Multifaceted DNA metabarcoding: Validation of a noninvasive, next-generation approach to studying bat populations

Evolutionary Applications
Joel F SwiftChristine E Edwards

Abstract

As multiple species of bats are currently experiencing dramatic declines in populations due to white-nose syndrome (WNS) and other factors, conservation managers have an urgent need for data on the ecology and overall status of populations of once-common bat species. Standard approaches to obtain data on bat populations often involve capture and handling, requiring extensive expertise and unavoidably resulting in stress to the bats. New methods to rapidly obtain critical data are needed that minimize both the stress on bats and the spread of WNS. Guano provides a noninvasive source of DNA that includes information from the bat, but also dietary items, parasites, and pathogens. DNA metabarcoding is a high-throughput, DNA-based identification technique to assess the biodiversity of environmental or fecal samples. We investigated the use of multifaceted DNA metabarcoding (MDM), a technique combining next-generation DNA sequencing (NGS), DNA barcodes, and bioinformatic analysis, to simultaneously collect data on multiple parameters of interest (bat species composition, individual genotype, sex ratios, diet, parasites, and presence of WNS) from fecal samples using a single NGS run. We tested the accuracy of each MDM assay using samp...Continue Reading

References

Jun 2, 2005·Proceedings of the National Academy of Sciences of the United States of America·W John KressDaniel H Janzen
Sep 14, 2006·Frontiers in Zoology·Matthias HerrmannRalf J Sommer
Jan 23, 2008·Molecular Ecology·R A KingW O C Symondson
Sep 2, 2008·Proceedings of the National Academy of Sciences of the United States of America·Hojun SongKeith A Crandall
Dec 17, 2009·BMC Bioinformatics·Christiam CamachoThomas L Madden
Jan 30, 2010·Veterinary Pathology·F CourtinH J Van Kruiningen
Feb 3, 2011·Conservation Biology : the Journal of the Society for Conservation Biology·Janet FoleyRichard S Ostfeld
Mar 4, 2011·Nature·Anthony D BarnoskyElizabeth A Ferrer
Mar 25, 2011·Molecular Ecology Resources·Matt R K ZealeGareth Jones
Apr 1, 2011·Annals of the New York Academy of Sciences·Thomas H KunzTheodore H Fleming
Sep 1, 2009·Molecular Ecology Resources·Albano Beja-PereiraGordon Luikart
Jul 28, 2011·Molecular Ecology Resources·Coralie BertheauChristian Stauffer
Dec 17, 2011·Molecular Ecology·Francois PompanonPierre Taberlet
Apr 11, 2012·Molecular Ecology·Pierre TaberletEske Willerslev
May 8, 2013·Molecular Ecology Resources·J M KorstianD A Williams
Apr 23, 2014·Molecular Ecology Resources·Laurence J ClarkeAlan Cooper
Sep 12, 2014·Biology Letters·Bruce E DeaglePierre Taberlet
Feb 19, 2015·Nucleic Acids Research·Philippe EslingJan Pawlowski
May 8, 2015·Zootaxa·Cláudia Portes Santos, David I Gibson
May 12, 2015·Molecular Ecology Resources·Frédéric BoyerEric Coissac
Sep 8, 2015·Bulletin of Entomological Research·G-J Brandon-MongJ-J Wilson
Sep 16, 2015·Proceedings of the National Academy of Sciences of the United States of America·Josiah J Maine, Justin G Boyles
Sep 25, 2015·Molecular Ecology Resources·Marie SuezGuillaume Achaz
Nov 26, 2015·Science Advances·Gerardo CeballosTodd M Palmer
Mar 8, 2016·Applications in Plant Sciences·Charlotte C Germain-AubreyMatthew A Gitzendanner
Apr 10, 2016·Applied and Environmental Microbiology·Tuomas AiveloJukka Jernvall
Dec 3, 2016·Nucleic Acids Research·UNKNOWN NCBI Resource Coordinators

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Datasets Mentioned

BETA
PRJNA428365

Methods Mentioned

BETA
PCR
Assay
electrophoresis
genotyping
PCRs

Software Mentioned

Genodive
GNU
MDM
ngsfilter
MEGAN6 CE
BLAST
Cervus
BLASTN
OBITOOLS
MicNeSs

Related Concepts

Related Feeds

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.