Single individual, of unknown sex. A mixed sample was taken with Phyllotreta striolata from Canada in September 2020.
Next Generation Sequencing
i) Illumina Hi-C sequencing 150 bp paired end data:
852,080,958 reads and 478x coverage.
ii) PacBio HiFi data, of mean read length 10,707, total reads 392,759, read length N50 11,416, and total bases 4,205,341,306. DNA was extracted using MagAttract kit at the University of Delaware (200ng gDNA).
Non-sexed single-individual DNA used for PacBio HiFi (University of Delaware, USA) and multi-individual for Hi-C Illumina sequencing (Arima Genomics USA). Hifiasm was used to assemble the PacBio HiFi, with Juicer then 3d-dna using Hi-C data for chromosome level assembly. Haplotigs were removed (purge_haplotigs). Manual curation was done to bring the genome together and check for miss-assemblies. Unmapped reads were mapped back to the original assembly to check for missing sequence and incorporated into the final assembly Error correction was done with Hi-C data using Freebayes.
Two endosymbiont, Wolbachia (1,795,892 bp) and Spiroplasma (736,059 bp) were assembled.