supplemental files for Assembly and analysis of sequence from a spring and winter type Camelina sativa by whole genome PacBio HiFi technologies

Description

Abstract

Camelina sativa is an emerging oilseed crop with potential for multi-cropping with more traditional cash crops. Until very recently, the only reference genome for camelina was produced using short read technologies and was considerably fragmented. To facilitate the mapping of traits associated with vernalization requirement and freezing tolerance in an F7 recombinant inbred line (RIL) population developed by crossing a spring- and winter-biotype of camelina, we performed long read sequencing using PacBio HiFi technology. Here we report on the genome assembly and gene annotation obtained from the long read sequencing of the two parental lines. Both assemblies formed 20 chromosomal units with a genome size of 679,629,983 and 559,281,586 bases for CO46 and Joelle, respectively. Assessment of completeness by BUSCO analysis indicated the CO46 and Joelle genomes were 99.6 and 99.4% complete, respectively. However, gene annotation from the assembly of Joelle sequences indicated it had a small number of missing gene sequences compared to CO46, and this was further shown by the presence of gaps when the assemblies were aligned and compared. Skim-sequencing of the F6:7 RILs resulted in 823,142 markers that mapped to variants identified by comparisons of the parental genome sequences. These sequences provide a valuable resource for breeders seeking to improve the food and industrial attributes of camelina.