Predicting genome sizes and restriction enzyme recognition-sequence probabilities across the eukaryotic tree of life

Abstract

High-throughput sequencing of reduced representation libraries obtained through digestion with restriction enzymes – generically known as restriction-site associated DNA sequencing (RAD-seq) – is a common strategy to generate genome-wide genotypic and sequence data from eukaryotes. A critical design element of any RAD-seq study is a knowledge of the approximate number of genetic markers that can be obtained for a taxon using different restriction enzymes, as this number determines the scope of a project, and ultimately defines its success. This number can only be directly determined if a reference genome sequence is available, or it can be estimated if the genome size and restriction recognition sequence probabilities are known. However, both scenarios are uncommon for non-model species. Here, we performed systematic in silico s... Ver más...