The unexpected depths of genome-skimming data: A case study examining Goodeniaceae floral symmetry genes.

ABSTRACT:

Premise of the study

The use of genome skimming allows systematists to quickly generate large data sets, particularly of sequences in high abundance (e.g., plastomes); however, researchers may be overlooking data in low abundance that could be used for phylogenetic or evo-devo studies. Here, we present a bioinformatics approach that explores the low-abundance portion of genome-skimming next-generation sequencing libraries in the fan-flowered Goodeniaceae.

Methods

Twenty-four previously constructed Goodeniaceae genome-skimming Illumina libraries were examined for their utility in mining low-copy nuclear genes involved in floral symmetry, specifically the CYCLOIDEA (CYC)-like genes. De novo assemblies were generated using multiple assemblers, and BLAST searches w

SUBMITTER: Berger BA 

PROVIDER: S-EPMC5664964 | biostudies-literature | 2017 Oct

REPOSITORIES: biostudies-literature