Key message We provide novel genomic resources for Taxus baccata in the form of a reference transcriptome, SSR and SNP markers, and orthologous single-copy genes, useful for phylogenomic and population genomic applications. Abstract English yew (T. baccata) is the only European representative of the Taxaceae family, a conifer group originated in the Jurassic period. The wide extent of environmental heterogeneity within the species’ range, together with its long presence in Europe, make English yew an ideal species to investigate adaptive evolution in conifers. To enlarge the genomic resources available for this species, we used Illumina short read sequencing followed by de novo assembly to build the transcriptome of English yew. In addition to a fully annotated transcriptome as well as large sets of new potential SSR and SNP markers for T. baccata, we provide a data set of orthologous single-copy genes across three Taxus species using Picea sitchensis as outgroup, and discuss ortholog uses and limitations for phylogenomic and population genomic applications. Keywords Transcriptome · Phylogenomics · SSR · SNP · Orthologous genes Introduction elements, transposable elements, large intron sizes, big gene families and abundance of pseudogenes as well as With c. 615 species (Farjon 2010), conifers are ecologi- polyploidy (Ahuja and Neale
Plant Molecular Biology – Springer Journals
Published: May 30, 2018
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