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Automated assembly of a reference taxonomy for phylogenetic data synthesis

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Taxonomy and nomenclature data are critical for any project that synthesizes biodiversity data, as most biodiversity data sets use taxonomic names to identify taxa. Open Tree of Life is one… Click to show full abstract

Taxonomy and nomenclature data are critical for any project that synthesizes biodiversity data, as most biodiversity data sets use taxonomic names to identify taxa. Open Tree of Life is one such project, synthesizing sets of published phylogenetic trees into comprehensive summary trees. No single published taxonomy met the taxonomic and nomenclatural needs of the project. Here we describe a system for reproducibly combining several source taxonomies into a synthetic taxonomy, and we discuss the challenges of taxonomic and nomenclatural synthesis for downstream biodiversity projects.

Keywords: reference taxonomy; automated assembly; biodiversity data; biodiversity; assembly reference; synthesis

Journal Title: Biodiversity Data Journal
Year Published: 2017

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