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- W3118779737 abstract "Recent development of ecological studies has been fueled by the introduction of massive information based on chromosome-scale genome sequences, even for species whose genetic linkage was previously not accessible. This was enabled mainly by the application of Hi-C, a method for genome-wide chromosome conformation capture which was originally developed for investigating long-range interaction of chromatins. Performing genomic scaffolding using Hi-C data is highly resource-demanding in elaborate laboratory steps for sequencing sample preparation, building primary genome sequence assembly as an input, and computation for genome scaffolding using Hi-C data, followed by careful validation. This article summarizes existing solutions for these steps and provides a test case of its application to a reptile species, the Madagascar ground gecko (Paroedura picta). Among frequently exerted metrics for evaluating scaffolding results, we investigate the validity of completeness assessment using single-copy reference orthologs and report problems with the widely used program pipeline BUSCO." @default.
- W3118779737 created "2021-01-18" @default.
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- W3118779737 date "2021-01-03" @default.
- W3118779737 modified "2023-10-03" @default.
- W3118779737 title "Practical guide for obtaining and validating chromosome-scale genome assemblies with Hi-C scaffolding" @default.
- W3118779737 doi "https://doi.org/10.22541/au.160968142.22103947/v1" @default.
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