Species detection using environmental DNA from water samples.

Biology Letters
Gentile Francesco FicetolaPierre Taberlet

Abstract

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 ...Continue Reading

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Citations

Dec 19, 2009·Proceedings of the National Academy of Sciences of the United States of America·James HaileEske Willerslev
Jun 15, 2011·Proceedings of the National Academy of Sciences of the United States of America·Julien AprilLouis Bernatchez
Sep 21, 2011·Nucleic Acids Research·Tiayyba RiazEric Coissac
Jul 20, 2010·BMC Genomics·Gentile Francesco FicetolaFrançois Pompanon
Aug 23, 2011·PloS One·Tony DejeanClaude Miaud
May 9, 2012·PloS One·Teruhiko TakaharaZen'ichiro Kawabata
Sep 7, 2012·PloS One·Philip Francis ThomsenEske Willerslev
Feb 14, 2014·PloS One·Kristy Deiner, Florian Altermatt
Sep 19, 2012·Proceedings of the National Academy of Sciences of the United States of America·Cuong Q TangDiego Fontaneto
Dec 10, 2014·Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences·Mikkel Winther PedersenEske Willerslev
Aug 1, 2014·PloS One·Gregory R MoyerColin Shea
Jan 16, 2016·Environmental Science & Technology·Jessica EichmillerPeter W Sorensen
Feb 16, 2016·Molecular Ecology·Constanze HoffmannSébastien Calvignac-Spencer
Aug 27, 2015·Molecular Ecology Resources·Kimiko UchiiToshifumi Minamoto
Nov 21, 2015·Molecular Ecology·Jesse A PortRyan P Kelly
Dec 12, 2012·Trends in Ecology & Evolution·William J SutherlandAndrew R Watkinson
Apr 29, 2015·Molecular Ecology Resources·Jessica J EichmillerPeter W Sorensen
Jun 3, 2015·Molecular Ecology Resources·Nathan T EvansDavid M Lodge
Jul 13, 2012·Trends in Ecology & Evolution·Brett R ScheffersWilliam F Laurance
Aug 15, 2012·Trends in Ecology & Evolution·Daniel SimberloffMontserrat Vilà
Oct 10, 2014·Environmental Science & Technology·Lucas M NathanAndrew R Mahon
Dec 23, 2008·Trends in Ecology & Evolution·Alice ValentiniPierre Taberlet
Mar 6, 2015·Molecular Ecology Resources·Ida Baerholm SchnellM Thomas P Gilbert
Jul 16, 2015·Marine Environmental Research·Anastasija ZaikoEva Garcia-Vazquez
Sep 1, 2009·Molecular Ecology Resources·Albano Beja-PereiraGordon Luikart
May 1, 2009·Molecular Ecology Resources·Daniel H JanzenJohn J Wilson
Aug 25, 2015·The Science of the Total Environment·David LindenmayerMartin Westgate
Apr 11, 2012·Molecular Ecology·Pierre TaberletLoren H Rieseberg
Apr 11, 2012·Molecular Ecology·Nigel G Yoccoz
Apr 11, 2012·Molecular Ecology·Shadi ShokrallaMehrdad Hajibabaei
Sep 16, 2011·Molecular Ecology·Kenneth AndersenEske Willerslev

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