A novel canis lupus familiaris reference genome improves variant resolution for use in breed-specific GWAS.

ABSTRACT: Reference genome fidelity is critically important for genome wide association studies, yet most vary widely from the study population. A typical whole genome sequencing approach implies short-read technologies resulting in fragmented assemblies with regions of ambiguity. Further information is lost by economic necessity when genotyping populations, as lower resolution technologies such as genotyping arrays are commonly used. Here, we present a phased reference genome for Canis lupus familiaris using high molecular weight DNA-sequencing technologies. We tested wet laboratory and bioinformatic approaches to demonstrate a minimum workflow to generate the 2.4 gigabase genome for a Labrador Retriever. The de novo assembly required eight Oxford Nanopore R9.4 flowcells (∼23X depth) and run

SUBMITTER: Player RA 

PROVIDER: S-EPMC7898556 | biostudies-literature | 2021 Apr

REPOSITORIES: biostudies-literature