Who is eating what: diet assessment using next generation sequencing

By F. Pompanon, B. Deagle, W. Symondson, David S. Brown, Simon N. Jarman, P. Taberlet. Molecular Ecology, 2012

1,128 citations recorded by the source corpus.

View Paper: https://www.semanticscholar.org/paper/70a9ecfd3f2026b3611aec48ae949ad8bac2dde0

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Citations in the corpus

The adaptive capacity of lake food webs: from individuals to ecosystems (2016, background): “Molecular techniques including DNA barcoding of gut contents provide detailed information about the makeup of predator diets and can produce more complete food webs compared to taxonomic stomach content identifi cation (Pompanon et al. 2012 , Carreon- Martinez et al. 2014 ).”
The trophodynamics of marine top predators: Current knowledge, recent advances and challenges (2015, background): “Ramos & Gonzalez-Solis (2012), Layman et al. (2012), Hopkins and Ferguson (2012), Budge et al. (2006), Parrish (2013), Masbou et al. (2013), Germain et al. (2013), Pompanon et al. (2012) Telemetry (or electronictagging) – Mapping distribution.”
Metabarcoding: A powerful tool to investigate microbial communities and shape future plant protection strategies (2017, background): “characterize the antagonist complex associated with specific insect pests (Pompanon et al., 2012; Rougerie et al., 2011; Symondson, 2002).”
Trace me if you can: the use of intrinsic biogeochemical markers in marine top predators (2012, background): “Recent DNA-based approaches potentially provide more accurate methods for precise diet reconstructions from dietary samples (eg Pompanon et al. 2011), but its potential combination with several tracers remains unexplored.”
A new versatile primer set targeting a short fragment of the mitochondrial COI region for metabarcoding metazoan diversity: application for characterizing coral reef fish gut contents (2013, background): “Nevertheless, metabarcoding is still a relatively new approach, and both methodological and analytical improvements are necessary to further expand its range of applications [7,14].”
Harbour seals target juvenile salmon of conservation concern (2017, methodology): “…diet analysis, DNA metabarcoding is applied to scat samples or the stomach contents of individual animals, and DNA sequence percentages are used as a semiquantitative measure of the relative mass of species consumed (Deagle et al. 2010; Ford et al. 2016; Jarman et al. 2013; Pompanon et al. 2012).”
A cost‐efficient and simple protocol to enrich prey DNA from extractions of predatory arthropods for large‐scale gut content analysis by Illumina sequencing (2017, methodology): “2015), they are now routinely performed on next-generation sequencing systems (Pompanon et al. 2012;Kress et al. 2015).”
Replication levels, false presences and the estimation of the presence/absence from eDNA metabarcoding data (2015, methodology): “2014), as the two real data sets analysed here, would differ from diet studies, where the main goal is to detect food items of biological importance for the animals (Pompanon et al. 2012; De Barba et al. 2014).”
Can DNA-Based Ecosystem Assessments Quantify Species Abundance? Testing Primer Bias and Biomass—Sequence Relationships with an Innovative Metabarcoding Protocol (2015, background): “An approximately 400-bp barcode lying within the standard Folmer region would be optimal for both strategies, and plenty of sequence information is available to develop group-specific primers [29,32].”
Forest without prey: livestock sustain a leopard Panthera pardus population in Pakistan (2014, methodology): “This method has several advantages over classical microscopy, which requires substantial skill and time and is prone to misidentification in the case of closely related species (Pompanon et al., 2012).”
Optimised scat collection protocols for dietary DNA metabarcoding in vertebrates (2017, background): “Dietary DNA metabarcoding uses high-throughput sequencing of small, highly variable DNA regions that survive digestion to identify food species (Pompanon et al. 2012).”
Metabarcoding reveals strong spatial structure and temporal turnover of zooplankton communities among marine and freshwater ports (2016, background): “…and Distributions, 22, 493–504, ª 2016 John Wiley & Sons Ltd influenced by technical and biological factors including PCR and primer biases, filtering thresholds, intraspecific copy number differences and the variation in cell density contributed to the initial pool of DNA (Pompanon et al., 2012).”