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Amplicon library protocol for metabarcoding-based diet analysis in blue tits (Cyanistes caeruleus) using faecal DNA v1
Amplicon library protocol for metabarcoding-based diet analysis in blue tits (Cyanistes caeruleus) using faecal DNA v1
Amplicon library protocol for metabarcoding-based diet analysis in blue tits (Cyanistes caeruleus) using faecal DNA. This methodology uses a two-stage PCR method to produce amplicon libraries for sequencing on an Illumina MiSeq. Amplicons are required to be short (roughly 225-260 base pairs of target sequence, including priming sites) as the starting DNA, obtained from faeces, is highly degraded. Primers and PCR conditions are presented for three loci. These loci are: a.cytochrome oxidase subunit I (COI) - the 5’ end of the Folmer region, the standard animal barcoding gene. Targets animal (in particular invertebrate) DNA. b.16S rRNA - a second mitochondrial gene, again targeting invertebrate DNA but also amplifying avian DNA in order to identify the species producing the faeces. c.rbcL - a plastid gene, designed to target plant DNA.
Microsoft Academic Graph classification: Faecal dna Library Protocol Diet analysis Cyanistes Zoology Amplicon Biology biology.organism_classification
Microsoft Academic Graph classification: Faecal dna Library Protocol Diet analysis Cyanistes Zoology Amplicon Biology biology.organism_classification
Little, D.P. (2014). A DNA mini-barcode for land plants. Molecular Ecology Resources 14: 437- 446.
Palmieri, L., Bozza, E. & Giongo, L. (2009). Soft fruit traceability in food matrices using real-time PCR. Nutrients 1: 316-328. [OpenAIRE]
Piñol, J., San Andrés, V., Clare, E.L., Mir, G. & Symondson, W.O.C. (2014). A pragmatic approach to the analysis of diets of generalist predators: the use of next-generation sequencing with no blocking probes. Molecular Ecology Resources 14: 18-26.
citations This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).0 popularity This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.Average influence This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).Average impulse This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.Average citations This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).0 popularity This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.Average influence This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).Average impulse This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.Average
Citations provided by BIP!Popularity provided by BIP!Amplicon library protocol for metabarcoding-based diet analysis in blue tits (Cyanistes caeruleus) using faecal DNA. This methodology uses a two-stage PCR method to produce amplicon libraries for sequencing on an Illumina MiSeq. Amplicons are required to be short (roughly 225-260 base pairs of target sequence, including priming sites) as the starting DNA, obtained from faeces, is highly degraded. Primers and PCR conditions are presented for three loci. These loci are: a.cytochrome oxidase subunit I (COI) - the 5’ end of the Folmer region, the standard animal barcoding gene. Targets animal (in particular invertebrate) DNA. b.16S rRNA - a second mitochondrial gene, again targeting invertebrate DNA but also amplifying avian DNA in order to identify the species producing the faeces. c.rbcL - a plastid gene, designed to target plant DNA.