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

作者：Andrew Z. Ontano, Barbara Dobrin, Timothy P. L. Smith, Brian Abernathy, Jinita Sthapit Kandel, TM Shaikh, James V. Anderson, Justin N. Vaughn, Mukhlesur Raman, David P. Horvath · 发表于：Industrial Crops and Products · 年份：2024 · DOI：10.1016/j.indcrop.2024.119346 · 被引用次数：2 · 研究领域：Lipid metabolism and biosynthesis、Nitrogen and Sulfur Effects on Brassica、Genetic Mapping and Diversity in Plants and Animals

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 667,897,934 and 714,129,675 bases for C046 and Joelle, respectively. Assessment of completeness by BUSCO analysis indicated the C046 and Joelle genomes were both 99.5 complete with 98.1 % of the conserved genes being duplicated. 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.