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IDs: 14794731 [UID] 38283488 [GenBank] 42490888 [RefSeq]
The assembly daSolDulc1.2 is based on 27x 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 and chloroplast genomes were assembled using MBG from PacBio HiFi reads mapping to related genomes. A representative circular sequence was selected for each from the graph based on read coverage. Finally, the primary assembly was analysed and manually improved using gEVAL. Chromosome-scale scaffolds confirmed by the Hi-C data have been named in order of size. Uncertain order and orientation of scaffolds in repetitive regions on chromosome 6 (15.6-16.5 Mbp). Chromosome 10 shows an inversion between haplotypes (41 - 44 Mbp). more
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