DNA-based diet analysis for any predator.

<h4>Background</h4>Prey DNA from diet samples can be used as a dietary marker; yet current methods for prey detection require a priori diet knowledge and/or are designed ad hoc, limiting their scope. I present a general approach to detect diverse prey in the feces or gut contents of pred...

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Autor principal:	Glenn Dunshea
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2009
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/f29bc347600341cab8c68fe1e0634cbf
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spelling	oai:doaj.org-article:f29bc347600341cab8c68fe1e0634cbf2021-11-25T06:23:06ZDNA-based diet analysis for any predator.1932-620310.1371/journal.pone.0005252https://doaj.org/article/f29bc347600341cab8c68fe1e0634cbf2009-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/19390570/?tool=EBIhttps://doaj.org/toc/1932-6203<h4>Background</h4>Prey DNA from diet samples can be used as a dietary marker; yet current methods for prey detection require a priori diet knowledge and/or are designed ad hoc, limiting their scope. I present a general approach to detect diverse prey in the feces or gut contents of predators.<h4>Methodology/principal findings</h4>In the example outlined, I take advantage of the restriction site for the endonuclease Pac I which is present in 16S mtDNA of most Odontoceti mammals, but absent from most other relevant non-mammalian chordates and invertebrates. Thus in DNA extracted from feces of these mammalian predators Pac I will cleave and exclude predator DNA from a small region targeted by novel universal primers, while most prey DNA remain intact allowing prey selective PCR. The method was optimized using scat samples from captive bottlenose dolphins (Tursiops truncatus) fed a diet of 6-10 prey species from three phlya. Up to five prey from two phyla were detected in a single scat and all but one minor prey item (2% of the overall diet) were detected across all samples. The same method was applied to scat samples from free-ranging bottlenose dolphins; up to seven prey taxa were detected in a single scat and 13 prey taxa from eight teleost families were identified in total.<h4>Conclusions/significance</h4>Data and further examples are provided to facilitate rapid transfer of this approach to any predator. This methodology should prove useful to zoologists using DNA-based diet techniques in a wide variety of study systems.Glenn DunsheaPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 4, Iss 4, p e5252 (2009)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Glenn Dunshea DNA-based diet analysis for any predator.
description	<h4>Background</h4>Prey DNA from diet samples can be used as a dietary marker; yet current methods for prey detection require a priori diet knowledge and/or are designed ad hoc, limiting their scope. I present a general approach to detect diverse prey in the feces or gut contents of predators.<h4>Methodology/principal findings</h4>In the example outlined, I take advantage of the restriction site for the endonuclease Pac I which is present in 16S mtDNA of most Odontoceti mammals, but absent from most other relevant non-mammalian chordates and invertebrates. Thus in DNA extracted from feces of these mammalian predators Pac I will cleave and exclude predator DNA from a small region targeted by novel universal primers, while most prey DNA remain intact allowing prey selective PCR. The method was optimized using scat samples from captive bottlenose dolphins (Tursiops truncatus) fed a diet of 6-10 prey species from three phlya. Up to five prey from two phyla were detected in a single scat and all but one minor prey item (2% of the overall diet) were detected across all samples. The same method was applied to scat samples from free-ranging bottlenose dolphins; up to seven prey taxa were detected in a single scat and 13 prey taxa from eight teleost families were identified in total.<h4>Conclusions/significance</h4>Data and further examples are provided to facilitate rapid transfer of this approach to any predator. This methodology should prove useful to zoologists using DNA-based diet techniques in a wide variety of study systems.
format	article
author	Glenn Dunshea
author_facet	Glenn Dunshea
author_sort	Glenn Dunshea
title	DNA-based diet analysis for any predator.
title_short	DNA-based diet analysis for any predator.
title_full	DNA-based diet analysis for any predator.
title_fullStr	DNA-based diet analysis for any predator.
title_full_unstemmed	DNA-based diet analysis for any predator.
title_sort	dna-based diet analysis for any predator.
publisher	Public Library of Science (PLoS)
publishDate	2009
url	https://doaj.org/article/f29bc347600341cab8c68fe1e0634cbf
work_keys_str_mv	AT glenndunshea dnabaseddietanalysisforanypredator
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DNA-based diet analysis for any predator.

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