André Gomes-Dos-Santos, Elsa Froufe, John M Pfeiffer, Nathan A Johnson, Chase H Smith, André M Machado, L Filipe C Castro, Van Tu Do, Akimasa Hattori, Nicole Garrison, Nathan V Whelan, Ivan N Bolotov, Ilya V Vikhrev, Alexander V Kondakov, Mohamed Ghamizi, Vincent Prié, Arthur E Bogan, Manuel Lopes Lima
The proliferation of genomic sequencing approaches has significantly impacted the field of phylogenetics. Target capture approaches provide a cost-effective, fast and easily applied strategy for phylogenetic inference of non-model organisms. However, several existing target capture processing pipelines are incapable of incorporating whole genome sequencing (WGS). Here, we develop a new pipeline for capture and de novo assembly of the targeted regions using whole genome re-sequencing reads. This new pipeline captured targeted loci accurately, and given its unbiased nature, can be used with any target capture probe set...
April 24, 2023: Molecular Ecology Resources