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, 7 (3), 355-364

Bold: The Barcode of Life Data System (http://www.barcodinglife.org)

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Bold: The Barcode of Life Data System (http://www.barcodinglife.org)

Sujeevan Ratnasingham et al. Mol Ecol Notes.

Abstract

The Barcode of Life Data System (bold) is an informatics workbench aiding the acquisition, storage, analysis and publication of DNA barcode records. By assembling molecular, morphological and distributional data, it bridges a traditional bioinformatics chasm. bold is freely available to any researcher with interests in DNA barcoding. By providing specialized services, it aids the assembly of records that meet the standards needed to gain BARCODE designation in the global sequence databases. Because of its web-based delivery and flexible data security model, it is also well positioned to support projects that involve broad research alliances. This paper provides a brief introduction to the key elements of bold, discusses their functional capabilities, and concludes by examining computational resources and future prospects.

Figures

Fig. 1
Fig. 1
Specimen page for an individual of Macroglossus mininus (Chiroptera). 1, voucher information; 2, full taxonomy; 3, collection location; 4, collection site maps; 5, specimen images.
Fig. 2
Fig. 2
Sequence page for the same individual of Macroglossus mininus (Chiroptera). 1, specimen details; 2, sequencing details including links to trace files; 3, amino acid translation of sequence; 4, colourized barcode representation; 5, trace viewer and detailed stats on trace quality.
Fig. 3
Fig. 3
Management Console for a project assembling barcode records for the Fishes of Pacific Canada. 1, pie diagrams showing progress in analysing specimens and species; 2, status report on key specimen collaterals; 3, distribution of sequence lengths; 4, various analytical tools and access to specimen records.
Fig. 4
Fig. 4
Taxon ID tree of barcode records for North American members of the subfamily Macroglossinae (Sphingidae), showing colouration by country. 1, cover page; 2, ID tree.
Fig. 5
Fig. 5
ID page generated following submission of a COI sequence from an unidentified caterpillar. 1, taxonomic assignment; 2, sequence similarity between unknown and reference sequences; 3, link to species page; 4, ID Tree showing 100 nearest taxa.

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References

    1. Altschul SF. Basic local alignment search tool. Journal of Molecular Biology. 1990;215:403–410. - PubMed
    1. Barber P. Estimating diversity of Indo-Pacific coral reef stomatopods through DNA barcoding of stomatopod larvae. Proceedings of the Royal Society of LondonSeries B, Biological Sciences. 2006;273:2053–2061. - PMC - PubMed
    1. Blazej RG. Microfabricated bioprocessor for integrated nanoliter-scale Sanger DNA sequencing. Proceedings of the National Academy of Sciences, USA. 2006;103:7240–7245. - PMC - PubMed
    1. Eddy SR. Profile hidden Markov models. Bioinformatics. 1998;14:755–763. - PubMed
    1. Ewing B. Base-calling of automated sequencer traces using phred. 2. Error probabilities. Genome Research. 1998;8:186–194. - PubMed

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