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Who is eating what: diet assessment using next generation sequencing
TLDR
The power and pitfalls of NGS diet methods are reviewed, the critical factors to take into account when choosing or designing a suitable barcode are presented and the validation of data accuracy including the viability of producing quantitative data is discussed. Expand
Quantification of damage in DNA recovered from highly degraded samples – a case study on DNA in faeces
TLDR
This study is the first to explicitly define the amount of template damage in any DNA extracted from faeces and the first of its kind to quantify the amounts of predator and prey DNA present within individual faecal samples. Expand
DNA metabarcoding and the cytochrome c oxidase subunit I marker: not a perfect match
TLDR
It is argued that COI does not contain suitably conserved regions for most amplicon-based metabarcoding applications and available marker choices should be broadened in order to maximize potential in this exciting field of research. Expand
Analysis of Australian fur seal diet by pyrosequencing prey DNA in faeces
TLDR
The pyrosequencing approach presented significantly expands the capabilities of DNA‐based methods of dietary analysis and is suitable for large‐scale diet investigations on a broad range of animals. Expand
Blocking primers to enhance PCR amplification of rare sequences in mixed samples – a case study on prey DNA in Antarctic krill stomachs
TLDR
A simple, robust and cheap method that is easily adaptable to many situations where a rare DNA template is to be PCR amplified in the presence of a higher concentration template with identical PCR primer binding sites is presented. Expand
Molecular scatology as a tool to study diet: analysis of prey DNA in scats from captive Steller sea lions
TLDR
A captive feeding trial to test whether prey DNA could be reliably detected in scat samples from Steller sea lions highlighted an approach that can accurately identify prey species and is not dependent on prey hard parts surviving digestion. Expand
Pyrosequencing faecal DNA to determine diet of little penguins: is what goes in what comes out?
TLDR
The results highlight that DNA sequences recovered in dietary barcoding studies can provide semi-quantitative information on diet composition, but these data should be given wide confidence intervals. Expand
Studying Seabird Diet through Genetic Analysis of Faeces: A Case Study on Macaroni Penguins (Eudyptes chrysolophus)
TLDR
The ability of the DNA-based approach to detect temporal variation in the diet of macaroni penguins indicates this non-invasive method will be generally useful for monitoring population-level dietary trends in seabirds. Expand
28S rDNA evolution in the Eumalacostraca and the phylogenetic position of krill.
TLDR
The phylogenetic position of one order within this class of Crustacea, the Euphausiacea, was investigated using 28S rDNA sequences from representatives of several malacostracan orders, and suggested that Euphasiacea are most closely related to the Mysida and not the Decapoda, as is generally thought. Expand
Oligonucleotide Primers for PCR Amplification of Coelomate Introns
TLDR
Seven novel oligonucleotide primer pairs for polymerase chain reaction amplification of introns from nuclear genes in coelomates were designed and tested and found to amplify introns in most cases. Expand
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