The Drosophila Genome Nexus: A Population Genomic Resource of 623 Drosophila melanogaster Genomes, Including 197 from a Single Ancestral Range Population

摘要: Hundreds of wild-derived Drosophila melanogaster genomes have been published, but rigorous comparisons across data sets are precluded by differences in alignment methodology. The most common approach to reference-based genome assembly is a single round followed quality filtering and variant detection. We evaluated variations extensions this settled on an strategy that utilizes two programs incorporates both substitutions short indels construct updated reference for second mapping prior final Utilizing approach, we reassembled published D. population genomic added unpublished from several sub-Saharan populations. Most notably, present aligned phase 3 the Population Genomics Project (DPGP3), which provides 197 ancestral range (from Zambia). large sample size, high genetic diversity, potentially simpler demographic history DPGP3 will make highly valuable resource fundamental research. complete set assemblies described here, termed Genome Nexus, presently comprises 623 consistently publicly available multiple formats with supporting documentation bioinformatic tools. This greatly facilitate analysis model species reducing methodological between sets.