Figure 2.

Bioinformatics workflow used for genome assembly and annotation. (Left) Genome assembly: high-accuracy ccs reads that were generated from PacBio subreads and trimmed Nanopore reads were de novo assembled to create draft genomes. Contigs were selected, and chromosome names were assigned based on the P. yoelii 17X reference genome alignment. Further processing of the Nanopore + Illumina hybrid assembly involved implementing scaffolding and iterative polishing. (Right) Gene-model prediction: a Nanopore dRNA-seq-based gene model and a hybrid gene model combining both Nanopore dRNA-seq and Illumina RNA-seq data were generated using Braker2. The predicted genes were annotated using reciprocal BLAST against P. yoelii 17X proteins. Illumina RNA-seq reads were previously reported (41).