Life Sequences

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Authors Authors and affiliations F. Failli G. Conference paper First Online: 18 June This process is experimental and the keywords may be updated as the learning algorithm improves. This is a preview of subscription content, log in to check access. Dini, G. The problem of insufficiently identified sequences: Hidden opportunities It is not uncommon for current COI metabarcode studies to only identify a fraction of the total number of sequences, operational taxonomic units, or exact sequence variants.

Supporting information. S1 Fig. S2 Fig. S3 Fig. Fully identified COI GenBank records have a global distribution that varies according to data partition. References 1. Environmental DNA metabarcoding: transforming how we survey animal and plant communities.

LIFE SEQUENCES

Mol Ecol. Porter TM, Hajibabaei M.

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Scaling up: A guide to high-throughput genomic approaches for biodiversity analysis. DNA metabarcoding for high-throughput monitoring of estuarine macrobenthic communities. Sci Rep.

Baird DJ, Hajibabaei M. Biomonitoring 2. DNA metabarcoding and morphological macroinvertebrate metrics reveal the same changes in boreal watersheds across an environmental gradient. Advancing stream macroinvertebrate community metrics as indicators of forest ecological integrity. In prep; 8. Assessing the utility of metabarcoding for diet analyses of the omnivorous wild pig Sus scrofa.

Ecol Evol. 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.


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Front Zool. Ratnasingham S, Hebert PD. Mol Ecol Notes. Nucleic Acids Res. View Article Google Scholar Automated high throughput animal CO1 metabarcode classification. Mol Ecol Resour. Freshw Sci. Comparative performances of DNA barcoding across insect orders. BMC Bioinformatics. Metaxa2 Database Builder: Enabling taxonomic identification from metagenomic or metabarcoding data using any genetic marker. In review; View Article Google Scholar Multiple-stressor effects on stream invertebrates: DNA barcoding reveals contrasting responses of cryptic mayfly species.


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  5. Ecol Indic. DNA barcoding of 18 species of Bovidae. Chin Sci Bull. Potential efficacy of mitochondrial genes for animal DNA barcoding: a case study using eutherian mammals.

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    BMC Genomics. The Bioperl toolkit: Perl modules for the life sciences. Genome Res. R Core Team. R: A language and environment for statistical computing. Approaching the taxonomic affiliation of unidentified sequences in public databases—an example from the mycorrhizal fungi. Biological identifications through DNA barcodes. Sayers EW. Ebot [Internet]. Elbrecht V, Leese F. Front Environ Sci.

    Ecological patterns are robust to use of exact sequence variants versus operational taxonomic units. Towards a unified paradigm for sequence-based identification of fungi. Arthropod Diversity in a Tropical Forest. Erwin TL. Coleopt Bull. Metabarcoding Metagenomics.

    PLoS Biol. The future of biotic indices in the ecogenomic era: Integrating e DNA metabarcoding in biological assessment of aquatic ecosystems.

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    Sci Total Environ. Nat Biotechnol.

    Methods Ecol Evol. The molecular revolution in ectomycorrhizal ecology: peeking into the black-box. Appl Environ Microbiol.

    Over million COI sequences in GenBank and growing

    Pace NR. A molecular view of microbial diversity and the biosphere. New Phytol. QIIME allows analysis of highthroughput community sequencing data. Nat Methods. Metazoan mitochondrial gene sequence reference datasets for taxonomic assignment of environmental samples. Sci Data.