Species detection using environmental DNA from water samples

被引:1178
作者
Ficetola, Gentile Francesco [1 ,2 ]
Miaud, Claude [2 ]
Pompanon, Francois [1 ]
Taberlet, Pierre [1 ]
机构
[1] Univ Grenoble 1, CNRS, UMR 5553, Lab Ecol Alpine, F-38041 Grenoble 09, France
[2] Univ Savoie, CNRS, UMR 5553, Lab Ecol Alpine, F-73376 Le Bourget Du Lac, France
关键词
biodiversity inventories; biological invasion; conservation genetics; DNA barcoding; secretive species;
D O I
10.1098/rsbl.2008.0118
中图分类号
Q [生物科学];
学科分类号
07 ; 0710 ; 09 ;
摘要
The assessment of species distribution is a first critical phase of biodiversity studies and is necessary to many disciplines such as biogeography, conservation biology and ecology. However, several species are difficult to detect, especially during particular time periods or developmental stages, potentially biasing study outcomes. Here we present a novel approach, based on the limited persistence of DNA in the environment, to detect the presence of a species in fresh water. We used specific primers that amplify short mitochondrial DNA sequences to track the presence of a frog (Rana catesbeiana) in controlled environments and natural wetlands. A multi-sampling approach allowed for species detection in all environments where it was present, even at low densities. The reliability of the results was demonstrated by the identification of amplified DNA fragments, using traditional sequencing and parallel pyrosequencing techniques. As the environment can retain the molecular imprint of inhabiting species, our approach allows the reliable detection of secretive organisms in wetlands without direct observation. Combined with massive sequencing and the development of DNA barcodes that enable species identification, this approach opens new perspectives for the assessment of current biodiversity from environmental samples.
引用
收藏
页码:423 / 425
页数:3
相关论文
共 23 条
[1]  
[Anonymous], 2006, R LANG ENV STAT COMP
[2]   Discordant temporal and geographic patterns in maternal lineages of eastern north American frogs, Rana catesbeiana (Ranidae) and Pseudacris crucifer (Hylidae) [J].
Austin, JD ;
Lougheed, SC ;
Boag, PT .
MOLECULAR PHYLOGENETICS AND EVOLUTION, 2004, 32 (03) :799-816
[3]   Complexity in conservation: lessons from the global decline of amphibian populations [J].
Blaustein, AR ;
Kiesecker, JM .
ECOLOGY LETTERS, 2002, 5 (04) :597-608
[4]  
Cooper A, 2000, SCIENCE, V289, P1139
[5]   Population genetics reveals origin and number of founders in a biological invasion [J].
Ficetola, Gentile Francesco ;
Bonin, Aurelie ;
Miaud, Claude .
MOLECULAR ECOLOGY, 2008, 17 (03) :773-782
[6]   Prediction and validation of the potential global distribution of a problematic alien invasive species - the American bullfrog [J].
Ficetola, Gentile Francesco ;
Thuiller, Wilfried ;
Miaud, Claude .
DIVERSITY AND DISTRIBUTIONS, 2007, 13 (04) :476-485
[7]   Pattern of distribution of the American bullfrog Rana catesbeiana in Europe [J].
Ficetola, Gentile Francesco ;
Coiec, Christophe ;
Detaint, Mathieu ;
Berroneau, Matthieu ;
Lorvelec, Olivier ;
Miaud, Claude .
BIOLOGICAL INVASIONS, 2007, 9 (07) :767-772
[8]   The emerging amphibian pathogen Batrachochytrium dendrobatidis globally infects introduced populations of the North American bullfrog, Rana catesbeiana [J].
Garner, Trenton W. J. ;
Perkins, Matthew W. ;
Govindarajulu, Purnima ;
Seglie, Daniele ;
Walker, Susan ;
Cunningham, Andrew A. ;
Fisher, Matthew C. .
BIOLOGY LETTERS, 2006, 2 (03) :455-459
[9]   Quantifying biodiversity: procedures and pitfalls in the measurement and comparison of species richness [J].
Gotelli, NJ ;
Colwell, RK .
ECOLOGY LETTERS, 2001, 4 (04) :379-391
[10]   A minimalist barcode can identify a specimen whose DNA is degraded [J].
Hajibabaei, Mehrdad ;
Smith, M. Alex ;
Janzen, Daniel H. ;
Rodriguez, Josephine J. ;
Whitfield, James B. ;
Hebert, Paul D. N. .
MOLECULAR ECOLOGY NOTES, 2006, 6 (04) :959-964