. Bailey, IMPROVING INFERENCES IN POPULATION STUDIES OF RARE SPECIES THAT ARE DETECTED IMPERFECTLY, Ecology, vol.86, issue.5, pp.1101-1113, 2005.
DOI : 10.1016/S0169-5347(01)02205-4

A. Valentini, F. Pompanon, and P. Taberlet, DNA barcoding for ecologists, Trends in Ecology & Evolution, vol.24, issue.2, pp.110-117, 2009.
DOI : 10.1016/j.tree.2008.09.011
URL : https://hal.archives-ouvertes.fr/halsde-00378005

N. Valiere and P. Taberlet, Urine collected in the field as a source of DNA for species and individual identification, Molecular Ecology, vol.24, issue.16, pp.2150-2152, 2000.
DOI : 10.1002/(SICI)1098-2825(1998)12:2<88::AID-JCLA3>3.3.CO;2-D
URL : https://hal.archives-ouvertes.fr/halsde-00280563

M. Détaint and C. Co?¨cco?¨c, Invasion de la Grenouille taureau (Rana catesbeiana Shaw) en France: Synthèse bibliographique -Suivi -Perspectives. Le Haillan (33): Association Cistude Nature, 2000.

C. Jerde, A. Mahon, W. Chadderton, and D. Lodge, ???Sight-unseen??? detection of rare aquatic species using environmental DNA, Conservation Letters, vol.134, issue.2, pp.150-157, 2011.
DOI : 10.1111/j.1755-263X.2010.00158.x

J. Nichols, L. Thomas, and P. Conn, Inferences About Landbird Abundance from Count Data: Recent Advances and Future Directions, Modeling Demographic Processes In Marked Populations, pp.201-235, 2009.
DOI : 10.1007/978-0-387-78151-8_9
URL : http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.172.1287

T. Garner, M. Perkins, P. Govindarajulu, D. Seglie, and S. Walker, The emerging amphibian pathogen Batrachochytrium dendrobatidis globally infects introduced populations of the North American bullfrog, Rana catesbeiana, Biology Letters, vol.39, issue.5702, pp.455-459, 2006.
DOI : 10.1126/science.1103538

Y. Une, A. Sakuma, H. Matsueda, K. Nakai, and M. Murakami, ), Japan, 2008, Emerging Infectious Diseases, vol.15, issue.7, pp.1146-1147, 2008.
DOI : 10.3201/eid1507.081636

P. Taberlet, E. Coissac, F. Pompanon, L. Gielly, and C. Miquel, Power and limitations of the chloroplast trnL (UAA) intron for plant DNA barcoding, Nucleic Acids Research, vol.35, issue.3, p.14, 2007.
DOI : 10.1093/nar/gkl938
URL : https://hal.archives-ouvertes.fr/halsde-00276494

P. Taberlet, S. Griffin, B. Goossens, S. Questiau, and V. Manceau, Reliable genotyping of samples with very low DNA quantities using PCR, Nucleic Acids Research, vol.24, issue.16, pp.3189-3194, 1996.
DOI : 10.1093/nar/24.16.3189
URL : https://hal.archives-ouvertes.fr/halsde-00281639

K. Burnham and D. Anderson, Model Selection and Multimodel Inference: A Practical Information-Theoretic Approach, 2002.
DOI : 10.1007/b97636

R. Team, R: A Language and Environment for Statistical Computing, 2010.

J. Potè, R. Ackermann, and W. Wildi, Plant leaf mass loss and DNA release in freshwater sediments, Ecotoxicology and Environmental Safety, vol.72, issue.5, pp.1378-1383, 2009.
DOI : 10.1016/j.ecoenv.2009.04.010

D. Levy-booth, R. Campbell, R. Gulden, M. Hart, and J. Powell, Cycling of extracellular DNA in the soil environment, Soil Biology and Biochemistry, vol.39, issue.12, pp.2977-2991, 2007.
DOI : 10.1016/j.soilbio.2007.06.020

B. Shapiro, Engineered polymerases amplify the potential of ancient DNA, Trends in Biotechnology, vol.26, issue.6, pp.285-287, 2008.
DOI : 10.1016/j.tibtech.2008.03.005

A. Alvarez, G. Yumet, C. Santiago, and G. Toranzos, Stability of manipulated plasmid DNA in aquatic environments, Environmental Toxicology and Water Quality, vol.11, issue.2, pp.129-135, 1996.
DOI : 10.1002/(SICI)1098-2256(1996)11:2<129::AID-TOX8>3.0.CO;2-B

K. Matsui, M. Honjo, and Z. Kawabata, Estimation of the fate of dissolved DNA in thermally stratified lake water from the stability of exogenous plasmid DNA, Aquatic Microbial Ecology, vol.26, pp.95-102, 2001.
DOI : 10.3354/ame026095

G. Romanowski, M. Lorenz, G. Sayler, and W. Wackernagel, Persistence of free plasmid DNA in soil monitored by various methods, inclding a transformation assay, Appl Environ Microb, vol.58, pp.3012-3019, 1992.

B. Zhu, Degradation of plasmid and plant DNA in water microcosms monitored by natural transformation and real-time polymerase chain reaction (PCR), Water Research, vol.40, issue.17, pp.3231-3238, 2006.
DOI : 10.1016/j.watres.2006.06.040

B. Deagle, J. Eveson, and S. Jarman, Quantification of damage in DNA recovered from highly degraded samples -a case study on DNA in faeces, Frontiers in Zoology, vol.3, issue.1, p.11, 2006.
DOI : 10.1186/1742-9994-3-11

E. Willerslev, E. Cappellini, W. Boomsma, R. Nielsen, and M. Hebsgaard, Ancient Biomolecules from Deep Ice Cores Reveal a Forested Southern Greenland, Science, vol.317, issue.5834, pp.111-114, 2007.
DOI : 10.1126/science.1141758
URL : https://hal.archives-ouvertes.fr/halsde-00276493

E. Willerslev and A. Cooper, Review Paper. Ancient DNA, Proceedings of the Royal Society B: Biological Sciences, vol.272, issue.1558, pp.3-16, 2005.
DOI : 10.1098/rspb.2004.2813

J. Ravanat, T. Douki, and J. Cadet, Direct and indirect effects of UV radiation on DNA and its components, Journal of Photochemistry and Photobiology B: Biology, vol.63, issue.1-3, pp.88-102, 2001.
DOI : 10.1016/S1011-1344(01)00206-8

I. Chen and D. Dubnau, DNA uptake during bacterial transformation, Nature Reviews Microbiology, vol.180, issue.3, pp.241-249, 2004.
DOI : 10.1016/S0966-842X(02)02314-4

G. Ficetola, E. Coissac, S. Zundel, T. Riaz, and W. Shehzad, An In silico approach for the evaluation of DNA barcodes, BMC Genomics, vol.11, issue.1, p.434, 2011.
DOI : 10.1186/1471-2164-11-434

A. Cooper and H. Poinar, Ancient DNA: Do It Right or Not at All, Science, vol.289, issue.5482, pp.1139-1139, 2000.
DOI : 10.1126/science.289.5482.1139b
URL : http://hdl.handle.net/11858/00-001M-0000-0010-0970-1