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A chromosome-level genome assembly for the beet armyworm (Spodoptera exigua) using PacBio and Hi-C sequencing

By Feng Zhang, Jianpeng Zhang, Yihua Yang, Yidong Wu

Posted 28 Dec 2019
bioRxiv DOI: 10.1101/2019.12.26.889121

The beet armyworm, Spodoptera exigua (Hübner), is a worldwide, polyphagous agricultural pest feeding on vegetable, field, and flower crops. However, the lacking of genome architecture severely limits our understanding of its rapid adaptation and the development of efficient pest managements. We report a chromosome-level genome assembly using single-molecule real-time PacBio sequencing and Hi-C data. The final genome assembly was 446.80 Mb with a scaffold N50 of 14.36 Mb, and captured 97.9% complete arthropod Benchmarking Universal Single-Copy Orthologs (n=1,658). A total of 367 contigs were anchored to 32 pseudo-chromosomes, covering 96.18% (429.74 Mb) of the total genome length. We predicted 17,707 protein-coding genes, of which 81.69% were supported by transcriptome evidence and 97.94% matched the UniProt protein records. We also identified 867,102 (147.97 Mb/33.12%) repeats and 1,609 noncoding RNAs. Synteny analyses indicated a strong collinearity between three lepidopteran species. Our high-quality genome information provides a valuable resource for better understanding and management of the beet armyworm. ### Competing Interest Statement The authors have declared no competing interest.

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