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. 2024 Aug 27;25(1):77.
doi: 10.1186/s12863-024-01261-7.

Draft genome of Roscoea Debilis, the first genome in the alpine ginger Roscoea (Zingiberaceae)

Xiao-Chang Peng #  1 , Ao-Dan Huang #  1 , Wen-Jing Wang  1 , Gui-Sheng Xiang  2 , Li Li  3   4 , Jian-Li Zhao  5
Affiliations

Draft genome of Roscoea Debilis, the first genome in the alpine ginger Roscoea (Zingiberaceae)

Xiao-Chang Peng et al. BMC Genom Data. .

Abstract

Objectives: Roscoea is a Sino-Himalayan alpine genus in pantropical family Zingiberaeae. As traditional Tibetan medicinal plants, many species of this genus are threatened by digging, logging, land clearance, grazing and climate change. Roscoea debilis is an endemic species in the Hengduan Mountains with a narrow distribution range. In this study, the assembled and annotated genome of Roscoea was presented in order to furnish significant resources for comparative and functional genomic investigations. The first complete reference genome of Roscoea is expected to shed light on research on conservation and evolutionary biology.

Data description: A chromosome-level genome of 1601.04 Mb was obtained for R. debilis by combining Illumina short reads (107.28 Gb) and PacBio Hi-Fi reads (64.08 Gb), achieving high-quality sequencing coverage of roughly 67 × and 40 ×. The assembly was additionally assisted by 271.65 Gb Hi-C data (169 ×), which resulted in a contig N50 of 136.17 Mb and a scaffold N50 of 90.48 Mb. Benchmarking Universal Single-Copy Orthologs (BUSCO) assessment results revealed that most of the core embryophyta genes (98.7%) in the BUSCO dataset (embryophyta_odb10) were successfully identified. Additionally, 96.44% of the genomic sequences were accurately mapped onto twelve pseudochromosomes.

Keywords: Roscoea; Gene prediction; Genome annotation; Hi-Fi Genome.

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Conflict of interest statement

The authors declare no competing interests.

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