Collected in Minnesota, USA in 1998. It is susceptible to all known resistant corn and common rootworm insecticides and is accepted as a standard susceptible control by all the major rootworm researchers including University researchers. Genetic studies show that for all practical purposes it is the same as the Brookings WCR population.
Next Generation Sequencing
i) Illumina Hi-C sequencing 150 bp paired end data:
828,362,098 reads and 49x coverage.
ii) PacBio HiFi data (4 smrt cells), of mean read length 11,821, total reads 5,470,381, read length N50 12,719, and total bases 64,666,931,417. Summarized in figures below. DNA was extracted using MagAttract kit at Delaware University (4000ng 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.
BUSCO scores of transcriptome assemblies and public genome annotations:
i) PGI transcriptome Assembly: C:93.1%[S:78.8%,D:14.3%],F:1.2%,M:5.7%
ii) Isoseq mRNA: C:65.1%[S:43.3%,D:21.8%],F:3.9%,M:31.0%
iii) Public genome annotated proteins: C:93.2%[S:73.7%,D:19.5%],F:4.4%,M:2.4%