| dc.description.abstract | Oxford Nanopore Technologies (ONT) sequencing multiplexing offers time and
economic advantages, however the trade-off between cost-effectiveness and enough
depth of coverage for high-quality genome assembly must be considered. By
examining the correlation between depth of coverage and de novo assembly quality,
specifically in terms of contiguity and accuracy, for the mitochondrial DNA (mtDNA)
of the critically endangered Bos gaurus, this work aimed to facilitate the elucidation
of this balance. The raw ONT sequencing reads of B. gaurus mtDNA were
systematically downsampled for de novo assembly at various depths. The quality of
the produced assemblies was statistically analyzed and compared against a verified
gold standard assembly. The results showed moderate to strong links between depth of
coverage and assembly quality regarding number of small-scale deletions, base pair
accuracy, total assembly length, and NA50 length. However, metrics of contig count,
mapping rate, and genome coverage shown to be relatively consistent regardless of the
depth variation. These findings offer an invaluable guide for refining ONT sequencing
tactics that can economically multiplex without sacrificing assembly quality. | en_US |
