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IDs: 10934161 [UID] 28912828 [GenBank] 30629928 [RefSeq]
The assembly icHarAxyr1.1 is based on 53x PacBio data, 10X Genomics Chromium data, and Arima Hi-C data generated by the Darwin Tree of Life Project (https://www.darwintreeoflife.org/). The assembly process included the following sequence of steps: initial PacBio assembly generation ... with Hifiasm, retained haplotig separation with purge_dups, short-read polishing using FreeBayes-called variants from 10X Genomics Chromium reads aligned with LongRanger, and Hi-C based scaffolding with SALSA2. The mitochondrial genome was assembled using MitoHifi. Finally, the assembly was analysed and manually improved using gEVAL. Chromosome-scale scaffolds confirmed by the Hi-C data have been named in order of size. 7 curated autosomes and 1 allosome (X) curated for Harmonia axyridis. Some scaffolds remain unplaced due to repetitive content giving ambiguous HiC signal. Large cluster of rDNA sequences placed on X using HiC data only. more
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