ArticleScientific data2026
A near-telomere-to-telomere genome assembly of the Chinese soft-shelled turtle (Pelodiscus sinensis).
Article in Scientific data, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.
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Abstract
Pelodiscus sinensis (Chinese soft-shelled turtle) is a freshwater species with economic and biomedical value. Here, we report a near-telomere-to-telomere (near-T2T) chromosome-level genome assembly. Using a combination of PacBio HiFi, Oxford Nanopore ultra-long reads, and Hi-C data, we assembled a 2.27 Gb genome (contig N50 = 132.52 Mb). Hi-C contact maps guided scaffolding and curation, anchoring 40 contigs to 34 chromosomes and resolving telomeres for 61 out of the 68 chromosomal ends. Gap filling and polishing yielded a chromosome-level assembly with no ambiguous bases (QV = 41.19; GC = 45.8%). BUSCO analysis indicated 97.9% completeness. Mapping rates for BGI short reads (99.4%), ONT long reads (100%), and HiFi reads (99.98%) confirm high accuracy across platforms. We annotated 21,124 protein-coding genes (97.77% functionally annotated) and 12,868 non-coding RNAs, with support from RNA-seq and full-length transcript data. Sex chromosomes (chrZ and chrW) were inferred from male-to-female depth ratios and validated using two known sex-linked SNP markers. This high-quality genome provides an essential resource for studying reptilian chromosome evolution, sex determination, and molecular breeding.
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